-- dump date 20120504_160152 -- class Genbank::misc_feature -- table misc_feature_note -- id note 395491000001 GAF domain; Region: GAF; cl15785 395491000002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395491000003 Histidine kinase; Region: HisKA_3; pfam07730 395491000004 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; cl00075 395491000005 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 395491000006 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491000007 putative ligand binding site [chemical binding]; other site 395491000008 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491000009 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491000010 Walker A/P-loop; other site 395491000011 ATP binding site [chemical binding]; other site 395491000012 Q-loop/lid; other site 395491000013 ABC transporter signature motif; other site 395491000014 Walker B; other site 395491000015 D-loop; other site 395491000016 H-loop/switch region; other site 395491000017 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491000018 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 395491000019 TM-ABC transporter signature motif; other site 395491000020 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 395491000021 TM-ABC transporter signature motif; other site 395491000022 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 395491000023 Strictosidine synthase; Region: Str_synth; pfam03088 395491000024 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491000025 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491000026 active site 395491000027 metal binding site [ion binding]; metal-binding site 395491000028 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395491000029 Helix-turn-helix domains; Region: HTH; cl00088 395491000030 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 395491000031 putative substrate translocation pore; other site 395491000032 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491000033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491000034 Helix-turn-helix domains; Region: HTH; cl00088 395491000035 Epoxide hydrolase N terminus; Region: EHN; pfam06441 395491000036 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395491000037 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 395491000038 Ligand binding site; other site 395491000039 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 395491000040 XdhC Rossmann domain; Region: XdhC_C; pfam13478 395491000041 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395491000042 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 395491000043 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395491000044 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 395491000045 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 395491000046 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 395491000047 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 395491000048 catalytic loop [active] 395491000049 iron binding site [ion binding]; other site 395491000050 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395491000051 Creatinine amidohydrolase; Region: Creatininase; cl00618 395491000052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491000053 Helix-turn-helix domains; Region: HTH; cl00088 395491000054 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 395491000055 dimerization interface [polypeptide binding]; other site 395491000056 NMT1/THI5 like; Region: NMT1; pfam09084 395491000057 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395491000058 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491000059 Walker A/P-loop; other site 395491000060 ATP binding site [chemical binding]; other site 395491000061 Q-loop/lid; other site 395491000062 ABC transporter signature motif; other site 395491000063 Walker B; other site 395491000064 D-loop; other site 395491000065 H-loop/switch region; other site 395491000066 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491000067 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; cl00427 395491000068 cytosine deaminase-like protein; Validated; Region: PRK07583 395491000069 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 395491000070 active site 395491000071 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395491000072 FAD binding domain; Region: FAD_binding_4; pfam01565 395491000073 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491000074 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; cl10015 395491000075 homotrimer interaction site [polypeptide binding]; other site 395491000076 putative active site [active] 395491000077 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395491000078 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 395491000079 dimerization interface [polypeptide binding]; other site 395491000080 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491000081 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491000082 dimer interface [polypeptide binding]; other site 395491000083 putative CheW interface [polypeptide binding]; other site 395491000084 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 395491000085 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 395491000086 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 395491000087 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 395491000088 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 395491000089 N-terminal plug; other site 395491000090 ligand-binding site [chemical binding]; other site 395491000091 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 395491000092 oligomeric interface; other site 395491000093 putative active site [active] 395491000094 homodimer interface [polypeptide binding]; other site 395491000095 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 395491000096 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491000097 Helix-turn-helix domains; Region: HTH; cl00088 395491000098 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491000099 Divergent AAA domain; Region: AAA_4; pfam04326 395491000100 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 395491000101 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 395491000102 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491000103 metal binding site [ion binding]; metal-binding site 395491000104 active site 395491000105 I-site; other site 395491000106 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491000107 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491000108 DNA-binding site [nucleotide binding]; DNA binding site 395491000109 FCD domain; Region: FCD; cl11656 395491000110 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 395491000111 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491000112 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491000113 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 395491000114 dimer interface [polypeptide binding]; other site 395491000115 conserved gate region; other site 395491000116 putative PBP binding loops; other site 395491000117 ABC-ATPase subunit interface; other site 395491000118 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395491000119 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 395491000120 dimer interface [polypeptide binding]; other site 395491000121 conserved gate region; other site 395491000122 putative PBP binding loops; other site 395491000123 ABC-ATPase subunit interface; other site 395491000124 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491000125 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491000126 inhibitor site; inhibition site 395491000127 active site 395491000128 dimer interface [polypeptide binding]; other site 395491000129 catalytic residue [active] 395491000130 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395491000131 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491000132 Walker A/P-loop; other site 395491000133 ATP binding site [chemical binding]; other site 395491000134 Q-loop/lid; other site 395491000135 ABC transporter signature motif; other site 395491000136 Walker B; other site 395491000137 D-loop; other site 395491000138 H-loop/switch region; other site 395491000139 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491000140 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 395491000141 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491000142 Walker A/P-loop; other site 395491000143 ATP binding site [chemical binding]; other site 395491000144 Q-loop/lid; other site 395491000145 ABC transporter signature motif; other site 395491000146 Walker B; other site 395491000147 D-loop; other site 395491000148 H-loop/switch region; other site 395491000149 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491000150 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491000151 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491000152 inhibitor site; inhibition site 395491000153 active site 395491000154 dimer interface [polypeptide binding]; other site 395491000155 catalytic residue [active] 395491000156 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395491000157 Helix-turn-helix domains; Region: HTH; cl00088 395491000158 Bacterial transcriptional regulator; Region: IclR; pfam01614 395491000159 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_2; cd08498 395491000160 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491000161 Predicted peptidase [General function prediction only]; Region: COG4099 395491000162 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 395491000163 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395491000164 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491000165 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 395491000166 dimer interface [polypeptide binding]; other site 395491000167 conserved gate region; other site 395491000168 putative PBP binding loops; other site 395491000169 ABC-ATPase subunit interface; other site 395491000170 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395491000171 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395491000172 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 395491000173 dimer interface [polypeptide binding]; other site 395491000174 conserved gate region; other site 395491000175 putative PBP binding loops; other site 395491000176 ABC-ATPase subunit interface; other site 395491000177 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395491000178 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491000179 Walker A/P-loop; other site 395491000180 ATP binding site [chemical binding]; other site 395491000181 Q-loop/lid; other site 395491000182 ABC transporter signature motif; other site 395491000183 Walker B; other site 395491000184 D-loop; other site 395491000185 H-loop/switch region; other site 395491000186 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491000187 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 395491000188 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491000189 Walker A/P-loop; other site 395491000190 ATP binding site [chemical binding]; other site 395491000191 Q-loop/lid; other site 395491000192 ABC transporter signature motif; other site 395491000193 Walker B; other site 395491000194 D-loop; other site 395491000195 H-loop/switch region; other site 395491000196 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491000197 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491000198 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395491000199 ligand binding site [chemical binding]; other site 395491000200 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491000201 Helix-turn-helix domains; Region: HTH; cl00088 395491000202 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491000203 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491000204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491000205 Helix-turn-helix domains; Region: HTH; cl00088 395491000206 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 395491000207 putative effector binding pocket; other site 395491000208 dimerization interface [polypeptide binding]; other site 395491000209 RES domain; Region: RES; cl02411 395491000210 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 395491000211 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 395491000212 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 395491000213 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 395491000214 active site 395491000215 catalytic site [active] 395491000216 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 395491000217 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491000218 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491000219 DNA binding site [nucleotide binding] 395491000220 domain linker motif; other site 395491000221 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 395491000222 putative dimerization interface [polypeptide binding]; other site 395491000223 putative ligand binding site [chemical binding]; other site 395491000224 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491000225 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 395491000226 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; cl00427 395491000227 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491000228 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491000229 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 395491000230 dimer interface [polypeptide binding]; other site 395491000231 conserved gate region; other site 395491000232 putative PBP binding loops; other site 395491000233 ABC-ATPase subunit interface; other site 395491000234 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491000235 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491000236 Walker A/P-loop; other site 395491000237 ATP binding site [chemical binding]; other site 395491000238 Q-loop/lid; other site 395491000239 ABC transporter signature motif; other site 395491000240 Walker B; other site 395491000241 D-loop; other site 395491000242 H-loop/switch region; other site 395491000243 TOBE domain; Region: TOBE_2; cl01440 395491000244 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 395491000245 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 395491000246 substrate binding [chemical binding]; other site 395491000247 active site 395491000248 Helix-turn-helix domains; Region: HTH; cl00088 395491000249 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491000250 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491000251 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491000252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000253 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491000254 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 395491000255 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 395491000256 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 395491000257 dimer interface [polypeptide binding]; other site 395491000258 conserved gate region; other site 395491000259 putative PBP binding loops; other site 395491000260 ABC-ATPase subunit interface; other site 395491000261 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491000262 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 395491000263 dimer interface [polypeptide binding]; other site 395491000264 conserved gate region; other site 395491000265 putative PBP binding loops; other site 395491000266 ABC-ATPase subunit interface; other site 395491000267 Helix-turn-helix domains; Region: HTH; cl00088 395491000268 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491000269 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491000270 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 395491000271 AP (apurinic/apyrimidinic) site pocket; other site 395491000272 DNA interaction; other site 395491000273 Metal-binding active site; metal-binding site 395491000274 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491000275 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491000276 Walker A/P-loop; other site 395491000277 ATP binding site [chemical binding]; other site 395491000278 Q-loop/lid; other site 395491000279 ABC transporter signature motif; other site 395491000280 Walker B; other site 395491000281 D-loop; other site 395491000282 H-loop/switch region; other site 395491000283 TOBE domain; Region: TOBE_2; cl01440 395491000284 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 395491000285 pantoate--beta-alanine ligase; Region: panC; TIGR00018 395491000286 Pantoate-beta-alanine ligase; Region: PanC; cd00560 395491000287 active site 395491000288 ATP-binding site [chemical binding]; other site 395491000289 pantoate-binding site; other site 395491000290 HXXH motif; other site 395491000291 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 395491000292 active site 395491000293 oligomerization interface [polypeptide binding]; other site 395491000294 metal binding site [ion binding]; metal-binding site 395491000295 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491000296 Helix-turn-helix domains; Region: HTH; cl00088 395491000297 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 395491000298 dimerization interface [polypeptide binding]; other site 395491000299 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 395491000300 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 395491000301 dimer interface [polypeptide binding]; other site 395491000302 active site 395491000303 heme binding site [chemical binding]; other site 395491000304 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 395491000305 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 395491000306 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 395491000307 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491000308 Helix-turn-helix domains; Region: HTH; cl00088 395491000309 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491000310 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 395491000311 NADP binding site [chemical binding]; other site 395491000312 dimer interface [polypeptide binding]; other site 395491000313 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 395491000314 active site 395491000315 acyl-CoA synthetase; Validated; Region: PRK07638 395491000316 AMP-binding enzyme; Region: AMP-binding; cl15778 395491000317 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395491000318 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 395491000319 dimer interface [polypeptide binding]; other site 395491000320 active site 395491000321 Uncharacterized conserved protein [Function unknown]; Region: COG2128 395491000322 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491000323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000324 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395491000325 NAD(P) binding site [chemical binding]; other site 395491000326 active site 395491000327 Cupin domain; Region: Cupin_2; cl09118 395491000328 methionine gamma-lyase; Validated; Region: PRK07049 395491000329 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 395491000330 homodimer interface [polypeptide binding]; other site 395491000331 substrate-cofactor binding pocket; other site 395491000332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491000333 catalytic residue [active] 395491000334 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 395491000335 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; cl16911 395491000336 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491000337 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491000338 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491000339 Walker A/P-loop; other site 395491000340 ATP binding site [chemical binding]; other site 395491000341 Q-loop/lid; other site 395491000342 ABC transporter signature motif; other site 395491000343 Walker B; other site 395491000344 D-loop; other site 395491000345 H-loop/switch region; other site 395491000346 TOBE domain; Region: TOBE_2; cl01440 395491000347 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 395491000348 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491000349 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 395491000350 dimer interface [polypeptide binding]; other site 395491000351 conserved gate region; other site 395491000352 putative PBP binding loops; other site 395491000353 ABC-ATPase subunit interface; other site 395491000354 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395491000355 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 395491000356 dimer interface [polypeptide binding]; other site 395491000357 conserved gate region; other site 395491000358 putative PBP binding loops; other site 395491000359 ABC-ATPase subunit interface; other site 395491000360 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491000361 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 395491000362 DAK2 domain; Region: Dak2; cl03685 395491000363 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 395491000364 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 395491000365 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491000366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000367 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491000368 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 395491000369 TM-ABC transporter signature motif; other site 395491000370 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491000371 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491000372 Walker A/P-loop; other site 395491000373 ATP binding site [chemical binding]; other site 395491000374 Q-loop/lid; other site 395491000375 ABC transporter signature motif; other site 395491000376 Walker B; other site 395491000377 D-loop; other site 395491000378 H-loop/switch region; other site 395491000379 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491000380 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 395491000381 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 395491000382 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491000383 ligand binding site [chemical binding]; other site 395491000384 dimerization interface [polypeptide binding]; other site 395491000385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000386 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 395491000387 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 395491000388 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 395491000389 dimer interface [polypeptide binding]; other site 395491000390 active site 395491000391 catalytic residue [active] 395491000392 metal binding site [ion binding]; metal-binding site 395491000393 transcriptional regulator NanR; Provisional; Region: PRK03837 395491000394 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491000395 DNA-binding site [nucleotide binding]; DNA binding site 395491000396 FCD domain; Region: FCD; cl11656 395491000397 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491000398 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; cl00047 395491000399 Helix-turn-helix domains; Region: HTH; cl00088 395491000400 PAS domain S-box; Region: sensory_box; TIGR00229 395491000401 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491000402 putative active site [active] 395491000403 heme pocket [chemical binding]; other site 395491000404 PAS domain S-box; Region: sensory_box; TIGR00229 395491000405 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491000406 putative active site [active] 395491000407 heme pocket [chemical binding]; other site 395491000408 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491000409 Histidine kinase; Region: HisKA_2; cl06527 395491000410 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 395491000411 ATP binding site [chemical binding]; other site 395491000412 Mg2+ binding site [ion binding]; other site 395491000413 G-X-G motif; other site 395491000414 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491000415 DNA-binding site [nucleotide binding]; DNA binding site 395491000416 FCD domain; Region: FCD; cl11656 395491000417 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395491000418 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395491000419 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 395491000420 DctM-like transporters; Region: DctM; pfam06808 395491000421 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395491000422 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 395491000423 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 395491000424 putative NAD(P) binding site [chemical binding]; other site 395491000425 catalytic Zn binding site [ion binding]; other site 395491000426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491000427 DNA-binding site [nucleotide binding]; DNA binding site 395491000428 FCD domain; Region: FCD; cl11656 395491000429 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491000430 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491000431 inhibitor site; inhibition site 395491000432 active site 395491000433 dimer interface [polypeptide binding]; other site 395491000434 catalytic residue [active] 395491000435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000436 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395491000437 Helix-turn-helix domains; Region: HTH; cl00088 395491000438 AsnC family; Region: AsnC_trans_reg; pfam01037 395491000439 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 395491000440 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 395491000441 active site 395491000442 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395491000443 dimer interface [polypeptide binding]; other site 395491000444 substrate binding site [chemical binding]; other site 395491000445 catalytic residues [active] 395491000446 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395491000447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000449 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491000450 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491000451 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395491000452 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395491000453 metal binding site [ion binding]; metal-binding site 395491000454 putative dimer interface [polypeptide binding]; other site 395491000455 allantoate amidohydrolase; Reviewed; Region: PRK12890 395491000456 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395491000457 active site 395491000458 metal binding site [ion binding]; metal-binding site 395491000459 dimer interface [polypeptide binding]; other site 395491000460 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 395491000461 catalytic residue [active] 395491000462 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491000463 Helix-turn-helix domains; Region: HTH; cl00088 395491000464 AsnC family; Region: AsnC_trans_reg; pfam01037 395491000465 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 395491000466 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 395491000467 inhibitor-cofactor binding pocket; inhibition site 395491000468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491000469 catalytic residue [active] 395491000470 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 395491000471 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 395491000472 non-specific DNA binding site [nucleotide binding]; other site 395491000473 salt bridge; other site 395491000474 sequence-specific DNA binding site [nucleotide binding]; other site 395491000475 Cupin domain; Region: Cupin_2; cl09118 395491000476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000477 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 395491000478 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395491000479 TadE-like protein; Region: TadE; cl10688 395491000480 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395491000481 TadE-like protein; Region: TadE; cl10688 395491000482 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395491000483 TadE-like protein; Region: TadE; cl10688 395491000484 RNA polymerase sigma factor; Provisional; Region: PRK11922 395491000485 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491000486 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 395491000487 DNA binding residues [nucleotide binding] 395491000488 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395491000489 Domain of unknown function (DUF305); Region: DUF305; cl15795 395491000490 Protein of unknown function, DUF488; Region: DUF488; cl01246 395491000491 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491000492 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 395491000493 NAD(P) binding site [chemical binding]; other site 395491000494 catalytic residues [active] 395491000495 alpha hydroxysteroid dehydrogenase (3alpha_HSD), classical (c) SDRs; Region: 3alpha_HSD_SDR_c; cd05328 395491000496 NAD binding site [chemical binding]; other site 395491000497 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 395491000498 active site 395491000499 homodimer interface [polypeptide binding]; other site 395491000500 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395491000501 TM-ABC transporter signature motif; other site 395491000502 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395491000503 TM-ABC transporter signature motif; other site 395491000504 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395491000505 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395491000506 Walker A/P-loop; other site 395491000507 ATP binding site [chemical binding]; other site 395491000508 Q-loop/lid; other site 395491000509 ABC transporter signature motif; other site 395491000510 Walker B; other site 395491000511 D-loop; other site 395491000512 H-loop/switch region; other site 395491000513 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491000514 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395491000515 Walker A/P-loop; other site 395491000516 ATP binding site [chemical binding]; other site 395491000517 Q-loop/lid; other site 395491000518 ABC transporter signature motif; other site 395491000519 Walker B; other site 395491000520 D-loop; other site 395491000521 H-loop/switch region; other site 395491000522 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395491000523 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_4; cd06337 395491000524 putative ligand binding site [chemical binding]; other site 395491000525 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491000526 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 395491000527 NAD(P) binding site [chemical binding]; other site 395491000528 catalytic residues [active] 395491000529 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 395491000530 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491000531 sensor protein PhoQ; Provisional; Region: PRK10815 395491000532 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 395491000533 ATP binding site [chemical binding]; other site 395491000534 Mg2+ binding site [ion binding]; other site 395491000535 G-X-G motif; other site 395491000536 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491000537 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 395491000538 active site 395491000539 phosphorylation site [posttranslational modification] 395491000540 intermolecular recognition site; other site 395491000541 dimerization interface [polypeptide binding]; other site 395491000542 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 395491000543 DNA binding site [nucleotide binding] 395491000544 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 395491000545 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395491000546 cyclase homology domain; Region: CHD; cd07302 395491000547 nucleotidyl binding site; other site 395491000548 metal binding site [ion binding]; metal-binding site 395491000549 dimer interface [polypeptide binding]; other site 395491000550 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491000551 Helix-turn-helix domains; Region: HTH; cl00088 395491000552 acyl-CoA synthetase; Validated; Region: PRK09088 395491000553 AMP-binding enzyme; Region: AMP-binding; cl15778 395491000554 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491000555 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 395491000556 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 395491000557 substrate binding site [chemical binding]; other site 395491000558 oxyanion hole (OAH) forming residues; other site 395491000559 trimer interface [polypeptide binding]; other site 395491000560 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 395491000561 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 395491000562 catalytic Zn binding site [ion binding]; other site 395491000563 NAD binding site [chemical binding]; other site 395491000564 structural Zn binding site [ion binding]; other site 395491000565 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 395491000566 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 395491000567 NAD(P) binding site [chemical binding]; other site 395491000568 catalytic residues [active] 395491000569 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 395491000570 PAS fold; Region: PAS_4; pfam08448 395491000571 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491000572 putative active site [active] 395491000573 heme pocket [chemical binding]; other site 395491000574 PAS fold; Region: PAS_7; pfam12860 395491000575 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491000576 metal binding site [ion binding]; metal-binding site 395491000577 active site 395491000578 I-site; other site 395491000579 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395491000580 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 395491000581 putative molybdopterin cofactor binding site [chemical binding]; other site 395491000582 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 395491000583 putative molybdopterin cofactor binding site; other site 395491000584 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 395491000585 Helix-turn-helix domain; Region: HTH_18; pfam12833 395491000586 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 395491000587 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 395491000588 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 395491000589 putative active site [active] 395491000590 putative FMN binding site [chemical binding]; other site 395491000591 putative substrate binding site [chemical binding]; other site 395491000592 putative catalytic residue [active] 395491000593 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491000594 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 395491000595 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 395491000596 Walker A/P-loop; other site 395491000597 ATP binding site [chemical binding]; other site 395491000598 Q-loop/lid; other site 395491000599 ABC transporter signature motif; other site 395491000600 Walker B; other site 395491000601 D-loop; other site 395491000602 H-loop/switch region; other site 395491000603 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491000604 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 395491000605 dimer interface [polypeptide binding]; other site 395491000606 conserved gate region; other site 395491000607 putative PBP binding loops; other site 395491000608 ABC-ATPase subunit interface; other site 395491000609 NMT1-like family; Region: NMT1_2; cl15260 395491000610 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395491000611 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 395491000612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000613 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491000614 Helix-turn-helix domains; Region: HTH; cl00088 395491000615 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 395491000616 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 395491000617 putative active site [active] 395491000618 putative FMN binding site [chemical binding]; other site 395491000619 putative substrate binding site [chemical binding]; other site 395491000620 putative catalytic residue [active] 395491000621 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 395491000622 Ligand binding site [chemical binding]; other site 395491000623 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395491000624 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 395491000625 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 395491000626 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395491000627 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 395491000628 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 395491000629 substrate binding site [chemical binding]; other site 395491000630 catalytic Zn binding site [ion binding]; other site 395491000631 NAD binding site [chemical binding]; other site 395491000632 structural Zn binding site [ion binding]; other site 395491000633 dimer interface [polypeptide binding]; other site 395491000634 Predicted esterase [General function prediction only]; Region: COG0627 395491000635 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491000636 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491000637 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491000638 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491000639 DNA-binding site [nucleotide binding]; DNA binding site 395491000640 FCD domain; Region: FCD; cl11656 395491000641 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491000642 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491000643 inhibitor site; inhibition site 395491000644 active site 395491000645 dimer interface [polypeptide binding]; other site 395491000646 catalytic residue [active] 395491000647 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491000648 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 395491000649 NAD(P) binding site [chemical binding]; other site 395491000650 catalytic residues [active] 395491000651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000652 FAD dependent oxidoreductase; Region: DAO; pfam01266 395491000653 NMT1-like family; Region: NMT1_2; cl15260 395491000654 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395491000655 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 395491000656 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 395491000657 Walker A/P-loop; other site 395491000658 ATP binding site [chemical binding]; other site 395491000659 Q-loop/lid; other site 395491000660 ABC transporter signature motif; other site 395491000661 Walker B; other site 395491000662 D-loop; other site 395491000663 H-loop/switch region; other site 395491000664 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 395491000665 dimer interface [polypeptide binding]; other site 395491000666 conserved gate region; other site 395491000667 putative PBP binding loops; other site 395491000668 ABC-ATPase subunit interface; other site 395491000669 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 395491000670 dimer interface [polypeptide binding]; other site 395491000671 conserved gate region; other site 395491000672 ABC-ATPase subunit interface; other site 395491000673 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395491000674 Proline racemase; Region: Pro_racemase; pfam05544 395491000675 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491000676 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395491000677 conserved cys residue [active] 395491000678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491000679 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395491000680 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; cd01066 395491000681 active site 395491000682 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395491000683 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 395491000684 FAD binding pocket [chemical binding]; other site 395491000685 FAD binding motif [chemical binding]; other site 395491000686 phosphate binding motif [ion binding]; other site 395491000687 beta-alpha-beta structure motif; other site 395491000688 NAD binding pocket [chemical binding]; other site 395491000689 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 395491000690 catalytic loop [active] 395491000691 iron binding site [ion binding]; other site 395491000692 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395491000693 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395491000694 [2Fe-2S] cluster binding site [ion binding]; other site 395491000695 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 395491000696 putative alpha subunit interface [polypeptide binding]; other site 395491000697 putative active site [active] 395491000698 putative substrate binding site [chemical binding]; other site 395491000699 Fe binding site [ion binding]; other site 395491000700 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491000701 Helix-turn-helix domains; Region: HTH; cl00088 395491000702 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 395491000703 dimerization interface [polypeptide binding]; other site 395491000704 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 395491000705 putative trimer interface [polypeptide binding]; other site 395491000706 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 395491000707 trimer interface [polypeptide binding]; other site 395491000708 active site 395491000709 substrate binding site [chemical binding]; other site 395491000710 putative CoA binding site [chemical binding]; other site 395491000711 CoA binding site [chemical binding]; other site 395491000712 lactoylglutathione lyase; Region: PLN02300 395491000713 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491000714 metal binding site [ion binding]; metal-binding site 395491000715 active site 395491000716 I-site; other site 395491000717 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491000718 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; cl16911 395491000719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000720 NmrA-like family; Region: NmrA; pfam05368 395491000721 NAD(P) binding site [chemical binding]; other site 395491000722 active site 395491000723 transcriptional regulator; Provisional; Region: PRK10632 395491000724 Helix-turn-helix domains; Region: HTH; cl00088 395491000725 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 395491000726 putative effector binding pocket; other site 395491000727 dimerization interface [polypeptide binding]; other site 395491000728 Cyclophilin-like; Region: Cyclophil_like; cl00950 395491000729 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395491000730 clavulanic acid dehydrogenase (CAD), classical (c) SDR; Region: CAD_SDR_c; cd08934 395491000731 NADP binding site [chemical binding]; other site 395491000732 homotetramer interface [polypeptide binding]; other site 395491000733 homodimer interface [polypeptide binding]; other site 395491000734 active site 395491000735 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 395491000736 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 395491000737 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491000738 Helix-turn-helix domains; Region: HTH; cl00088 395491000739 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 395491000740 putative effector binding pocket; other site 395491000741 putative dimerization interface [polypeptide binding]; other site 395491000742 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491000743 Helix-turn-helix domains; Region: HTH; cl00088 395491000744 AsnC family; Region: AsnC_trans_reg; pfam01037 395491000745 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 395491000746 Proline dehydrogenase; Region: Pro_dh; cl03282 395491000747 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 395491000748 Glutamate binding site [chemical binding]; other site 395491000749 NAD binding site [chemical binding]; other site 395491000750 catalytic residues [active] 395491000751 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395491000752 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395491000753 active site pocket [active] 395491000754 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 395491000755 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395491000756 active site pocket [active] 395491000757 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395491000758 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395491000759 active site pocket [active] 395491000760 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491000761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491000762 DNA-binding site [nucleotide binding]; DNA binding site 395491000763 FCD domain; Region: FCD; cl11656 395491000764 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491000765 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 395491000766 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491000767 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 395491000768 dimer interface [polypeptide binding]; other site 395491000769 conserved gate region; other site 395491000770 putative PBP binding loops; other site 395491000771 ABC-ATPase subunit interface; other site 395491000772 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; cl00427 395491000773 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491000774 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 395491000775 dimer interface [polypeptide binding]; other site 395491000776 conserved gate region; other site 395491000777 putative PBP binding loops; other site 395491000778 ABC-ATPase subunit interface; other site 395491000779 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491000780 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491000781 Walker A/P-loop; other site 395491000782 ATP binding site [chemical binding]; other site 395491000783 Q-loop/lid; other site 395491000784 ABC transporter signature motif; other site 395491000785 Walker B; other site 395491000786 D-loop; other site 395491000787 H-loop/switch region; other site 395491000788 TOBE domain; Region: TOBE_2; cl01440 395491000789 galactonate dehydratase; Provisional; Region: PRK14017 395491000790 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395491000791 active site pocket [active] 395491000792 hypothetical protein; Validated; Region: PRK06201 395491000793 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395491000794 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491000795 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491000796 DNA binding site [nucleotide binding] 395491000797 domain linker motif; other site 395491000798 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395491000799 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491000800 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 395491000801 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 395491000802 dimer interface [polypeptide binding]; other site 395491000803 conserved gate region; other site 395491000804 putative PBP binding loops; other site 395491000805 ABC-ATPase subunit interface; other site 395491000806 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491000807 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 395491000808 dimer interface [polypeptide binding]; other site 395491000809 conserved gate region; other site 395491000810 putative PBP binding loops; other site 395491000811 ABC-ATPase subunit interface; other site 395491000812 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 395491000813 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 395491000814 substrate binding [chemical binding]; other site 395491000815 active site 395491000816 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 395491000817 Helix-turn-helix domains; Region: HTH; cl00088 395491000818 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395491000819 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395491000820 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395491000821 Integrase core domain; Region: rve; cl01316 395491000822 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395491000823 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491000824 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491000825 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 395491000826 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 395491000827 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 395491000828 Predicted transcriptional regulator [Transcription]; Region: COG5340 395491000829 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 395491000830 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 395491000831 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 395491000832 HTH-like domain; Region: HTH_21; pfam13276 395491000833 Integrase core domain; Region: rve; cl01316 395491000834 Integrase core domain; Region: rve_3; cl15866 395491000835 Helix-turn-helix domains; Region: HTH; cl00088 395491000836 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395491000837 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 395491000838 putative ligand binding site [chemical binding]; other site 395491000839 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491000840 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 395491000841 4Fe-4S binding domain; Region: Fer4; cl02805 395491000842 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395491000843 Integrase core domain; Region: rve; cl01316 395491000844 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395491000845 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395491000846 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395491000847 Integrase core domain; Region: rve; cl01316 395491000848 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395491000849 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395491000850 Helix-turn-helix domains; Region: HTH; cl00088 395491000851 OpgC protein; Region: OpgC_C; cl00792 395491000852 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395491000853 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 395491000854 putative active site [active] 395491000855 putative catalytic site [active] 395491000856 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395491000857 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 395491000858 glutaminase active site [active] 395491000859 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 395491000860 dimer interface [polypeptide binding]; other site 395491000861 active site 395491000862 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 395491000863 dimer interface [polypeptide binding]; other site 395491000864 active site 395491000865 maltose O-acetyltransferase; Provisional; Region: PRK10092 395491000866 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 395491000867 active site 395491000868 substrate binding site [chemical binding]; other site 395491000869 trimer interface [polypeptide binding]; other site 395491000870 CoA binding site [chemical binding]; other site 395491000871 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 395491000872 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 395491000873 dimer interface [polypeptide binding]; other site 395491000874 active site 395491000875 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395491000876 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491000877 Helix-turn-helix domains; Region: HTH; cl00088 395491000878 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 395491000879 putative substrate binding pocket [chemical binding]; other site 395491000880 putative dimerization interface [polypeptide binding]; other site 395491000881 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491000882 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 395491000883 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 395491000884 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 395491000885 DXD motif; other site 395491000886 nodulation factor exporter subunit NodI; Provisional; Region: PRK13536 395491000887 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 395491000888 Walker A/P-loop; other site 395491000889 ATP binding site [chemical binding]; other site 395491000890 Q-loop/lid; other site 395491000891 ABC transporter signature motif; other site 395491000892 Walker B; other site 395491000893 D-loop; other site 395491000894 H-loop/switch region; other site 395491000895 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395491000896 NifT/FixU protein; Region: NifT; cl02351 395491000897 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 395491000898 hypothetical protein; Provisional; Region: PRK13795 395491000899 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 395491000900 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 395491000901 FeS/SAM binding site; other site 395491000902 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 395491000903 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 395491000904 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 395491000905 Walker A motif; other site 395491000906 ATP binding site [chemical binding]; other site 395491000907 Walker B motif; other site 395491000908 arginine finger; other site 395491000909 Helix-turn-helix domains; Region: HTH; cl00088 395491000910 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 395491000911 oxidoreductase; Provisional; Region: PRK10015 395491000912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000913 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 395491000914 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 395491000915 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395491000916 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 395491000917 Ligand binding site [chemical binding]; other site 395491000918 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395491000919 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 395491000920 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 395491000921 Nucleotide-binding sites [chemical binding]; other site 395491000922 Walker A motif; other site 395491000923 Switch I region of nucleotide binding site; other site 395491000924 Fe4S4 binding sites [ion binding]; other site 395491000925 Switch II region of nucleotide binding site; other site 395491000926 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 395491000927 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 395491000928 MoFe protein alpha/beta subunit interactions; other site 395491000929 Alpha subunit P cluster binding residues; other site 395491000930 FeMoco binding residues [chemical binding]; other site 395491000931 MoFe protein alpha subunit/Fe protein contacts; other site 395491000932 MoFe protein dimer/ dimer interactions; other site 395491000933 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 395491000934 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 395491000935 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 395491000936 MoFe protein beta/alpha subunit interactions; other site 395491000937 Beta subunit P cluster binding residues; other site 395491000938 MoFe protein beta subunit/Fe protein contacts; other site 395491000939 MoFe protein dimer/ dimer interactions; other site 395491000940 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 395491000941 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 395491000942 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 395491000943 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395491000944 Helix-turn-helix domains; Region: HTH; cl00088 395491000945 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491000946 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491000947 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491000948 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 395491000949 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491000950 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 395491000951 dimer interface [polypeptide binding]; other site 395491000952 conserved gate region; other site 395491000953 putative PBP binding loops; other site 395491000954 ABC-ATPase subunit interface; other site 395491000955 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491000956 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 395491000957 dimer interface [polypeptide binding]; other site 395491000958 conserved gate region; other site 395491000959 putative PBP binding loops; other site 395491000960 ABC-ATPase subunit interface; other site 395491000961 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491000962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491000963 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491000964 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491000965 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491000966 Walker A/P-loop; other site 395491000967 ATP binding site [chemical binding]; other site 395491000968 Q-loop/lid; other site 395491000969 ABC transporter signature motif; other site 395491000970 Walker B; other site 395491000971 D-loop; other site 395491000972 H-loop/switch region; other site 395491000973 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; cl01054 395491000974 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491000975 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491000976 dimer interface [polypeptide binding]; other site 395491000977 putative CheW interface [polypeptide binding]; other site 395491000978 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491000979 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 395491000980 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 395491000981 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491000982 catalytic residue [active] 395491000983 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 395491000984 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491000985 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491000986 Coenzyme A binding pocket [chemical binding]; other site 395491000987 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 395491000988 putative active site [active] 395491000989 catalytic site [active] 395491000990 putative metal binding site [ion binding]; other site 395491000991 oligomer interface [polypeptide binding]; other site 395491000992 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 395491000993 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 395491000994 Transposase; Region: DDE_Tnp_ISL3; pfam01610 395491000995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 395491000996 Transposase; Region: DDE_Tnp_ISL3; pfam01610 395491000997 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 395491000998 ligand binding site [chemical binding]; other site 395491000999 flexible hinge region; other site 395491001000 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 395491001001 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395491001002 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 395491001003 metal-binding site [ion binding] 395491001004 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395491001005 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491001006 FixH; Region: FixH; cl01254 395491001007 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 395491001008 4Fe-4S binding domain; Region: Fer4_5; pfam12801 395491001009 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 395491001010 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 395491001011 Cytochrome c; Region: Cytochrom_C; cl11414 395491001012 Cytochrome c; Region: Cytochrom_C; cl11414 395491001013 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 395491001014 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 395491001015 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 395491001016 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 395491001017 Low-spin heme binding site [chemical binding]; other site 395491001018 Putative water exit pathway; other site 395491001019 Binuclear center (active site) [active] 395491001020 Putative proton exit pathway; other site 395491001021 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491001022 DNA-binding site [nucleotide binding]; DNA binding site 395491001023 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 395491001024 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 395491001025 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 395491001026 non-specific DNA binding site [nucleotide binding]; other site 395491001027 salt bridge; other site 395491001028 sequence-specific DNA binding site [nucleotide binding]; other site 395491001029 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491001030 Helix-turn-helix domains; Region: HTH; cl00088 395491001031 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 395491001032 dimerization interface [polypeptide binding]; other site 395491001033 substrate binding pocket [chemical binding]; other site 395491001034 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 395491001035 non-specific DNA binding site [nucleotide binding]; other site 395491001036 salt bridge; other site 395491001037 sequence-specific DNA binding site [nucleotide binding]; other site 395491001038 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395491001039 Helix-turn-helix domains; Region: HTH; cl00088 395491001040 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 395491001041 dimerization interface [polypeptide binding]; other site 395491001042 substrate binding pocket [chemical binding]; other site 395491001043 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 395491001044 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 395491001045 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 395491001046 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 395491001047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491001048 Walker A motif; other site 395491001049 ATP binding site [chemical binding]; other site 395491001050 Walker B motif; other site 395491001051 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 395491001052 MobA/MobL family; Region: MobA_MobL; pfam03389 395491001053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491001054 Family description; Region: UvrD_C_2; cl15862 395491001055 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 395491001056 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; cl01054 395491001057 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491001058 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491001059 dimer interface [polypeptide binding]; other site 395491001060 putative CheW interface [polypeptide binding]; other site 395491001061 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491001062 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 395491001063 DNA interaction; other site 395491001064 Metal-binding active site; metal-binding site 395491001065 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491001066 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 395491001067 Metal-binding active site; metal-binding site 395491001068 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395491001069 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395491001070 active site pocket [active] 395491001071 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491001072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491001073 DNA-binding site [nucleotide binding]; DNA binding site 395491001074 FCD domain; Region: FCD; cl11656 395491001075 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395491001076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001077 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395491001078 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491001079 Walker A/P-loop; other site 395491001080 ATP binding site [chemical binding]; other site 395491001081 Q-loop/lid; other site 395491001082 ABC transporter signature motif; other site 395491001083 Walker B; other site 395491001084 D-loop; other site 395491001085 H-loop/switch region; other site 395491001086 TOBE domain; Region: TOBE_2; cl01440 395491001087 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491001088 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491001089 Walker A/P-loop; other site 395491001090 ATP binding site [chemical binding]; other site 395491001091 Q-loop/lid; other site 395491001092 ABC transporter signature motif; other site 395491001093 Walker B; other site 395491001094 D-loop; other site 395491001095 H-loop/switch region; other site 395491001096 TOBE domain; Region: TOBE_2; cl01440 395491001097 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491001098 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 395491001099 dimer interface [polypeptide binding]; other site 395491001100 conserved gate region; other site 395491001101 putative PBP binding loops; other site 395491001102 ABC-ATPase subunit interface; other site 395491001103 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491001104 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 395491001105 conserved gate region; other site 395491001106 dimer interface [polypeptide binding]; other site 395491001107 putative PBP binding loops; other site 395491001108 ABC-ATPase subunit interface; other site 395491001109 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491001110 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 395491001111 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 395491001112 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 395491001113 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 395491001114 Cupin domain; Region: Cupin_2; cl09118 395491001115 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395491001116 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395491001117 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; cd01066 395491001118 active site 395491001119 intracellular protease, PfpI family; Region: PfpI; TIGR01382 395491001120 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 395491001121 conserved cys residue [active] 395491001122 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491001123 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491001124 DNA-binding site [nucleotide binding]; DNA binding site 395491001125 FCD domain; Region: FCD; cl11656 395491001126 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 395491001127 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395491001128 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 395491001129 active site 395491001130 NAD binding site [chemical binding]; other site 395491001131 metal binding site [ion binding]; metal-binding site 395491001132 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491001133 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395491001134 tetramerization interface [polypeptide binding]; other site 395491001135 NAD(P) binding site [chemical binding]; other site 395491001136 catalytic residues [active] 395491001137 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 becoming...; Region: Lipase; cl14883 395491001138 nucleophilic elbow; other site 395491001139 catalytic triad; other site 395491001140 FAD dependent oxidoreductase; Region: DAO; pfam01266 395491001141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001142 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 395491001143 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491001144 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 395491001145 putative DNA binding site [nucleotide binding]; other site 395491001146 putative Zn2+ binding site [ion binding]; other site 395491001147 AsnC family; Region: AsnC_trans_reg; pfam01037 395491001148 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395491001149 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491001150 Walker A/P-loop; other site 395491001151 ATP binding site [chemical binding]; other site 395491001152 Q-loop/lid; other site 395491001153 ABC transporter signature motif; other site 395491001154 Walker B; other site 395491001155 D-loop; other site 395491001156 H-loop/switch region; other site 395491001157 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491001158 Walker A/P-loop; other site 395491001159 ATP binding site [chemical binding]; other site 395491001160 Q-loop/lid; other site 395491001161 ABC transporter signature motif; other site 395491001162 Walker B; other site 395491001163 D-loop; other site 395491001164 H-loop/switch region; other site 395491001165 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491001166 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395491001167 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 395491001168 dimer interface [polypeptide binding]; other site 395491001169 ABC-ATPase subunit interface; other site 395491001170 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491001171 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 395491001172 dimer interface [polypeptide binding]; other site 395491001173 conserved gate region; other site 395491001174 putative PBP binding loops; other site 395491001175 ABC-ATPase subunit interface; other site 395491001176 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_17; cd08503 395491001177 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491001178 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 395491001179 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491001180 hypothetical protein; Provisional; Region: PRK05965 395491001181 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 395491001182 inhibitor-cofactor binding pocket; inhibition site 395491001183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491001184 catalytic residue [active] 395491001185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491001186 Coenzyme A binding pocket [chemical binding]; other site 395491001187 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 395491001188 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 395491001189 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395491001190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001191 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491001192 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491001193 DNA binding site [nucleotide binding] 395491001194 domain linker motif; other site 395491001195 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 395491001196 putative dimerization interface [polypeptide binding]; other site 395491001197 putative ligand binding site [chemical binding]; other site 395491001198 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; cl00214 395491001199 intersubunit interface [polypeptide binding]; other site 395491001200 active site 395491001201 Zn2+ binding site [ion binding]; other site 395491001202 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 395491001203 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491001204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001205 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395491001206 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491001207 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 395491001208 ATP binding site [chemical binding]; other site 395491001209 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 395491001210 PAP2_like_1 proteins, a sub-family of PAP2, containing bacterial acid phosphatase, vanadium chloroperoxidases and vanadium bromoperoxidases; Region: PAP2_like_1; cd03380 395491001211 active site 395491001212 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 395491001213 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395491001214 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 395491001215 TPR motif; other site 395491001216 binding surface 395491001217 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491001218 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395491001219 tetramerization interface [polypeptide binding]; other site 395491001220 NAD(P) binding site [chemical binding]; other site 395491001221 catalytic residues [active] 395491001222 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 395491001223 tartrate dehydrogenase; Provisional; Region: PRK08194 395491001224 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395491001225 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491001226 NAD(P) binding site [chemical binding]; other site 395491001227 catalytic residues [active] 395491001228 Cupin domain; Region: Cupin_2; cl09118 395491001229 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395491001230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001231 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 395491001232 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 395491001233 metal binding site [ion binding]; metal-binding site 395491001234 putative dimer interface [polypeptide binding]; other site 395491001235 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491001236 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 395491001237 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491001238 Helix-turn-helix domains; Region: HTH; cl00088 395491001239 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 395491001240 dimerization interface [polypeptide binding]; other site 395491001241 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 395491001242 HPP family; Region: HPP; pfam04982 395491001243 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 395491001244 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 395491001245 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 395491001246 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 395491001247 ring oligomerisation interface [polypeptide binding]; other site 395491001248 ATP/Mg binding site [chemical binding]; other site 395491001249 stacking interactions; other site 395491001250 hinge regions; other site 395491001251 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 395491001252 oligomerisation interface [polypeptide binding]; other site 395491001253 mobile loop; other site 395491001254 roof hairpin; other site 395491001255 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491001256 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491001257 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 395491001258 nucleotide binding site/active site [active] 395491001259 HIT family signature motif; other site 395491001260 catalytic residue [active] 395491001261 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 395491001262 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491001263 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 395491001264 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491001265 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491001266 Walker A/P-loop; other site 395491001267 ATP binding site [chemical binding]; other site 395491001268 Q-loop/lid; other site 395491001269 ABC transporter signature motif; other site 395491001270 Walker B; other site 395491001271 D-loop; other site 395491001272 H-loop/switch region; other site 395491001273 TOBE domain; Region: TOBE_2; cl01440 395491001274 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 395491001275 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 395491001276 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491001277 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 395491001278 dimer interface [polypeptide binding]; other site 395491001279 conserved gate region; other site 395491001280 putative PBP binding loops; other site 395491001281 ABC-ATPase subunit interface; other site 395491001282 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 395491001283 dimer interface [polypeptide binding]; other site 395491001284 conserved gate region; other site 395491001285 putative PBP binding loops; other site 395491001286 ABC-ATPase subunit interface; other site 395491001287 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 395491001288 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 395491001289 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395491001290 conserved cys residue [active] 395491001291 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491001292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491001293 Isochorismatase family; Region: Isochorismatase; pfam00857 395491001294 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 395491001295 catalytic triad [active] 395491001296 conserved cis-peptide bond; other site 395491001297 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 395491001298 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 395491001299 active site 395491001300 phosphorylation site [posttranslational modification] 395491001301 intermolecular recognition site; other site 395491001302 dimerization interface [polypeptide binding]; other site 395491001303 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 395491001304 DNA binding site [nucleotide binding] 395491001305 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395491001306 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 395491001307 dimer interface [polypeptide binding]; other site 395491001308 phosphorylation site [posttranslational modification] 395491001309 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 395491001310 ATP binding site [chemical binding]; other site 395491001311 Mg2+ binding site [ion binding]; other site 395491001312 G-X-G motif; other site 395491001313 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491001314 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 395491001315 dimer interface [polypeptide binding]; other site 395491001316 conserved gate region; other site 395491001317 putative PBP binding loops; other site 395491001318 ABC-ATPase subunit interface; other site 395491001319 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395491001320 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491001321 Walker A/P-loop; other site 395491001322 ATP binding site [chemical binding]; other site 395491001323 Q-loop/lid; other site 395491001324 ABC transporter signature motif; other site 395491001325 Walker B; other site 395491001326 D-loop; other site 395491001327 H-loop/switch region; other site 395491001328 NMT1-like family; Region: NMT1_2; cl15260 395491001329 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491001330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491001331 DNA-binding site [nucleotide binding]; DNA binding site 395491001332 FCD domain; Region: FCD; cl11656 395491001333 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491001334 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491001335 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491001336 ligand binding site [chemical binding]; other site 395491001337 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 395491001338 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491001339 putative ligand binding site [chemical binding]; other site 395491001340 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491001341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491001342 dimer interface [polypeptide binding]; other site 395491001343 putative CheW interface [polypeptide binding]; other site 395491001344 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 395491001345 benzoate transport; Region: 2A0115; TIGR00895 395491001346 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 395491001347 putative substrate translocation pore; other site 395491001348 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 395491001349 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491001350 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 395491001351 salicylate hydroxylase; Provisional; Region: PRK08163 395491001352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001353 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395491001354 Helix-turn-helix domains; Region: HTH; cl00088 395491001355 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 395491001356 putative dimerization interface [polypeptide binding]; other site 395491001357 putative substrate binding pocket [chemical binding]; other site 395491001358 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 395491001359 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395491001360 putative substrate translocation pore; other site 395491001361 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491001362 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 395491001363 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 395491001364 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 395491001365 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 395491001366 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491001367 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491001368 Walker A/P-loop; other site 395491001369 ATP binding site [chemical binding]; other site 395491001370 Q-loop/lid; other site 395491001371 ABC transporter signature motif; other site 395491001372 Walker B; other site 395491001373 D-loop; other site 395491001374 H-loop/switch region; other site 395491001375 TOBE domain; Region: TOBE_2; cl01440 395491001376 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 395491001377 dimer interface [polypeptide binding]; other site 395491001378 conserved gate region; other site 395491001379 putative PBP binding loops; other site 395491001380 ABC-ATPase subunit interface; other site 395491001381 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491001382 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 395491001383 dimer interface [polypeptide binding]; other site 395491001384 conserved gate region; other site 395491001385 putative PBP binding loops; other site 395491001386 ABC-ATPase subunit interface; other site 395491001387 Helix-turn-helix domains; Region: HTH; cl00088 395491001388 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491001389 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491001390 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491001391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491001392 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491001393 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491001394 DNA binding site [nucleotide binding] 395491001395 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491001396 ligand binding site [chemical binding]; other site 395491001397 dimerization interface [polypeptide binding]; other site 395491001398 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491001399 Helix-turn-helix domains; Region: HTH; cl00088 395491001400 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491001401 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491001402 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491001403 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491001404 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491001405 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491001406 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395491001407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 395491001408 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395491001409 Na binding site [ion binding]; other site 395491001410 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395491001411 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; cl01054 395491001412 dimerization interface [polypeptide binding]; other site 395491001413 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491001414 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491001415 dimer interface [polypeptide binding]; other site 395491001416 putative CheW interface [polypeptide binding]; other site 395491001417 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395491001418 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 395491001419 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491001420 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 395491001421 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 395491001422 active site 395491001423 homodimer interface [polypeptide binding]; other site 395491001424 catalytic site [active] 395491001425 acceptor binding site [chemical binding]; other site 395491001426 trehalose synthase; Region: treS_nterm; TIGR02456 395491001427 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 395491001428 active site 395491001429 catalytic site [active] 395491001430 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 395491001431 glycogen branching enzyme; Provisional; Region: PRK05402 395491001432 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 395491001433 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 395491001434 active site 395491001435 catalytic site [active] 395491001436 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 395491001437 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395491001438 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395491001439 Walker A/P-loop; other site 395491001440 ATP binding site [chemical binding]; other site 395491001441 Q-loop/lid; other site 395491001442 ABC transporter signature motif; other site 395491001443 Walker B; other site 395491001444 D-loop; other site 395491001445 H-loop/switch region; other site 395491001446 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 395491001447 ABC-ATPase subunit interface; other site 395491001448 dimer interface [polypeptide binding]; other site 395491001449 putative PBP binding regions; other site 395491001450 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 395491001451 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 395491001452 putative ligand binding residues [chemical binding]; other site 395491001453 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491001454 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 395491001455 dimerization interface [polypeptide binding]; other site 395491001456 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; cl01054 395491001457 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; cl01054 395491001458 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 395491001459 dimerization interface [polypeptide binding]; other site 395491001460 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395491001461 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; cl01054 395491001462 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; cl01054 395491001463 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; cl01054 395491001464 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395491001465 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 395491001466 dimerization interface [polypeptide binding]; other site 395491001467 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 395491001468 dimerization interface [polypeptide binding]; other site 395491001469 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; cl01054 395491001470 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 395491001471 dimerization interface [polypeptide binding]; other site 395491001472 GAF domain; Region: GAF_2; pfam13185 395491001473 GAF domain; Region: GAF; cl15785 395491001474 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 395491001475 dimer interface [polypeptide binding]; other site 395491001476 phosphorylation site [posttranslational modification] 395491001477 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 395491001478 ATP binding site [chemical binding]; other site 395491001479 Mg2+ binding site [ion binding]; other site 395491001480 G-X-G motif; other site 395491001481 Response regulator receiver domain; Region: Response_reg; pfam00072 395491001482 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 395491001483 active site 395491001484 phosphorylation site [posttranslational modification] 395491001485 intermolecular recognition site; other site 395491001486 dimerization interface [polypeptide binding]; other site 395491001487 Response regulator receiver domain; Region: Response_reg; pfam00072 395491001488 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 395491001489 active site 395491001490 phosphorylation site [posttranslational modification] 395491001491 intermolecular recognition site; other site 395491001492 dimerization interface [polypeptide binding]; other site 395491001493 Response regulator receiver domain; Region: Response_reg; pfam00072 395491001494 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 395491001495 active site 395491001496 phosphorylation site [posttranslational modification] 395491001497 intermolecular recognition site; other site 395491001498 dimerization interface [polypeptide binding]; other site 395491001499 Response regulator receiver domain; Region: Response_reg; pfam00072 395491001500 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 395491001501 active site 395491001502 phosphorylation site [posttranslational modification] 395491001503 intermolecular recognition site; other site 395491001504 dimerization interface [polypeptide binding]; other site 395491001505 bZIP transcription factor; Region: bZIP_1; cl02576 395491001506 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 395491001507 dimer interface [polypeptide binding]; other site 395491001508 phosphorylation site [posttranslational modification] 395491001509 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 395491001510 ATP binding site [chemical binding]; other site 395491001511 Mg2+ binding site [ion binding]; other site 395491001512 G-X-G motif; other site 395491001513 Response regulator receiver domain; Region: Response_reg; pfam00072 395491001514 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 395491001515 active site 395491001516 phosphorylation site [posttranslational modification] 395491001517 intermolecular recognition site; other site 395491001518 dimerization interface [polypeptide binding]; other site 395491001519 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491001520 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 395491001521 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 395491001522 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 395491001523 catalytic site [active] 395491001524 active site 395491001525 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 395491001526 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 395491001527 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491001528 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491001529 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491001530 dimerization interface [polypeptide binding]; other site 395491001531 ligand binding site [chemical binding]; other site 395491001532 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491001533 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 395491001534 substrate binding pocket [chemical binding]; other site 395491001535 membrane-bound complex binding site; other site 395491001536 hinge residues; other site 395491001537 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491001538 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 395491001539 dimer interface [polypeptide binding]; other site 395491001540 conserved gate region; other site 395491001541 putative PBP binding loops; other site 395491001542 ABC-ATPase subunit interface; other site 395491001543 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491001544 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491001545 Walker A/P-loop; other site 395491001546 ATP binding site [chemical binding]; other site 395491001547 Q-loop/lid; other site 395491001548 ABC transporter signature motif; other site 395491001549 Walker B; other site 395491001550 D-loop; other site 395491001551 H-loop/switch region; other site 395491001552 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395491001553 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395491001554 putative catalytic site [active] 395491001555 putative metal binding site [ion binding]; other site 395491001556 putative phosphate binding site [ion binding]; other site 395491001557 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 395491001558 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 395491001559 phospholipase D; Region: PLN02866 395491001560 putative active site [active] 395491001561 catalytic site [active] 395491001562 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 395491001563 putative active site [active] 395491001564 catalytic site [active] 395491001565 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 395491001566 putative active site [active] 395491001567 Protein of unknown function (DUF763); Region: DUF763; cl00620 395491001568 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 395491001569 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491001570 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395491001571 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491001572 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 395491001573 Oxygen tolerance; Region: BatD; pfam13584 395491001574 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395491001575 metal ion-dependent adhesion site (MIDAS); other site 395491001576 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 395491001577 binding surface 395491001578 TPR motif; other site 395491001579 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395491001580 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 395491001581 metal ion-dependent adhesion site (MIDAS); other site 395491001582 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 395491001583 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 395491001584 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395491001585 MoxR-like ATPases [General function prediction only]; Region: COG0714 395491001586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491001587 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395491001588 Sulfatase; Region: Sulfatase; cl10460 395491001589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 395491001590 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 395491001591 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 395491001592 Uncharacterized conserved protein [Function unknown]; Region: COG5361 395491001593 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 395491001594 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 395491001595 EamA-like transporter family; Region: EamA; cl01037 395491001596 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 395491001597 Helix-turn-helix domains; Region: HTH; cl00088 395491001598 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 395491001599 putative dimerization interface [polypeptide binding]; other site 395491001600 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 395491001601 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 395491001602 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491001603 ligand binding site [chemical binding]; other site 395491001604 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491001605 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491001606 Walker A/P-loop; other site 395491001607 ATP binding site [chemical binding]; other site 395491001608 Q-loop/lid; other site 395491001609 ABC transporter signature motif; other site 395491001610 Walker B; other site 395491001611 D-loop; other site 395491001612 H-loop/switch region; other site 395491001613 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491001614 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 395491001615 TM-ABC transporter signature motif; other site 395491001616 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395491001617 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 395491001618 DNA binding residues [nucleotide binding] 395491001619 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395491001620 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491001621 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 395491001622 active site 395491001623 catalytic tetrad [active] 395491001624 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 395491001625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001626 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 395491001627 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 395491001628 putative active site; other site 395491001629 catalytic residue [active] 395491001630 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 395491001631 L-xylulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 395491001632 putative N- and C-terminal domain interface [polypeptide binding]; other site 395491001633 putative active site [active] 395491001634 putative MgATP binding site [chemical binding]; other site 395491001635 catalytic site [active] 395491001636 metal binding site [ion binding]; metal-binding site 395491001637 putative xylulose binding site [chemical binding]; other site 395491001638 choline dehydrogenase; Validated; Region: PRK02106 395491001639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001640 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395491001641 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 395491001642 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 395491001643 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; cl01054 395491001644 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491001645 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491001646 dimer interface [polypeptide binding]; other site 395491001647 putative CheW interface [polypeptide binding]; other site 395491001648 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491001649 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491001650 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491001651 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491001652 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491001653 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491001654 Walker A/P-loop; other site 395491001655 ATP binding site [chemical binding]; other site 395491001656 Q-loop/lid; other site 395491001657 ABC transporter signature motif; other site 395491001658 Walker B; other site 395491001659 D-loop; other site 395491001660 H-loop/switch region; other site 395491001661 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491001662 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491001663 Walker A/P-loop; other site 395491001664 ATP binding site [chemical binding]; other site 395491001665 Q-loop/lid; other site 395491001666 ABC transporter signature motif; other site 395491001667 Walker B; other site 395491001668 D-loop; other site 395491001669 H-loop/switch region; other site 395491001670 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491001671 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395491001672 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 395491001673 dimer interface [polypeptide binding]; other site 395491001674 conserved gate region; other site 395491001675 putative PBP binding loops; other site 395491001676 ABC-ATPase subunit interface; other site 395491001677 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491001678 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 395491001679 dimer interface [polypeptide binding]; other site 395491001680 conserved gate region; other site 395491001681 putative PBP binding loops; other site 395491001682 ABC-ATPase subunit interface; other site 395491001683 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_7; cd08512 395491001684 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491001685 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491001686 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491001687 inhibitor site; inhibition site 395491001688 active site 395491001689 dimer interface [polypeptide binding]; other site 395491001690 catalytic residue [active] 395491001691 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 395491001692 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 395491001693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001694 NAD(P) binding site [chemical binding]; other site 395491001695 active site 395491001696 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491001697 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491001698 DNA-binding site [nucleotide binding]; DNA binding site 395491001699 FCD domain; Region: FCD; cl11656 395491001700 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_4; cd08500 395491001701 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491001702 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491001703 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 395491001704 dimer interface [polypeptide binding]; other site 395491001705 conserved gate region; other site 395491001706 putative PBP binding loops; other site 395491001707 ABC-ATPase subunit interface; other site 395491001708 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 395491001709 dimer interface [polypeptide binding]; other site 395491001710 conserved gate region; other site 395491001711 putative PBP binding loops; other site 395491001712 ABC-ATPase subunit interface; other site 395491001713 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395491001714 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491001715 Walker A/P-loop; other site 395491001716 ATP binding site [chemical binding]; other site 395491001717 Q-loop/lid; other site 395491001718 ABC transporter signature motif; other site 395491001719 Walker B; other site 395491001720 D-loop; other site 395491001721 H-loop/switch region; other site 395491001722 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491001723 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491001724 Walker A/P-loop; other site 395491001725 ATP binding site [chemical binding]; other site 395491001726 Q-loop/lid; other site 395491001727 ABC transporter signature motif; other site 395491001728 Walker B; other site 395491001729 D-loop; other site 395491001730 H-loop/switch region; other site 395491001731 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491001732 galactonate dehydratase; Provisional; Region: PRK14017 395491001733 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395491001734 active site pocket [active] 395491001735 galactonate dehydratase; Provisional; Region: PRK14017 395491001736 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395491001737 active site pocket [active] 395491001738 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491001739 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 395491001740 putative FMN binding site [chemical binding]; other site 395491001741 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 395491001742 dimerization interface [polypeptide binding]; other site 395491001743 putative DNA binding site [nucleotide binding]; other site 395491001744 putative Zn2+ binding site [ion binding]; other site 395491001745 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395491001746 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 395491001747 active site 395491001748 phosphorylation site [posttranslational modification] 395491001749 intermolecular recognition site; other site 395491001750 dimerization interface [polypeptide binding]; other site 395491001751 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 395491001752 DNA binding residues [nucleotide binding] 395491001753 dimerization interface [polypeptide binding]; other site 395491001754 Response regulator receiver domain; Region: Response_reg; pfam00072 395491001755 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 395491001756 active site 395491001757 phosphorylation site [posttranslational modification] 395491001758 intermolecular recognition site; other site 395491001759 dimerization interface [polypeptide binding]; other site 395491001760 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395491001761 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 395491001762 active site 395491001763 phosphorylation site [posttranslational modification] 395491001764 intermolecular recognition site; other site 395491001765 dimerization interface [polypeptide binding]; other site 395491001766 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 395491001767 DNA binding residues [nucleotide binding] 395491001768 dimerization interface [polypeptide binding]; other site 395491001769 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 395491001770 MASE1; Region: MASE1; pfam05231 395491001771 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491001772 PAS fold; Region: PAS_3; pfam08447 395491001773 putative active site [active] 395491001774 heme pocket [chemical binding]; other site 395491001775 PAS fold; Region: PAS; pfam00989 395491001776 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491001777 putative active site [active] 395491001778 heme pocket [chemical binding]; other site 395491001779 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491001780 PAS fold; Region: PAS_3; pfam08447 395491001781 putative active site [active] 395491001782 heme pocket [chemical binding]; other site 395491001783 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491001784 PAS domain; Region: PAS_9; pfam13426 395491001785 putative active site [active] 395491001786 heme pocket [chemical binding]; other site 395491001787 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491001788 PAS fold; Region: PAS_3; pfam08447 395491001789 putative active site [active] 395491001790 heme pocket [chemical binding]; other site 395491001791 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 395491001792 dimer interface [polypeptide binding]; other site 395491001793 phosphorylation site [posttranslational modification] 395491001794 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 395491001795 ATP binding site [chemical binding]; other site 395491001796 Mg2+ binding site [ion binding]; other site 395491001797 G-X-G motif; other site 395491001798 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395491001799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001800 NAD(P) binding site [chemical binding]; other site 395491001801 active site 395491001802 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395491001803 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 395491001804 P-loop; other site 395491001805 Magnesium ion binding site [ion binding]; other site 395491001806 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 395491001807 Magnesium ion binding site [ion binding]; other site 395491001808 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395491001809 ParB-like nuclease domain; Region: ParBc; cl02129 395491001810 replication initiation protein RepC; Provisional; Region: PRK13824 395491001811 Helix-turn-helix domains; Region: HTH; cl00088 395491001812 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395491001813 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491001814 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491001815 inhibitor site; inhibition site 395491001816 active site 395491001817 dimer interface [polypeptide binding]; other site 395491001818 catalytic residue [active] 395491001819 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491001820 Helix-turn-helix domains; Region: HTH; cl00088 395491001821 DNA-binding site [nucleotide binding]; DNA binding site 395491001822 FCD domain; Region: FCD; cl11656 395491001823 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491001824 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 395491001825 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 395491001826 dimer interface [polypeptide binding]; other site 395491001827 conserved gate region; other site 395491001828 putative PBP binding loops; other site 395491001829 ABC-ATPase subunit interface; other site 395491001830 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491001831 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 395491001832 putative PBP binding loops; other site 395491001833 ABC-ATPase subunit interface; other site 395491001834 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491001835 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 395491001836 substrate binding site [chemical binding]; other site 395491001837 ATP binding site [chemical binding]; other site 395491001838 Phosphate transporter family; Region: PHO4; cl00396 395491001839 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 395491001840 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 395491001841 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491001842 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491001843 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 395491001844 dimer interface [polypeptide binding]; other site 395491001845 conserved gate region; other site 395491001846 putative PBP binding loops; other site 395491001847 ABC-ATPase subunit interface; other site 395491001848 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491001849 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 395491001850 dimer interface [polypeptide binding]; other site 395491001851 conserved gate region; other site 395491001852 putative PBP binding loops; other site 395491001853 ABC-ATPase subunit interface; other site 395491001854 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491001855 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491001856 Walker A/P-loop; other site 395491001857 ATP binding site [chemical binding]; other site 395491001858 Q-loop/lid; other site 395491001859 ABC transporter signature motif; other site 395491001860 Walker B; other site 395491001861 D-loop; other site 395491001862 H-loop/switch region; other site 395491001863 TOBE domain; Region: TOBE_2; cl01440 395491001864 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 395491001865 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 395491001866 putative active site [active] 395491001867 catalytic site [active] 395491001868 putative metal binding site [ion binding]; other site 395491001869 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395491001870 Helix-turn-helix domains; Region: HTH; cl00088 395491001871 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491001872 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 395491001873 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491001874 active site 395491001875 motif I; other site 395491001876 motif II; other site 395491001877 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491001878 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 395491001879 dimer interface [polypeptide binding]; other site 395491001880 conserved gate region; other site 395491001881 putative PBP binding loops; other site 395491001882 ABC-ATPase subunit interface; other site 395491001883 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 395491001884 dimer interface [polypeptide binding]; other site 395491001885 conserved gate region; other site 395491001886 putative PBP binding loops; other site 395491001887 ABC-ATPase subunit interface; other site 395491001888 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491001889 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 395491001890 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491001891 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491001892 DNA binding site [nucleotide binding] 395491001893 domain linker motif; other site 395491001894 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491001895 dimerization interface [polypeptide binding]; other site 395491001896 ligand binding site [chemical binding]; other site 395491001897 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395491001898 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491001899 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491001900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001901 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491001902 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395491001903 Helix-turn-helix domains; Region: HTH; cl00088 395491001904 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491001905 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 395491001906 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 395491001907 putative active site; other site 395491001908 catalytic residue [active] 395491001909 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 395491001910 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491001911 substrate binding site [chemical binding]; other site 395491001912 ATP binding site [chemical binding]; other site 395491001913 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491001914 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491001915 Walker A/P-loop; other site 395491001916 ATP binding site [chemical binding]; other site 395491001917 Q-loop/lid; other site 395491001918 ABC transporter signature motif; other site 395491001919 Walker B; other site 395491001920 D-loop; other site 395491001921 H-loop/switch region; other site 395491001922 TOBE domain; Region: TOBE_2; cl01440 395491001923 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491001924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001925 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491001926 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 395491001927 Metal-binding active site; metal-binding site 395491001928 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491001929 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491001930 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 395491001931 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 395491001932 substrate binding site [chemical binding]; other site 395491001933 hexamer interface [polypeptide binding]; other site 395491001934 metal binding site [ion binding]; metal-binding site 395491001935 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491001936 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491001937 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491001938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491001939 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491001940 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 395491001941 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 395491001942 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491001943 putative NAD(P) binding site [chemical binding]; other site 395491001944 hypothetical protein; Provisional; Region: PRK07482 395491001945 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 395491001946 inhibitor-cofactor binding pocket; inhibition site 395491001947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491001948 catalytic residue [active] 395491001949 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491001950 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395491001951 tetramerization interface [polypeptide binding]; other site 395491001952 NAD(P) binding site [chemical binding]; other site 395491001953 catalytic residues [active] 395491001954 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491001955 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 395491001956 putative DNA binding site [nucleotide binding]; other site 395491001957 putative Zn2+ binding site [ion binding]; other site 395491001958 AsnC family; Region: AsnC_trans_reg; pfam01037 395491001959 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 395491001960 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491001961 DNA-binding site [nucleotide binding]; DNA binding site 395491001962 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 395491001963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491001964 homodimer interface [polypeptide binding]; other site 395491001965 catalytic residue [active] 395491001966 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 395491001967 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491001968 Walker A/P-loop; other site 395491001969 ATP binding site [chemical binding]; other site 395491001970 Q-loop/lid; other site 395491001971 ABC transporter signature motif; other site 395491001972 Walker B; other site 395491001973 D-loop; other site 395491001974 H-loop/switch region; other site 395491001975 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 395491001976 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 395491001977 substrate binding pocket [chemical binding]; other site 395491001978 membrane-bound complex binding site; other site 395491001979 hinge residues; other site 395491001980 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491001981 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 395491001982 dimer interface [polypeptide binding]; other site 395491001983 conserved gate region; other site 395491001984 putative PBP binding loops; other site 395491001985 ABC-ATPase subunit interface; other site 395491001986 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491001987 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 395491001988 dimer interface [polypeptide binding]; other site 395491001989 conserved gate region; other site 395491001990 putative PBP binding loops; other site 395491001991 ABC-ATPase subunit interface; other site 395491001992 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395491001993 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 395491001994 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 395491001995 tetramer interface [polypeptide binding]; other site 395491001996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491001997 catalytic residue [active] 395491001998 ectoine utilization protein EutC; Validated; Region: PRK08291 395491001999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002000 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 395491002001 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395491002002 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; cd01066 395491002003 active site 395491002004 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 395491002005 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 395491002006 putative active site [active] 395491002007 Zn binding site [ion binding]; other site 395491002008 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 395491002009 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491002010 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491002011 dimer interface [polypeptide binding]; other site 395491002012 putative CheW interface [polypeptide binding]; other site 395491002013 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 395491002014 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395491002015 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395491002016 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 395491002017 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 395491002018 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 395491002019 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 395491002020 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395491002021 EF-hand domain pair; Region: EF_hand_5; pfam13499 395491002022 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 395491002023 Ca2+ binding site [ion binding]; other site 395491002024 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491002025 Helix-turn-helix domains; Region: HTH; cl00088 395491002026 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491002027 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491002028 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491002029 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491002030 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491002031 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491002032 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491002033 PAS domain; Region: PAS_9; pfam13426 395491002034 putative active site [active] 395491002035 heme pocket [chemical binding]; other site 395491002036 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491002037 PAS domain; Region: PAS_9; pfam13426 395491002038 putative active site [active] 395491002039 heme pocket [chemical binding]; other site 395491002040 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491002041 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491002042 dimer interface [polypeptide binding]; other site 395491002043 putative CheW interface [polypeptide binding]; other site 395491002044 enoyl-CoA hydratase; Provisional; Region: PRK05980 395491002045 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 395491002046 substrate binding site [chemical binding]; other site 395491002047 oxyanion hole (OAH) forming residues; other site 395491002048 trimer interface [polypeptide binding]; other site 395491002049 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491002050 Helix-turn-helix domains; Region: HTH; cl00088 395491002051 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491002052 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 395491002053 substrate binding pocket [chemical binding]; other site 395491002054 membrane-bound complex binding site; other site 395491002055 hinge residues; other site 395491002056 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 395491002057 dimer interface [polypeptide binding]; other site 395491002058 conserved gate region; other site 395491002059 putative PBP binding loops; other site 395491002060 ABC-ATPase subunit interface; other site 395491002061 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 395491002062 putative PBP binding loops; other site 395491002063 dimer interface [polypeptide binding]; other site 395491002064 ABC-ATPase subunit interface; other site 395491002065 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491002066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491002067 Walker A/P-loop; other site 395491002068 ATP binding site [chemical binding]; other site 395491002069 Q-loop/lid; other site 395491002070 ABC transporter signature motif; other site 395491002071 Walker B; other site 395491002072 D-loop; other site 395491002073 H-loop/switch region; other site 395491002074 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 395491002075 oligomeric interface; other site 395491002076 putative active site [active] 395491002077 homodimer interface [polypeptide binding]; other site 395491002078 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395491002079 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491002080 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 395491002081 substrate binding pocket [chemical binding]; other site 395491002082 membrane-bound complex binding site; other site 395491002083 hinge residues; other site 395491002084 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 395491002085 dimer interface [polypeptide binding]; other site 395491002086 conserved gate region; other site 395491002087 putative PBP binding loops; other site 395491002088 ABC-ATPase subunit interface; other site 395491002089 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 395491002090 dimer interface [polypeptide binding]; other site 395491002091 conserved gate region; other site 395491002092 putative PBP binding loops; other site 395491002093 ABC-ATPase subunit interface; other site 395491002094 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491002095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491002096 Walker A/P-loop; other site 395491002097 ATP binding site [chemical binding]; other site 395491002098 Q-loop/lid; other site 395491002099 ABC transporter signature motif; other site 395491002100 Walker B; other site 395491002101 D-loop; other site 395491002102 H-loop/switch region; other site 395491002103 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491002104 RES domain; Region: RES; cl02411 395491002105 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 395491002106 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 395491002107 PspA/IM30 family; Region: PspA_IM30; pfam04012 395491002108 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 395491002109 Ion channel; Region: Ion_trans_2; cl11596 395491002110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002111 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 395491002112 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 395491002113 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 395491002114 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 395491002115 Winged helix-turn helix; Region: HTH_29; pfam13551 395491002116 Helix-turn-helix domains; Region: HTH; cl00088 395491002117 Integrase core domain; Region: rve; cl01316 395491002118 Helix-turn-helix domains; Region: HTH; cl00088 395491002119 Winged helix-turn helix; Region: HTH_29; pfam13551 395491002120 Helix-turn-helix domains; Region: HTH; cl00088 395491002121 Integrase core domain; Region: rve; cl01316 395491002122 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 395491002123 putative active site pocket [active] 395491002124 metal binding site [ion binding]; metal-binding site 395491002125 cell density-dependent motility repressor; Provisional; Region: PRK10082 395491002126 Helix-turn-helix domains; Region: HTH; cl00088 395491002127 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 395491002128 Helix-turn-helix domains; Region: HTH; cl00088 395491002129 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 395491002130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002131 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491002132 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491002133 DNA binding site [nucleotide binding] 395491002134 domain linker motif; other site 395491002135 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 395491002136 putative ligand binding site [chemical binding]; other site 395491002137 putative dimerization interface [polypeptide binding]; other site 395491002138 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 395491002139 TM-ABC transporter signature motif; other site 395491002140 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491002141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491002142 Walker A/P-loop; other site 395491002143 ATP binding site [chemical binding]; other site 395491002144 Q-loop/lid; other site 395491002145 ABC transporter signature motif; other site 395491002146 Walker B; other site 395491002147 D-loop; other site 395491002148 H-loop/switch region; other site 395491002149 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 395491002150 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491002151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002152 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491002153 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395491002154 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491002155 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491002156 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 395491002157 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491002158 putative substrate translocation pore; other site 395491002159 ribosome small subunit-dependent GTPase A; Region: TIGR00157 395491002160 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 395491002161 GTPase/Zn-binding domain interface [polypeptide binding]; other site 395491002162 GTP/Mg2+ binding site [chemical binding]; other site 395491002163 G4 box; other site 395491002164 G5 box; other site 395491002165 G1 box; other site 395491002166 Switch I region; other site 395491002167 G2 box; other site 395491002168 G3 box; other site 395491002169 Switch II region; other site 395491002170 Helix-turn-helix domains; Region: HTH; cl00088 395491002171 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 395491002172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002174 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 395491002175 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491002176 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491002177 DNA binding site [nucleotide binding] 395491002178 domain linker motif; other site 395491002179 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 395491002180 dimerization interface [polypeptide binding]; other site 395491002181 ligand binding site [chemical binding]; other site 395491002182 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 395491002183 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491002184 ligand binding site [chemical binding]; other site 395491002185 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491002186 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491002187 Walker A/P-loop; other site 395491002188 ATP binding site [chemical binding]; other site 395491002189 Q-loop/lid; other site 395491002190 ABC transporter signature motif; other site 395491002191 Walker B; other site 395491002192 D-loop; other site 395491002193 H-loop/switch region; other site 395491002194 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491002195 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 395491002196 TM-ABC transporter signature motif; other site 395491002197 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 395491002198 TM-ABC transporter signature motif; other site 395491002199 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491002200 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 395491002201 DNA interaction; other site 395491002202 Metal-binding active site; metal-binding site 395491002203 hypothetical protein; Provisional; Region: PRK08185 395491002204 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 395491002205 intersubunit interface [polypeptide binding]; other site 395491002206 active site 395491002207 zinc binding site [ion binding]; other site 395491002208 Na+ binding site [ion binding]; other site 395491002209 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 395491002210 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 395491002211 L-xylulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 395491002212 putative N- and C-terminal domain interface [polypeptide binding]; other site 395491002213 putative active site [active] 395491002214 putative MgATP binding site [chemical binding]; other site 395491002215 catalytic site [active] 395491002216 metal binding site [ion binding]; metal-binding site 395491002217 putative xylulose binding site [chemical binding]; other site 395491002218 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395491002219 Helix-turn-helix domains; Region: HTH; cl00088 395491002220 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491002221 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 395491002222 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491002223 ligand binding site [chemical binding]; other site 395491002224 dimerization interface [polypeptide binding]; other site 395491002225 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 395491002226 TM-ABC transporter signature motif; other site 395491002227 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491002228 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491002229 Walker A/P-loop; other site 395491002230 ATP binding site [chemical binding]; other site 395491002231 Q-loop/lid; other site 395491002232 ABC transporter signature motif; other site 395491002233 Walker B; other site 395491002234 D-loop; other site 395491002235 H-loop/switch region; other site 395491002236 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491002237 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 395491002238 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 395491002239 L-xylulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 395491002240 putative N- and C-terminal domain interface [polypeptide binding]; other site 395491002241 putative active site [active] 395491002242 putative MgATP binding site [chemical binding]; other site 395491002243 catalytic site [active] 395491002244 metal binding site [ion binding]; metal-binding site 395491002245 putative xylulose binding site [chemical binding]; other site 395491002246 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 395491002247 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395491002248 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395491002249 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395491002250 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395491002251 Helix-turn-helix domains; Region: HTH; cl00088 395491002252 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491002253 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 395491002254 substrate binding site [chemical binding]; other site 395491002255 dimer interface [polypeptide binding]; other site 395491002256 catalytic triad [active] 395491002257 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 395491002258 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395491002259 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 395491002260 active site 395491002261 DNA binding site [nucleotide binding] 395491002262 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 395491002263 DNA binding site [nucleotide binding] 395491002264 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 395491002265 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491002266 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 395491002267 dimer interface [polypeptide binding]; other site 395491002268 conserved gate region; other site 395491002269 putative PBP binding loops; other site 395491002270 ABC-ATPase subunit interface; other site 395491002271 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395491002272 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 395491002273 dimer interface [polypeptide binding]; other site 395491002274 conserved gate region; other site 395491002275 putative PBP binding loops; other site 395491002276 ABC-ATPase subunit interface; other site 395491002277 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491002278 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 395491002279 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491002280 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491002281 Walker A/P-loop; other site 395491002282 ATP binding site [chemical binding]; other site 395491002283 Q-loop/lid; other site 395491002284 ABC transporter signature motif; other site 395491002285 Walker B; other site 395491002286 D-loop; other site 395491002287 H-loop/switch region; other site 395491002288 TOBE domain; Region: TOBE_2; cl01440 395491002289 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491002290 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 395491002291 putative NAD(P) binding site [chemical binding]; other site 395491002292 active site 395491002293 putative substrate binding site [chemical binding]; other site 395491002294 transcriptional regulator NanR; Provisional; Region: PRK03837 395491002295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491002296 DNA-binding site [nucleotide binding]; DNA binding site 395491002297 FCD domain; Region: FCD; cl11656 395491002298 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 395491002299 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 395491002300 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395491002301 active site 395491002302 DNA binding site [nucleotide binding] 395491002303 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 395491002304 DNA binding site [nucleotide binding] 395491002305 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 395491002306 nucleotide binding site [chemical binding]; other site 395491002307 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 395491002308 transmembrane helices; other site 395491002309 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 395491002310 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; cl15357 395491002311 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; cl15357 395491002312 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; cl15357 395491002313 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 395491002314 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_12; cd08491 395491002315 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 395491002316 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491002317 putative active site [active] 395491002318 catalytic residue [active] 395491002319 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491002320 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 395491002321 dimer interface [polypeptide binding]; other site 395491002322 NADP binding site [chemical binding]; other site 395491002323 catalytic residues [active] 395491002324 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395491002325 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395491002326 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395491002327 active site pocket [active] 395491002328 Dehydratase family; Region: ILVD_EDD; cl00340 395491002329 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491002330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491002331 DNA-binding site [nucleotide binding]; DNA binding site 395491002332 FCD domain; Region: FCD; cl11656 395491002333 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395491002334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002335 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395491002336 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491002337 Walker A/P-loop; other site 395491002338 ATP binding site [chemical binding]; other site 395491002339 Q-loop/lid; other site 395491002340 ABC transporter signature motif; other site 395491002341 Walker B; other site 395491002342 D-loop; other site 395491002343 H-loop/switch region; other site 395491002344 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491002345 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491002346 Walker A/P-loop; other site 395491002347 ATP binding site [chemical binding]; other site 395491002348 Q-loop/lid; other site 395491002349 ABC transporter signature motif; other site 395491002350 Walker B; other site 395491002351 D-loop; other site 395491002352 H-loop/switch region; other site 395491002353 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491002354 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 395491002355 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 395491002356 dimer interface [polypeptide binding]; other site 395491002357 conserved gate region; other site 395491002358 putative PBP binding loops; other site 395491002359 ABC-ATPase subunit interface; other site 395491002360 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491002361 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 395491002362 dimer interface [polypeptide binding]; other site 395491002363 conserved gate region; other site 395491002364 putative PBP binding loops; other site 395491002365 ABC-ATPase subunit interface; other site 395491002366 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 395491002367 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491002368 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395491002369 nudix motif; other site 395491002370 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 395491002371 putative catalytic residues [active] 395491002372 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491002373 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491002374 Walker A/P-loop; other site 395491002375 ATP binding site [chemical binding]; other site 395491002376 Q-loop/lid; other site 395491002377 ABC transporter signature motif; other site 395491002378 Walker B; other site 395491002379 D-loop; other site 395491002380 H-loop/switch region; other site 395491002381 TOBE domain; Region: TOBE_2; cl01440 395491002382 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 395491002383 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 395491002384 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 395491002385 dimer interface [polypeptide binding]; other site 395491002386 active site 395491002387 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 395491002388 active site 395491002389 dimer interface [polypeptide binding]; other site 395491002390 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491002391 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 395491002392 dimer interface [polypeptide binding]; other site 395491002393 conserved gate region; other site 395491002394 putative PBP binding loops; other site 395491002395 ABC-ATPase subunit interface; other site 395491002396 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 395491002397 dimer interface [polypeptide binding]; other site 395491002398 conserved gate region; other site 395491002399 putative PBP binding loops; other site 395491002400 ABC-ATPase subunit interface; other site 395491002401 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491002402 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 395491002403 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491002404 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395491002405 Helix-turn-helix domains; Region: HTH; cl00088 395491002406 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491002407 alpha-galactosidase; Provisional; Region: PRK15076 395491002408 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 395491002409 NAD binding site [chemical binding]; other site 395491002410 sugar binding site [chemical binding]; other site 395491002411 divalent metal binding site [ion binding]; other site 395491002412 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 395491002413 dimer interface [polypeptide binding]; other site 395491002414 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 395491002415 Cupin domain; Region: Cupin_2; cl09118 395491002416 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491002417 Flavin Reductases; Region: FlaRed; cl00801 395491002418 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395491002419 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395491002420 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; cd01066 395491002421 active site 395491002422 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395491002423 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 395491002424 dimer interface [polypeptide binding]; other site 395491002425 conserved gate region; other site 395491002426 putative PBP binding loops; other site 395491002427 ABC-ATPase subunit interface; other site 395491002428 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491002429 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; cl00427 395491002430 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395491002431 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 395491002432 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491002433 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491002434 Walker A/P-loop; other site 395491002435 ATP binding site [chemical binding]; other site 395491002436 Q-loop/lid; other site 395491002437 ABC transporter signature motif; other site 395491002438 Walker B; other site 395491002439 D-loop; other site 395491002440 H-loop/switch region; other site 395491002441 TOBE domain; Region: TOBE_2; cl01440 395491002442 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 395491002443 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491002444 substrate binding pocket [chemical binding]; other site 395491002445 membrane-bound complex binding site; other site 395491002446 hinge residues; other site 395491002447 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491002448 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 395491002449 dimer interface [polypeptide binding]; other site 395491002450 conserved gate region; other site 395491002451 putative PBP binding loops; other site 395491002452 ABC-ATPase subunit interface; other site 395491002453 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395491002454 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491002455 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491002456 DNA-binding site [nucleotide binding]; DNA binding site 395491002457 FCD domain; Region: FCD; cl11656 395491002458 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 395491002459 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395491002460 Zn2+ binding site [ion binding]; other site 395491002461 Mg2+ binding site [ion binding]; other site 395491002462 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395491002463 GAF domain; Region: GAF; cl15785 395491002464 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491002465 metal binding site [ion binding]; metal-binding site 395491002466 active site 395491002467 I-site; other site 395491002468 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491002469 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491002470 Histidine kinase; Region: HisKA_2; cl06527 395491002471 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; cl00075 395491002472 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395491002473 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491002474 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491002475 DNA binding site [nucleotide binding] 395491002476 domain linker motif; other site 395491002477 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395491002478 ligand binding site [chemical binding]; other site 395491002479 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 395491002480 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 395491002481 dimer interface [polypeptide binding]; other site 395491002482 conserved gate region; other site 395491002483 putative PBP binding loops; other site 395491002484 ABC-ATPase subunit interface; other site 395491002485 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491002486 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 395491002487 dimer interface [polypeptide binding]; other site 395491002488 conserved gate region; other site 395491002489 putative PBP binding loops; other site 395491002490 ABC-ATPase subunit interface; other site 395491002491 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491002492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491002493 Walker A/P-loop; other site 395491002494 ATP binding site [chemical binding]; other site 395491002495 Q-loop/lid; other site 395491002496 ABC transporter signature motif; other site 395491002497 Walker B; other site 395491002498 D-loop; other site 395491002499 H-loop/switch region; other site 395491002500 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 395491002501 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395491002502 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491002503 AAA domain; Region: AAA_23; pfam13476 395491002504 AAA domain; Region: AAA_27; pfam13514 395491002505 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 395491002506 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 395491002507 active site 395491002508 metal binding site [ion binding]; metal-binding site 395491002509 DNA binding site [nucleotide binding] 395491002510 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491002511 Uncharacterized ALDH ( RL0313) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_RL0313; cd07148 395491002512 NAD(P) binding site [chemical binding]; other site 395491002513 catalytic residues [active] 395491002514 acetolactate synthase; Reviewed; Region: PRK08322 395491002515 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395491002516 PYR/PP interface [polypeptide binding]; other site 395491002517 dimer interface [polypeptide binding]; other site 395491002518 TPP binding site [chemical binding]; other site 395491002519 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395491002520 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 395491002521 TPP-binding site [chemical binding]; other site 395491002522 dimer interface [polypeptide binding]; other site 395491002523 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395491002524 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395491002525 Helix-turn-helix domains; Region: HTH; cl00088 395491002526 Bacterial transcriptional regulator; Region: IclR; pfam01614 395491002527 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 395491002528 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 395491002529 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491002530 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 395491002531 dimer interface [polypeptide binding]; other site 395491002532 conserved gate region; other site 395491002533 putative PBP binding loops; other site 395491002534 ABC-ATPase subunit interface; other site 395491002535 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395491002536 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491002537 Walker A/P-loop; other site 395491002538 ATP binding site [chemical binding]; other site 395491002539 Q-loop/lid; other site 395491002540 ABC transporter signature motif; other site 395491002541 Walker B; other site 395491002542 D-loop; other site 395491002543 H-loop/switch region; other site 395491002544 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491002545 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 395491002546 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491002547 Walker A/P-loop; other site 395491002548 ATP binding site [chemical binding]; other site 395491002549 Q-loop/lid; other site 395491002550 ABC transporter signature motif; other site 395491002551 Walker B; other site 395491002552 D-loop; other site 395491002553 H-loop/switch region; other site 395491002554 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491002555 C-terminal peptidase (prc); Region: prc; TIGR00225 395491002556 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 395491002557 protein binding site [polypeptide binding]; other site 395491002558 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395491002559 Catalytic dyad [active] 395491002560 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 395491002561 MEKHLA domain; Region: MEKHLA; pfam08670 395491002562 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395491002563 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395491002564 metal binding site [ion binding]; metal-binding site 395491002565 putative dimer interface [polypeptide binding]; other site 395491002566 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491002567 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491002568 Walker A/P-loop; other site 395491002569 ATP binding site [chemical binding]; other site 395491002570 Q-loop/lid; other site 395491002571 ABC transporter signature motif; other site 395491002572 Walker B; other site 395491002573 D-loop; other site 395491002574 H-loop/switch region; other site 395491002575 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491002576 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491002577 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 395491002578 dimer interface [polypeptide binding]; other site 395491002579 conserved gate region; other site 395491002580 putative PBP binding loops; other site 395491002581 ABC-ATPase subunit interface; other site 395491002582 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491002583 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 395491002584 substrate binding pocket [chemical binding]; other site 395491002585 membrane-bound complex binding site; other site 395491002586 hinge residues; other site 395491002587 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395491002588 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 395491002589 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491002590 DNA-binding site [nucleotide binding]; DNA binding site 395491002591 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 395491002592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491002593 homodimer interface [polypeptide binding]; other site 395491002594 catalytic residue [active] 395491002595 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395491002596 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 395491002597 active site 395491002598 phosphorylation site [posttranslational modification] 395491002599 intermolecular recognition site; other site 395491002600 dimerization interface [polypeptide binding]; other site 395491002601 Helix-turn-helix domains; Region: HTH; cl00088 395491002602 DNA binding residues [nucleotide binding] 395491002603 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 395491002604 DnaA N-terminal domain; Region: DnaA_N; pfam11638 395491002605 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 395491002606 Walker A motif; other site 395491002607 ATP binding site [chemical binding]; other site 395491002608 Walker B motif; other site 395491002609 arginine finger; other site 395491002610 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 395491002611 DnaA box-binding interface [nucleotide binding]; other site 395491002612 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 395491002613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002614 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 395491002615 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 395491002616 FeS/SAM binding site; other site 395491002617 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 395491002618 active site 395491002619 dimerization interface [polypeptide binding]; other site 395491002620 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_13; cd08354 395491002621 putative metal binding site [ion binding]; other site 395491002622 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491002623 ribonuclease PH; Reviewed; Region: rph; PRK00173 395491002624 Ribonuclease PH; Region: RNase_PH_bact; cd11362 395491002625 hexamer interface [polypeptide binding]; other site 395491002626 active site 395491002627 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 395491002628 Helix-turn-helix domains; Region: HTH; cl00088 395491002629 DNA-binding site [nucleotide binding]; DNA binding site 395491002630 heat shock protein GrpE; Provisional; Region: PRK14141 395491002631 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 395491002632 dimer interface [polypeptide binding]; other site 395491002633 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 395491002634 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 395491002635 active site 395491002636 tetramer interface [polypeptide binding]; other site 395491002637 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 395491002638 putative dimer interface [polypeptide binding]; other site 395491002639 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 395491002640 Uncharacterized conserved protein (DUF2277); Region: DUF2277; cl02349 395491002641 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; cl16911 395491002642 S-adenosylmethionine synthetase; Validated; Region: PRK05250 395491002643 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 395491002644 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 395491002645 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 395491002646 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395491002647 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 395491002648 non-specific DNA binding site [nucleotide binding]; other site 395491002649 salt bridge; other site 395491002650 sequence-specific DNA binding site [nucleotide binding]; other site 395491002651 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 395491002652 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 395491002653 putative active site [active] 395491002654 catalytic triad [active] 395491002655 putative dimer interface [polypeptide binding]; other site 395491002656 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395491002657 cyclase homology domain; Region: CHD; cd07302 395491002658 nucleotidyl binding site; other site 395491002659 metal binding site [ion binding]; metal-binding site 395491002660 dimer interface [polypeptide binding]; other site 395491002661 Domain of unknown function DUF302; Region: DUF302; cl01364 395491002662 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395491002663 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 395491002664 putative active site [active] 395491002665 catalytic triad [active] 395491002666 putative dimer interface [polypeptide binding]; other site 395491002667 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 395491002668 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491002669 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 395491002670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491002671 DNA-binding site [nucleotide binding]; DNA binding site 395491002672 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 395491002673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491002674 homodimer interface [polypeptide binding]; other site 395491002675 catalytic residue [active] 395491002676 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491002677 Chorismate mutase type II; Region: CM_2; cl00693 395491002678 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 395491002679 Transporter associated domain; Region: CorC_HlyC; cl08393 395491002680 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 395491002681 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 395491002682 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491002683 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 395491002684 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395491002685 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 395491002686 FeS/SAM binding site; other site 395491002687 TRAM domain; Region: TRAM; cl01282 395491002688 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395491002689 putative acyl-acceptor binding pocket; other site 395491002690 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395491002691 metal binding site 2 [ion binding]; metal-binding site 395491002692 putative DNA binding helix; other site 395491002693 metal binding site 1 [ion binding]; metal-binding site 395491002694 dimer interface [polypeptide binding]; other site 395491002695 structural Zn2+ binding site [ion binding]; other site 395491002696 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395491002697 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491002698 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 395491002699 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 395491002700 NifU-like domain; Region: NifU; cl00484 395491002701 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 395491002702 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 395491002703 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 395491002704 active site 395491002705 HIGH motif; other site 395491002706 dimer interface [polypeptide binding]; other site 395491002707 KMSKS motif; other site 395491002708 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_16; cd07263 395491002709 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491002710 Peptidase M15; Region: Peptidase_M15_3; cl01194 395491002711 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491002712 Helix-turn-helix domains; Region: HTH; cl00088 395491002713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002714 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491002715 NAD(P) binding site [chemical binding]; other site 395491002716 active site 395491002717 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 395491002718 PII uridylyl-transferase; Provisional; Region: PRK05092 395491002719 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395491002720 metal binding triad; other site 395491002721 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395491002722 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491002723 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 395491002724 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 395491002725 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 395491002726 MutS domain I; Region: MutS_I; pfam01624 395491002727 MutS domain II; Region: MutS_II; pfam05188 395491002728 MutS family domain IV; Region: MutS_IV; pfam05190 395491002729 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 395491002730 Walker A/P-loop; other site 395491002731 ATP binding site [chemical binding]; other site 395491002732 Q-loop/lid; other site 395491002733 ABC transporter signature motif; other site 395491002734 Walker B; other site 395491002735 D-loop; other site 395491002736 H-loop/switch region; other site 395491002737 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 395491002738 Malic enzyme, N-terminal domain; Region: malic; pfam00390 395491002739 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 395491002740 putative NAD(P) binding site [chemical binding]; other site 395491002741 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 395491002742 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491002743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491002744 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491002745 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 395491002746 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 395491002747 dimer interface [polypeptide binding]; other site 395491002748 phosphorylation site [posttranslational modification] 395491002749 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 395491002750 ATP binding site [chemical binding]; other site 395491002751 Mg2+ binding site [ion binding]; other site 395491002752 G-X-G motif; other site 395491002753 Response regulator receiver domain; Region: Response_reg; pfam00072 395491002754 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 395491002755 active site 395491002756 phosphorylation site [posttranslational modification] 395491002757 intermolecular recognition site; other site 395491002758 dimerization interface [polypeptide binding]; other site 395491002759 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 395491002760 lipoprotein signal peptidase; Provisional; Region: PRK14787 395491002761 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395491002762 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 395491002763 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395491002764 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 395491002765 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 395491002766 dimer interface [polypeptide binding]; other site 395491002767 ADP-ribose binding site [chemical binding]; other site 395491002768 active site 395491002769 nudix motif; other site 395491002770 metal binding site [ion binding]; metal-binding site 395491002771 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 395491002772 putative hydrophobic ligand binding site [chemical binding]; other site 395491002773 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395491002774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491002775 Coenzyme A binding pocket [chemical binding]; other site 395491002776 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 395491002777 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 395491002778 IHF dimer interface [polypeptide binding]; other site 395491002779 IHF - DNA interface [nucleotide binding]; other site 395491002780 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 395491002781 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 395491002782 tandem repeat interface [polypeptide binding]; other site 395491002783 oligomer interface [polypeptide binding]; other site 395491002784 active site residues [active] 395491002785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 395491002786 OstA-like protein; Region: OstA; cl00844 395491002787 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 395491002788 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 395491002789 Walker A/P-loop; other site 395491002790 ATP binding site [chemical binding]; other site 395491002791 Q-loop/lid; other site 395491002792 ABC transporter signature motif; other site 395491002793 Walker B; other site 395491002794 D-loop; other site 395491002795 H-loop/switch region; other site 395491002796 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 395491002797 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 395491002798 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 395491002799 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395491002800 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 395491002801 EamA-like transporter family; Region: EamA; cl01037 395491002802 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 A site; Region: RaiA; cd00552 395491002803 30S subunit binding site; other site 395491002804 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 395491002805 active site 395491002806 phosphorylation site [posttranslational modification] 395491002807 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491002808 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 395491002809 substrate binding site [chemical binding]; other site 395491002810 dimer interface [polypeptide binding]; other site 395491002811 ATP binding site [chemical binding]; other site 395491002812 RmuC family; Region: RmuC; pfam02646 395491002813 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 395491002814 heme-binding site [chemical binding]; other site 395491002815 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491002816 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491002817 dimer interface [polypeptide binding]; other site 395491002818 putative CheW interface [polypeptide binding]; other site 395491002819 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 395491002820 active site 395491002821 catalytic residues [active] 395491002822 metal binding site [ion binding]; metal-binding site 395491002823 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 395491002824 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 395491002825 oligomeric interface; other site 395491002826 putative active site [active] 395491002827 homodimer interface [polypeptide binding]; other site 395491002828 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 395491002829 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 395491002830 putative active site [active] 395491002831 substrate binding site [chemical binding]; other site 395491002832 putative cosubstrate binding site; other site 395491002833 catalytic site [active] 395491002834 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 395491002835 substrate binding site [chemical binding]; other site 395491002836 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 395491002837 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 395491002838 dimerization interface 3.5A [polypeptide binding]; other site 395491002839 active site 395491002840 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 395491002841 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 395491002842 metal binding site [ion binding]; metal-binding site 395491002843 dimer interface [polypeptide binding]; other site 395491002844 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 395491002845 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 395491002846 trimer interface [polypeptide binding]; other site 395491002847 active site 395491002848 substrate binding site [chemical binding]; other site 395491002849 CoA binding site [chemical binding]; other site 395491002850 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395491002851 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 395491002852 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 395491002853 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491002854 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395491002855 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 395491002856 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 395491002857 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395491002858 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 395491002859 DNA binding site [nucleotide binding] 395491002860 active site 395491002861 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395491002862 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 395491002863 tetramer interface [polypeptide binding]; other site 395491002864 active site 395491002865 Mg2+/Mn2+ binding site [ion binding]; other site 395491002866 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; cl09108 395491002867 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 395491002868 phosphate binding site [ion binding]; other site 395491002869 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 395491002870 feedback inhibition sensing region; other site 395491002871 homohexameric interface [polypeptide binding]; other site 395491002872 carbamate kinase; Reviewed; Region: PRK12686 395491002873 nucleotide binding site [chemical binding]; other site 395491002874 N-acetyl-L-glutamate binding site [chemical binding]; other site 395491002875 RNA polymerase sigma factor; Provisional; Region: PRK12514 395491002876 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491002877 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 395491002878 DNA binding residues [nucleotide binding] 395491002879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 395491002880 Anti-sigma-K factor rskA; Region: RskA; pfam10099 395491002881 Fasciclin domain; Region: Fasciclin; cl02663 395491002882 PAS domain S-box; Region: sensory_box; TIGR00229 395491002883 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491002884 Histidine kinase; Region: HisKA_2; cl06527 395491002885 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 395491002886 ATP binding site [chemical binding]; other site 395491002887 Mg2+ binding site [ion binding]; other site 395491002888 G-X-G motif; other site 395491002889 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 protein; Region: CSP_CDS; cd04458 395491002890 DNA-binding site [nucleotide binding]; DNA binding site 395491002891 RNA-binding motif; other site 395491002892 Predicted GTPase [General function prediction only]; Region: COG0218 395491002893 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 395491002894 G1 box; other site 395491002895 GTP/Mg2+ binding site [chemical binding]; other site 395491002896 Switch I region; other site 395491002897 G2 box; other site 395491002898 G3 box; other site 395491002899 Switch II region; other site 395491002900 G4 box; other site 395491002901 G5 box; other site 395491002902 membrane protein insertase; Provisional; Region: PRK01318 395491002903 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 395491002904 Ribonuclease P; Region: Ribonuclease_P; cl00457 395491002905 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 395491002906 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 395491002907 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; cl01054 395491002908 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491002909 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491002910 dimer interface [polypeptide binding]; other site 395491002911 putative CheW interface [polypeptide binding]; other site 395491002912 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395491002913 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; cl01054 395491002914 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 395491002915 ATP binding site [chemical binding]; other site 395491002916 Mg2+ binding site [ion binding]; other site 395491002917 G-X-G motif; other site 395491002918 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 395491002919 TolB amino-terminal domain; Region: TolB_N; cl00639 395491002920 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 395491002921 TPR motif; other site 395491002922 binding surface 395491002923 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 395491002924 binding surface 395491002925 TPR motif; other site 395491002926 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491002927 C-terminal domain of eIF4-gamma/eIF5/eIF2b-epsilon; Region: W2; cl00692 395491002928 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 395491002929 S-adenosylmethionine binding site [chemical binding]; other site 395491002930 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; cl16911 395491002931 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 395491002932 Helix-turn-helix domains; Region: HTH; cl00088 395491002933 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491002934 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 395491002935 active site 395491002936 catalytic tetrad [active] 395491002937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 395491002938 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 395491002939 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395491002940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002941 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395491002942 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395491002943 putative NAD(P) binding site [chemical binding]; other site 395491002944 putative active site [active] 395491002945 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395491002946 Proline racemase; Region: Pro_racemase; pfam05544 395491002947 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395491002948 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491002949 Helix-turn-helix domains; Region: HTH; cl00088 395491002950 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491002951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491002952 NAD(P) binding site [chemical binding]; other site 395491002953 active site 395491002954 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491002955 metal binding site [ion binding]; metal-binding site 395491002956 active site 395491002957 I-site; other site 395491002958 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491002959 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 395491002960 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 395491002961 putative switch regulator; other site 395491002962 non-specific DNA interactions [nucleotide binding]; other site 395491002963 DNA binding site [nucleotide binding] 395491002964 sequence specific DNA binding site [nucleotide binding]; other site 395491002965 putative cAMP binding site [chemical binding]; other site 395491002966 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491002967 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491002968 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395491002969 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 395491002970 ligand binding site [chemical binding]; other site 395491002971 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 395491002972 TM-ABC transporter signature motif; other site 395491002973 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491002974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491002975 Walker A/P-loop; other site 395491002976 ATP binding site [chemical binding]; other site 395491002977 Q-loop/lid; other site 395491002978 ABC transporter signature motif; other site 395491002979 Walker B; other site 395491002980 D-loop; other site 395491002981 H-loop/switch region; other site 395491002982 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 395491002983 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491002984 active site 395491002985 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 395491002986 active site 395491002987 substrate binding pocket [chemical binding]; other site 395491002988 dimer interface [polypeptide binding]; other site 395491002989 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491002990 metal binding site [ion binding]; metal-binding site 395491002991 active site 395491002992 I-site; other site 395491002993 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 395491002994 dimer interface [polypeptide binding]; other site 395491002995 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491002996 ligand binding site [chemical binding]; other site 395491002997 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395491002998 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395491002999 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491003000 GST_N family, unknown subfamily 4; 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_4; cd03056 395491003001 putative C-terminal domain interface [polypeptide binding]; other site 395491003002 putative GSH binding site (G-site) [chemical binding]; other site 395491003003 putative dimer interface [polypeptide binding]; other site 395491003004 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395491003005 N-terminal domain interface [polypeptide binding]; other site 395491003006 dimer interface [polypeptide binding]; other site 395491003007 substrate binding pocket (H-site) [chemical binding]; other site 395491003008 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 395491003009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003010 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395491003011 NAD(P) binding site [chemical binding]; other site 395491003012 active site 395491003013 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491003014 Helix-turn-helix domains; Region: HTH; cl00088 395491003015 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395491003016 active site 395491003017 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491003018 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 395491003019 putative substrate binding site [chemical binding]; other site 395491003020 putative ATP binding site [chemical binding]; other site 395491003021 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 395491003022 dimerization interface [polypeptide binding]; other site 395491003023 putative DNA binding site [nucleotide binding]; other site 395491003024 putative Zn2+ binding site [ion binding]; other site 395491003025 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 395491003026 Di-iron ligands [ion binding]; other site 395491003027 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 395491003028 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 395491003029 active site 395491003030 homotetramer interface [polypeptide binding]; other site 395491003031 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 395491003032 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 395491003033 active site 395491003034 dimer interface [polypeptide binding]; other site 395491003035 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 395491003036 dimer interface [polypeptide binding]; other site 395491003037 active site 395491003038 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 395491003039 AMP-binding enzyme; Region: AMP-binding; cl15778 395491003040 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491003041 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 395491003042 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 395491003043 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 395491003044 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 395491003045 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491003046 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491003047 active site 395491003048 metal binding site [ion binding]; metal-binding site 395491003049 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; cl00427 395491003050 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 395491003051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491003052 Walker A/P-loop; other site 395491003053 ATP binding site [chemical binding]; other site 395491003054 Q-loop/lid; other site 395491003055 ABC transporter signature motif; other site 395491003056 Walker B; other site 395491003057 D-loop; other site 395491003058 H-loop/switch region; other site 395491003059 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; cl00427 395491003060 NMT1-like family; Region: NMT1_2; cl15260 395491003061 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395491003062 Helix-turn-helix domains; Region: HTH; cl00088 395491003063 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491003064 Helix-turn-helix domains; Region: HTH; cl00088 395491003065 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 395491003066 dimerization interface [polypeptide binding]; other site 395491003067 CutC family; Region: CutC; cl01218 395491003068 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 395491003069 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395491003070 putative NAD(P) binding site [chemical binding]; other site 395491003071 catalytic Zn binding site [ion binding]; other site 395491003072 structural Zn binding site [ion binding]; other site 395491003073 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 395491003074 TM-ABC transporter signature motif; other site 395491003075 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491003076 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491003077 Walker A/P-loop; other site 395491003078 ATP binding site [chemical binding]; other site 395491003079 Q-loop/lid; other site 395491003080 ABC transporter signature motif; other site 395491003081 Walker B; other site 395491003082 D-loop; other site 395491003083 H-loop/switch region; other site 395491003084 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491003085 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 395491003086 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491003087 putative ligand binding site [chemical binding]; other site 395491003088 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 395491003089 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491003090 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 395491003091 active site 395491003092 catalytic tetrad [active] 395491003093 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 395491003094 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 395491003095 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 395491003096 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491003097 DNA-binding site [nucleotide binding]; DNA binding site 395491003098 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491003099 Helix-turn-helix domains; Region: HTH; cl00088 395491003100 DNA-binding site [nucleotide binding]; DNA binding site 395491003101 FCD domain; Region: FCD; cl11656 395491003102 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395491003103 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395491003104 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 395491003105 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491003106 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 395491003107 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491003108 Helix-turn-helix domains; Region: HTH; cl00088 395491003109 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491003110 hypothetical protein; Provisional; Region: PRK08317 395491003111 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 395491003112 S-adenosylmethionine binding site [chemical binding]; other site 395491003113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491003114 AAA domain; Region: AAA_18; pfam13238 395491003115 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 395491003116 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491003117 putative substrate translocation pore; other site 395491003118 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491003119 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 395491003120 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395491003121 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 395491003122 FMN binding site [chemical binding]; other site 395491003123 substrate binding site [chemical binding]; other site 395491003124 putative catalytic residue [active] 395491003125 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 395491003126 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395491003127 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 395491003128 dimer interface [polypeptide binding]; other site 395491003129 phosphorylation site [posttranslational modification] 395491003130 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 395491003131 ATP binding site [chemical binding]; other site 395491003132 Mg2+ binding site [ion binding]; other site 395491003133 G-X-G motif; other site 395491003134 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 395491003135 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 395491003136 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 395491003137 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 395491003138 dimer interface [polypeptide binding]; other site 395491003139 conserved gate region; other site 395491003140 putative PBP binding loops; other site 395491003141 ABC-ATPase subunit interface; other site 395491003142 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 395491003143 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 395491003144 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 395491003145 dimer interface [polypeptide binding]; other site 395491003146 conserved gate region; other site 395491003147 putative PBP binding loops; other site 395491003148 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; cl00427 395491003149 ABC-ATPase subunit interface; other site 395491003150 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 395491003151 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 395491003152 Walker A/P-loop; other site 395491003153 ATP binding site [chemical binding]; other site 395491003154 Q-loop/lid; other site 395491003155 ABC transporter signature motif; other site 395491003156 Walker B; other site 395491003157 D-loop; other site 395491003158 H-loop/switch region; other site 395491003159 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 395491003160 PhoU domain; Region: PhoU; pfam01895 395491003161 PhoU domain; Region: PhoU; pfam01895 395491003162 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 395491003163 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 395491003164 active site 395491003165 phosphorylation site [posttranslational modification] 395491003166 intermolecular recognition site; other site 395491003167 dimerization interface [polypeptide binding]; other site 395491003168 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 395491003169 DNA binding site [nucleotide binding] 395491003170 GcrA cell cycle regulator; Region: GcrA; cl11564 395491003171 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 395491003172 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 395491003173 inhibitor-cofactor binding pocket; inhibition site 395491003174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491003175 catalytic residue [active] 395491003176 ornithine carbamoyltransferase; Provisional; Region: PRK00779 395491003177 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395491003178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003179 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 395491003180 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 395491003181 dimerization interface [polypeptide binding]; other site 395491003182 domain crossover interface; other site 395491003183 redox-dependent activation switch; other site 395491003184 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 395491003185 Protein of unknown function (DUF525); Region: DUF525; cl01119 395491003186 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 395491003187 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 395491003188 homodimer interface [polypeptide binding]; other site 395491003189 substrate-cofactor binding pocket; other site 395491003190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491003191 catalytic residue [active] 395491003192 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 395491003193 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395491003194 trimer interface [polypeptide binding]; other site 395491003195 active site 395491003196 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 395491003197 trimer interface [polypeptide binding]; other site 395491003198 active site 395491003199 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 395491003200 active site 395491003201 Int/Topo IB signature motif; other site 395491003202 DNA binding site [nucleotide binding] 395491003203 replication factor C large subunit; Provisional; Region: PRK04195 395491003204 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 395491003205 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395491003206 Walker A motif; other site 395491003207 ATP binding site [chemical binding]; other site 395491003208 Walker B motif; other site 395491003209 arginine finger; other site 395491003210 Peptidase family M41; Region: Peptidase_M41; pfam01434 395491003211 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 395491003212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491003213 Walker A/P-loop; other site 395491003214 ATP binding site [chemical binding]; other site 395491003215 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 395491003216 Walker B; other site 395491003217 D-loop; other site 395491003218 H-loop/switch region; other site 395491003219 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 395491003220 Protein of unknown function (DUF499); Region: DUF499; pfam04465 395491003221 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 395491003222 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 395491003223 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; cl16911 395491003224 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; cl00083 395491003225 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 395491003226 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491003227 Walker A/P-loop; other site 395491003228 ATP binding site [chemical binding]; other site 395491003229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491003230 Q-loop/lid; other site 395491003231 Walker B; other site 395491003232 D-loop; other site 395491003233 H-loop/switch region; other site 395491003234 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 395491003235 ATP binding site [chemical binding]; other site 395491003236 putative Mg++ binding site [ion binding]; other site 395491003237 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 395491003238 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 395491003239 nucleotide binding region [chemical binding]; other site 395491003240 ATP-binding site [chemical binding]; other site 395491003241 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 395491003242 Domain of unknown function DUF87; Region: DUF87; pfam01935 395491003243 HerA helicase [Replication, recombination, and repair]; Region: COG0433 395491003244 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 395491003245 Protein of unknown function (DUF995); Region: DUF995; pfam06191 395491003246 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 395491003247 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 395491003248 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 395491003249 active site 395491003250 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395491003251 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395491003252 NAD binding site [chemical binding]; other site 395491003253 homodimer interface [polypeptide binding]; other site 395491003254 active site 395491003255 substrate binding site [chemical binding]; other site 395491003256 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491003257 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 395491003258 NAD binding site [chemical binding]; other site 395491003259 putative substrate binding site 2 [chemical binding]; other site 395491003260 putative substrate binding site 1 [chemical binding]; other site 395491003261 active site 395491003262 Helix-turn-helix domain; Region: HTH_18; pfam12833 395491003263 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491003264 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491003265 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491003266 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395491003267 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; cl01054 395491003268 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491003269 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491003270 dimer interface [polypeptide binding]; other site 395491003271 putative CheW interface [polypeptide binding]; other site 395491003272 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491003273 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 395491003274 substrate binding pocket [chemical binding]; other site 395491003275 membrane-bound complex binding site; other site 395491003276 hinge residues; other site 395491003277 tellurite resistance protein terB; Region: terB; cd07176 395491003278 putative metal binding site [ion binding]; other site 395491003279 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 395491003280 Catalytic site; other site 395491003281 Predicted transcriptional regulator [Transcription]; Region: COG2932 395491003282 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 395491003283 Catalytic site [active] 395491003284 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395491003285 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 395491003286 active site 395491003287 phosphorylation site [posttranslational modification] 395491003288 intermolecular recognition site; other site 395491003289 dimerization interface [polypeptide binding]; other site 395491003290 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 395491003291 DNA binding residues [nucleotide binding] 395491003292 dimerization interface [polypeptide binding]; other site 395491003293 Protein of unknown function (DUF952); Region: DUF952; cl01393 395491003294 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 395491003295 quinone interaction residues [chemical binding]; other site 395491003296 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 395491003297 active site 395491003298 catalytic residues [active] 395491003299 FMN binding site [chemical binding]; other site 395491003300 substrate binding site [chemical binding]; other site 395491003301 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 395491003302 MatE; Region: MatE; cl10513 395491003303 MatE; Region: MatE; cl10513 395491003304 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 395491003305 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 395491003306 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 395491003307 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; cl16911 395491003308 Uncharacterized conserved protein [Function unknown]; Region: COG1284 395491003309 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 395491003310 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491003311 Predicted transcriptional regulator [Transcription]; Region: COG1959 395491003312 Helix-turn-helix domains; Region: HTH; cl00088 395491003313 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 395491003314 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 395491003315 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 395491003316 ATP binding site [chemical binding]; other site 395491003317 putative Mg++ binding site [ion binding]; other site 395491003318 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 395491003319 nucleotide binding region [chemical binding]; other site 395491003320 ATP-binding site [chemical binding]; other site 395491003321 DEAD/H associated; Region: DEAD_assoc; pfam08494 395491003322 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 395491003323 putative active site [active] 395491003324 putative metal binding site [ion binding]; other site 395491003325 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 395491003326 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; cl00161 395491003327 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 395491003328 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395491003329 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395491003330 Sel1 repeat; Region: Sel1; cl02723 395491003331 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491003332 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491003333 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_9; cd07245 395491003334 dimer interface [polypeptide binding]; other site 395491003335 putative metal binding site [ion binding]; other site 395491003336 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395491003337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003338 NAD(P) binding site [chemical binding]; other site 395491003339 active site 395491003340 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 395491003341 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 395491003342 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 395491003343 FAD binding site [chemical binding]; other site 395491003344 substrate binding site [chemical binding]; other site 395491003345 catalytic residues [active] 395491003346 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 395491003347 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 395491003348 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395491003349 dimer interface [polypeptide binding]; other site 395491003350 active site 395491003351 Cupin domain; Region: Cupin_2; cl09118 395491003352 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 395491003353 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 395491003354 substrate binding site [chemical binding]; other site 395491003355 oxyanion hole (OAH) forming residues; other site 395491003356 trimer interface [polypeptide binding]; other site 395491003357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003358 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395491003359 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395491003360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 395491003361 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 protein; Region: CSP_CDS; cd04458 395491003362 DNA-binding site [nucleotide binding]; DNA binding site 395491003363 RNA-binding motif; other site 395491003364 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491003365 Helix-turn-helix domains; Region: HTH; cl00088 395491003366 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491003367 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491003368 Helix-turn-helix domains; Region: HTH; cl00088 395491003369 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 395491003370 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395491003371 Na binding site [ion binding]; other site 395491003372 PAS fold; Region: PAS_7; pfam12860 395491003373 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395491003374 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 395491003375 dimer interface [polypeptide binding]; other site 395491003376 phosphorylation site [posttranslational modification] 395491003377 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 395491003378 ATP binding site [chemical binding]; other site 395491003379 Mg2+ binding site [ion binding]; other site 395491003380 G-X-G motif; other site 395491003381 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491003382 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 395491003383 active site 395491003384 phosphorylation site [posttranslational modification] 395491003385 intermolecular recognition site; other site 395491003386 dimerization interface [polypeptide binding]; other site 395491003387 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 395491003388 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 395491003389 aspartate aminotransferase; Provisional; Region: PRK06108 395491003390 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 395491003391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491003392 homodimer interface [polypeptide binding]; other site 395491003393 catalytic residue [active] 395491003394 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395491003395 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395491003396 NAD binding site [chemical binding]; other site 395491003397 homodimer interface [polypeptide binding]; other site 395491003398 active site 395491003399 substrate binding site [chemical binding]; other site 395491003400 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 395491003401 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491003402 metal binding site [ion binding]; metal-binding site 395491003403 active site 395491003404 I-site; other site 395491003405 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491003406 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 395491003407 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 395491003408 substrate binding site [chemical binding]; other site 395491003409 oxyanion hole (OAH) forming residues; other site 395491003410 trimer interface [polypeptide binding]; other site 395491003411 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; cl15762 395491003412 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395491003413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491003414 Family description; Region: UvrD_C_2; cl15862 395491003415 BON domain; Region: BON; cl02771 395491003416 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491003417 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 395491003418 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 395491003419 hinge; other site 395491003420 active site 395491003421 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 395491003422 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 395491003423 histidinol dehydrogenase; Region: hisD; TIGR00069 395491003424 NAD binding site [chemical binding]; other site 395491003425 dimerization interface [polypeptide binding]; other site 395491003426 product binding site; other site 395491003427 substrate binding site [chemical binding]; other site 395491003428 zinc binding site [ion binding]; other site 395491003429 catalytic residues [active] 395491003430 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 395491003431 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395491003432 active site 395491003433 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 395491003434 rRNA binding site [nucleotide binding]; other site 395491003435 predicted 30S ribosome binding site; other site 395491003436 Maf-like protein; Region: Maf; pfam02545 395491003437 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 395491003438 active site 395491003439 dimer interface [polypeptide binding]; other site 395491003440 Domain of unknown function (DUF329); Region: DUF329; cl01144 395491003441 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 395491003442 non-specific DNA binding site [nucleotide binding]; other site 395491003443 salt bridge; other site 395491003444 sequence-specific DNA binding site [nucleotide binding]; other site 395491003445 Helix-turn-helix domains; Region: HTH; cl00088 395491003446 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395491003447 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491003448 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491003449 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 395491003450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491003451 Walker A/P-loop; other site 395491003452 ATP binding site [chemical binding]; other site 395491003453 Q-loop/lid; other site 395491003454 ABC transporter signature motif; other site 395491003455 Walker B; other site 395491003456 D-loop; other site 395491003457 H-loop/switch region; other site 395491003458 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395491003459 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 395491003460 DNA binding residues [nucleotide binding] 395491003461 dimerization interface [polypeptide binding]; other site 395491003462 short chain dehydrogenase; Provisional; Region: PRK07060 395491003463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003464 NAD(P) binding site [chemical binding]; other site 395491003465 active site 395491003466 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491003467 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491003468 Walker A/P-loop; other site 395491003469 ATP binding site [chemical binding]; other site 395491003470 Q-loop/lid; other site 395491003471 ABC transporter signature motif; other site 395491003472 Walker B; other site 395491003473 D-loop; other site 395491003474 H-loop/switch region; other site 395491003475 TOBE domain; Region: TOBE_2; cl01440 395491003476 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 395491003477 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491003478 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 395491003479 dimer interface [polypeptide binding]; other site 395491003480 conserved gate region; other site 395491003481 putative PBP binding loops; other site 395491003482 ABC-ATPase subunit interface; other site 395491003483 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491003484 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 395491003485 dimer interface [polypeptide binding]; other site 395491003486 conserved gate region; other site 395491003487 putative PBP binding loops; other site 395491003488 ABC-ATPase subunit interface; other site 395491003489 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491003490 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 395491003491 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491003492 Helix-turn-helix domains; Region: HTH; cl00088 395491003493 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491003494 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491003495 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491003496 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491003497 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 395491003498 substrate binding site [chemical binding]; other site 395491003499 ATP binding site [chemical binding]; other site 395491003500 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 395491003501 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395491003502 classical (c) SDRs; Region: SDR_c; cd05233 395491003503 NAD(P) binding site [chemical binding]; other site 395491003504 active site 395491003505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003506 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491003507 NAD(P) binding site [chemical binding]; other site 395491003508 active site 395491003509 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 395491003510 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; cl09108 395491003511 catalytic residue [active] 395491003512 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491003513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003514 Cupin domain; Region: Cupin_2; cl09118 395491003515 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 395491003516 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491003517 substrate binding site [chemical binding]; other site 395491003518 ATP binding site [chemical binding]; other site 395491003519 sorbitol dehydrogenase; Provisional; Region: PRK07067 395491003520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003521 NAD(P) binding site [chemical binding]; other site 395491003522 active site 395491003523 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395491003524 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 395491003525 putative NAD(P) binding site [chemical binding]; other site 395491003526 catalytic Zn binding site [ion binding]; other site 395491003527 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491003528 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491003529 DNA binding site [nucleotide binding] 395491003530 domain linker motif; other site 395491003531 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491003532 dimerization interface [polypeptide binding]; other site 395491003533 ligand binding site [chemical binding]; other site 395491003534 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491003535 Right handed beta helix region; Region: Beta_helix; pfam13229 395491003536 OpgC protein; Region: OpgC_C; cl00792 395491003537 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 395491003538 O-Antigen ligase; Region: Wzy_C; cl04850 395491003539 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 395491003540 active site 395491003541 catalytic triad [active] 395491003542 oxyanion hole [active] 395491003543 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395491003544 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 395491003545 DNA binding site [nucleotide binding] 395491003546 heterodimer interface [polypeptide binding]; other site 395491003547 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395491003548 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 395491003549 putative DNA binding site [nucleotide binding]; other site 395491003550 putative homodimer interface [polypeptide binding]; other site 395491003551 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 395491003552 OsmC-like protein; Region: OsmC; cl00767 395491003553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 395491003554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003555 EamA-like transporter family; Region: EamA; cl01037 395491003556 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491003557 EamA-like transporter family; Region: EamA; cl01037 395491003558 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 395491003559 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491003560 Zn binding site [ion binding]; other site 395491003561 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 395491003562 Zn binding site [ion binding]; other site 395491003563 Predicted esterase [General function prediction only]; Region: COG0400 395491003564 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 395491003565 active site 395491003566 phosphorylation site [posttranslational modification] 395491003567 intermolecular recognition site; other site 395491003568 dimerization interface [polypeptide binding]; other site 395491003569 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491003570 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 395491003571 dimer interface [polypeptide binding]; other site 395491003572 phosphorylation site [posttranslational modification] 395491003573 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 395491003574 ATP binding site [chemical binding]; other site 395491003575 Mg2+ binding site [ion binding]; other site 395491003576 G-X-G motif; other site 395491003577 Response regulator receiver domain; Region: Response_reg; pfam00072 395491003578 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 395491003579 active site 395491003580 phosphorylation site [posttranslational modification] 395491003581 intermolecular recognition site; other site 395491003582 dimerization interface [polypeptide binding]; other site 395491003583 Response regulator receiver domain; Region: Response_reg; pfam00072 395491003584 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 395491003585 active site 395491003586 phosphorylation site [posttranslational modification] 395491003587 intermolecular recognition site; other site 395491003588 dimerization interface [polypeptide binding]; other site 395491003589 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395491003590 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491003591 putative active site [active] 395491003592 heme pocket [chemical binding]; other site 395491003593 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 395491003594 dimer interface [polypeptide binding]; other site 395491003595 phosphorylation site [posttranslational modification] 395491003596 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 395491003597 ATP binding site [chemical binding]; other site 395491003598 Mg2+ binding site [ion binding]; other site 395491003599 G-X-G motif; other site 395491003600 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 395491003601 active site 395491003602 phosphorylation site [posttranslational modification] 395491003603 intermolecular recognition site; other site 395491003604 dimerization interface [polypeptide binding]; other site 395491003605 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 395491003606 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 395491003607 DNA binding residues [nucleotide binding] 395491003608 dimerization interface [polypeptide binding]; other site 395491003609 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491003610 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 395491003611 active site 395491003612 phosphorylation site [posttranslational modification] 395491003613 intermolecular recognition site; other site 395491003614 dimerization interface [polypeptide binding]; other site 395491003615 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; cl00080 395491003616 dimer interface [polypeptide binding]; other site 395491003617 phosphorylation site [posttranslational modification] 395491003618 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 395491003619 ATP binding site [chemical binding]; other site 395491003620 Mg2+ binding site [ion binding]; other site 395491003621 G-X-G motif; other site 395491003622 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 395491003623 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395491003624 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 395491003625 Protein export membrane protein; Region: SecD_SecF; cl14618 395491003626 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395491003627 Protein export membrane protein; Region: SecD_SecF; cl14618 395491003628 putative cation:proton antiport protein; Provisional; Region: PRK10669 395491003629 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395491003630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003631 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491003632 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395491003633 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 395491003634 heme-binding site [chemical binding]; other site 395491003635 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491003636 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491003637 dimer interface [polypeptide binding]; other site 395491003638 putative CheW interface [polypeptide binding]; other site 395491003639 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 395491003640 Response regulator receiver domain; Region: Response_reg; pfam00072 395491003641 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 395491003642 active site 395491003643 phosphorylation site [posttranslational modification] 395491003644 intermolecular recognition site; other site 395491003645 dimerization interface [polypeptide binding]; other site 395491003646 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395491003647 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; cd00088 395491003648 putative binding surface; other site 395491003649 active site 395491003650 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395491003651 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 395491003652 ATP binding site [chemical binding]; other site 395491003653 Mg2+ binding site [ion binding]; other site 395491003654 G-X-G motif; other site 395491003655 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 395491003656 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395491003657 putative CheA interaction surface; other site 395491003658 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395491003659 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 395491003660 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; cl16911 395491003661 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395491003662 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 395491003663 active site 395491003664 phosphorylation site [posttranslational modification] 395491003665 intermolecular recognition site; other site 395491003666 dimerization interface [polypeptide binding]; other site 395491003667 CheB methylesterase; Region: CheB_methylest; pfam01339 395491003668 Response regulator receiver domain; Region: Response_reg; pfam00072 395491003669 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 395491003670 active site 395491003671 phosphorylation site [posttranslational modification] 395491003672 intermolecular recognition site; other site 395491003673 dimerization interface [polypeptide binding]; other site 395491003674 CheD chemotactic sensory transduction; Region: CheD; cl00810 395491003675 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 395491003676 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 395491003677 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 395491003678 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 395491003679 DNA binding residues [nucleotide binding] 395491003680 dimerization interface [polypeptide binding]; other site 395491003681 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 395491003682 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 395491003683 DNA binding residues [nucleotide binding] 395491003684 dimerization interface [polypeptide binding]; other site 395491003685 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 395491003686 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 395491003687 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 395491003688 FliG C-terminal domain; Region: FliG_C; pfam01706 395491003689 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 395491003690 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 395491003691 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 395491003692 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 395491003693 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395491003694 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 395491003695 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 395491003696 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395491003697 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 395491003698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491003699 Walker A motif; other site 395491003700 ATP binding site [chemical binding]; other site 395491003701 Walker B motif; other site 395491003702 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 395491003703 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 395491003704 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 395491003705 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395491003706 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 395491003707 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 395491003708 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395491003709 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 395491003710 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 395491003711 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 395491003712 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 395491003713 MgtE intracellular N domain; Region: MgtE_N; cl15244 395491003714 Flagellar L-ring protein; Region: FlgH; cl00905 395491003715 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 395491003716 FliP family; Region: FliP; cl00593 395491003717 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 395491003718 flagellin; Reviewed; Region: PRK12687 395491003719 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395491003720 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395491003721 flagellin; Reviewed; Region: PRK12687 395491003722 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395491003723 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395491003724 flagellin; Reviewed; Region: PRK12687 395491003725 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395491003726 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395491003727 flagellin; Reviewed; Region: PRK12687 395491003728 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395491003729 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395491003730 flagellar motor protein MotB; Validated; Region: motB; PRK05996 395491003731 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395491003732 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395491003733 ligand binding site [chemical binding]; other site 395491003734 chemotaxis protein; Reviewed; Region: PRK12798 395491003735 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 395491003736 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 catalyze...; Region: LT_GEWL; cd00254 395491003737 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395491003738 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491003739 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; cl09944 395491003740 active site 395491003741 phosphorylation site [posttranslational modification] 395491003742 intermolecular recognition site; other site 395491003743 dimerization interface [polypeptide binding]; other site 395491003744 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 395491003745 DNA binding site [nucleotide binding] 395491003746 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 395491003747 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 395491003748 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 395491003749 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395491003750 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 395491003751 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 395491003752 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395491003753 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395491003754 Flagellar protein FlaF; Region: FlaF; cl11454 395491003755 Flagellar protein FlbT; Region: FlbT; cl11455 395491003756 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 395491003757 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 395491003758 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 395491003759 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 395491003760 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 395491003761 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 395491003762 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12710 395491003763 Rod binding protein; Region: Rod-binding; cl01626 395491003764 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 395491003765 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395491003766 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 395491003767 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 395491003768 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 395491003769 homodimer interface [polypeptide binding]; other site 395491003770 NADP binding site [chemical binding]; other site 395491003771 substrate binding site [chemical binding]; other site 395491003772 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491003773 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491003774 DNA binding site [nucleotide binding] 395491003775 domain linker motif; other site 395491003776 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395491003777 ligand binding site [chemical binding]; other site 395491003778 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491003779 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 395491003780 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491003781 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 395491003782 putative PBP binding loops; other site 395491003783 dimer interface [polypeptide binding]; other site 395491003784 ABC-ATPase subunit interface; other site 395491003785 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 395491003786 dimer interface [polypeptide binding]; other site 395491003787 conserved gate region; other site 395491003788 putative PBP binding loops; other site 395491003789 ABC-ATPase subunit interface; other site 395491003790 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 395491003791 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 395491003792 active site 395491003793 catalytic site [active] 395491003794 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491003795 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491003796 Walker A/P-loop; other site 395491003797 ATP binding site [chemical binding]; other site 395491003798 Q-loop/lid; other site 395491003799 ABC transporter signature motif; other site 395491003800 Walker B; other site 395491003801 D-loop; other site 395491003802 H-loop/switch region; other site 395491003803 TOBE domain; Region: TOBE_2; cl01440 395491003804 TOBE domain; Region: TOBE_2; cl01440 395491003805 Dehydratase family; Region: ILVD_EDD; cl00340 395491003806 6-phosphogluconate dehydratase; Region: edd; TIGR01196 395491003807 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 395491003808 putative active site [active] 395491003809 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 395491003810 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395491003811 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395491003812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003813 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395491003814 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395491003815 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395491003816 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395491003817 HI0933-like protein; Region: HI0933_like; pfam03486 395491003818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003819 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 395491003820 dimerization interface [polypeptide binding]; other site 395491003821 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491003822 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491003823 dimer interface [polypeptide binding]; other site 395491003824 putative CheW interface [polypeptide binding]; other site 395491003825 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; cl01054 395491003826 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491003827 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491003828 dimer interface [polypeptide binding]; other site 395491003829 putative CheW interface [polypeptide binding]; other site 395491003830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491003831 Helix-turn-helix domains; Region: HTH; cl00088 395491003832 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 395491003833 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 395491003834 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 395491003835 tetramer interface [polypeptide binding]; other site 395491003836 active site 395491003837 Mg2+/Mn2+ binding site [ion binding]; other site 395491003838 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395491003839 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 395491003840 non-specific DNA binding site [nucleotide binding]; other site 395491003841 salt bridge; other site 395491003842 sequence-specific DNA binding site [nucleotide binding]; other site 395491003843 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 395491003844 Domain of unknown function (DUF955); Region: DUF955; cl01076 395491003845 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 395491003846 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 395491003847 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491003848 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 395491003849 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 395491003850 Walker A/P-loop; other site 395491003851 ATP binding site [chemical binding]; other site 395491003852 Q-loop/lid; other site 395491003853 ABC transporter signature motif; other site 395491003854 Walker B; other site 395491003855 D-loop; other site 395491003856 H-loop/switch region; other site 395491003857 TOBE domain; Region: TOBE_2; cl01440 395491003858 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 395491003859 dimer interface [polypeptide binding]; other site 395491003860 conserved gate region; other site 395491003861 putative PBP binding loops; other site 395491003862 ABC-ATPase subunit interface; other site 395491003863 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395491003864 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 395491003865 dimer interface [polypeptide binding]; other site 395491003866 conserved gate region; other site 395491003867 putative PBP binding loops; other site 395491003868 ABC-ATPase subunit interface; other site 395491003869 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 395491003870 AsmA-like C-terminal region; Region: AsmA_2; cl15864 395491003871 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 395491003872 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 395491003873 AMP-binding enzyme; Region: AMP-binding; cl15778 395491003874 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491003875 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395491003876 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491003877 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 395491003878 dimer interface [polypeptide binding]; other site 395491003879 phosphorylation site [posttranslational modification] 395491003880 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 395491003881 ATP binding site [chemical binding]; other site 395491003882 Mg2+ binding site [ion binding]; other site 395491003883 G-X-G motif; other site 395491003884 Phasin protein; Region: Phasin_2; cl11491 395491003885 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 395491003886 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491003887 Helix-turn-helix domains; Region: HTH; cl00088 395491003888 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 395491003889 dimerization interface [polypeptide binding]; other site 395491003890 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395491003891 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 395491003892 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491003893 tetrameric interface [polypeptide binding]; other site 395491003894 NAD binding site [chemical binding]; other site 395491003895 catalytic residues [active] 395491003896 Helix-turn-helix domains; Region: HTH; cl00088 395491003897 Rrf2 family protein; Region: rrf2_super; TIGR00738 395491003898 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 395491003899 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491003900 peptide binding site [polypeptide binding]; other site 395491003901 dipeptide transporter permease DppB; Provisional; Region: PRK10914 395491003902 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 395491003903 dimer interface [polypeptide binding]; other site 395491003904 conserved gate region; other site 395491003905 putative PBP binding loops; other site 395491003906 ABC-ATPase subunit interface; other site 395491003907 dipeptide transporter; Provisional; Region: PRK10913 395491003908 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395491003909 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 395491003910 dimer interface [polypeptide binding]; other site 395491003911 conserved gate region; other site 395491003912 putative PBP binding loops; other site 395491003913 ABC-ATPase subunit interface; other site 395491003914 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 395491003915 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491003916 Walker A/P-loop; other site 395491003917 ATP binding site [chemical binding]; other site 395491003918 Q-loop/lid; other site 395491003919 ABC transporter signature motif; other site 395491003920 Walker B; other site 395491003921 D-loop; other site 395491003922 H-loop/switch region; other site 395491003923 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491003924 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 395491003925 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491003926 Walker A/P-loop; other site 395491003927 ATP binding site [chemical binding]; other site 395491003928 Q-loop/lid; other site 395491003929 ABC transporter signature motif; other site 395491003930 Walker B; other site 395491003931 D-loop; other site 395491003932 H-loop/switch region; other site 395491003933 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491003934 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 395491003935 AAA domain; Region: AAA_33; pfam13671 395491003936 ATP-binding site [chemical binding]; other site 395491003937 Gluconate-6-phosphate binding site [chemical binding]; other site 395491003938 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395491003939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003941 Phospholipid methyltransferase; Region: PEMT; cl00763 395491003942 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 395491003943 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 395491003944 malonyl-CoA binding site [chemical binding]; other site 395491003945 dimer interface [polypeptide binding]; other site 395491003946 active site 395491003947 product binding site; other site 395491003948 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 395491003949 TPR motif; other site 395491003950 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395491003951 binding surface 395491003952 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 395491003953 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491003954 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 395491003955 DNA binding residues [nucleotide binding] 395491003956 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395491003957 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 395491003958 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 395491003959 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 395491003960 substrate binding site; other site 395491003961 tetramer interface; other site 395491003962 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395491003963 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 395491003964 NADP binding site [chemical binding]; other site 395491003965 active site 395491003966 putative substrate binding site [chemical binding]; other site 395491003967 Cupin domain; Region: Cupin_2; cl09118 395491003968 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 395491003969 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 395491003970 NADP binding site [chemical binding]; other site 395491003971 active site 395491003972 putative substrate binding site [chemical binding]; other site 395491003973 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 395491003974 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395491003975 NADP-binding site; other site 395491003976 homotetramer interface [polypeptide binding]; other site 395491003977 substrate binding site [chemical binding]; other site 395491003978 homodimer interface [polypeptide binding]; other site 395491003979 active site 395491003980 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 395491003981 NeuB family; Region: NeuB; cl00496 395491003982 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 395491003983 NeuB binding interface [polypeptide binding]; other site 395491003984 putative substrate binding site [chemical binding]; other site 395491003985 short chain dehydrogenase; Provisional; Region: PRK06841 395491003986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491003987 NAD(P) binding site [chemical binding]; other site 395491003988 active site 395491003989 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491003990 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 395491003991 NAD(P) binding site [chemical binding]; other site 395491003992 catalytic residues [active] 395491003993 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 395491003994 ligand binding site; other site 395491003995 tetramer interface; other site 395491003996 transketolase; Reviewed; Region: PRK05899 395491003997 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 395491003998 TPP-binding site [chemical binding]; other site 395491003999 dimer interface [polypeptide binding]; other site 395491004000 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 395491004001 PYR/PP interface [polypeptide binding]; other site 395491004002 dimer interface [polypeptide binding]; other site 395491004003 TPP binding site [chemical binding]; other site 395491004004 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395491004005 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 395491004006 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 395491004007 trimer interface [polypeptide binding]; other site 395491004008 active site 395491004009 substrate binding site [chemical binding]; other site 395491004010 CoA binding site [chemical binding]; other site 395491004011 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; cl16911 395491004012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491004013 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395491004014 NAD(P) binding site [chemical binding]; other site 395491004015 active site 395491004016 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491004017 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 395491004018 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395491004019 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 395491004020 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 395491004021 Walker A/P-loop; other site 395491004022 ATP binding site [chemical binding]; other site 395491004023 Q-loop/lid; other site 395491004024 ABC transporter signature motif; other site 395491004025 Walker B; other site 395491004026 D-loop; other site 395491004027 H-loop/switch region; other site 395491004028 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 395491004029 putative carbohydrate binding site [chemical binding]; other site 395491004030 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; cl16911 395491004031 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; cl16911 395491004032 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395491004033 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 395491004034 active site 395491004035 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 395491004036 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491004037 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 395491004038 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 395491004039 Probable Catalytic site; other site 395491004040 metal-binding site 395491004041 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 395491004042 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491004043 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491004044 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 395491004045 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; cl16911 395491004046 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 395491004047 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 395491004048 Helix-turn-helix domains; Region: HTH; cl00088 395491004049 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 395491004050 MobA/MobL family; Region: MobA_MobL; pfam03389 395491004051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491004052 Family description; Region: UvrD_C_2; cl15862 395491004053 Dtr system oriT relaxase; Provisional; Region: PRK13826 395491004054 Dtr system oriT relaxase; Provisional; Region: PRK13826 395491004055 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 395491004056 active site 395491004057 NTP binding site [chemical binding]; other site 395491004058 metal binding triad [ion binding]; metal-binding site 395491004059 antibiotic binding site [chemical binding]; other site 395491004060 HEPN domain; Region: HEPN; cl00824 395491004061 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 395491004062 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 395491004063 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; cl16911 395491004064 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_19; cd07262 395491004065 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 395491004066 putative substrate translocation pore; other site 395491004067 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491004068 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 395491004069 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; cl09108 395491004070 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 key...; Region: CBS_pair_IMPDH; cd04601 395491004071 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 the guanine...; Region: IMPDH; cd00381 395491004072 active site 395491004073 MAPEG family; Region: MAPEG; cl09190 395491004074 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 395491004075 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 395491004076 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 395491004077 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; cl01155 395491004078 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491004079 Helix-turn-helix domains; Region: HTH; cl00088 395491004080 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 395491004081 Helix-turn-helix domains; Region: HTH; cl00088 395491004082 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 395491004083 dimerization interface [polypeptide binding]; other site 395491004084 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395491004085 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 395491004086 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 395491004087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 395491004088 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 395491004089 Phosphate transporter family; Region: PHO4; cl00396 395491004090 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_9; cd04666 395491004091 nudix motif; other site 395491004092 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491004093 Helix-turn-helix domains; Region: HTH; cl00088 395491004094 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 395491004095 dimerization interface [polypeptide binding]; other site 395491004096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491004097 oligomerization interface [polypeptide binding]; other site 395491004098 active site 395491004099 NAD+ binding site [chemical binding]; other site 395491004100 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 395491004101 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491004102 putative NAD(P) binding site [chemical binding]; other site 395491004103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491004104 Helix-turn-helix domains; Region: HTH; cl00088 395491004105 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 395491004106 dimerization interface [polypeptide binding]; other site 395491004107 Helix-turn-helix domains; Region: HTH; cl00088 395491004108 transcriptional activator TtdR; Provisional; Region: PRK09801 395491004109 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 395491004110 putative effector binding pocket; other site 395491004111 dimerization interface [polypeptide binding]; other site 395491004112 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 395491004113 FAD binding domain; Region: FAD_binding_4; pfam01565 395491004114 FAD binding domain; Region: FAD_binding_4; pfam01565 395491004115 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 395491004116 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 395491004117 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 395491004118 Cysteine-rich domain; Region: CCG; pfam02754 395491004119 Cysteine-rich domain; Region: CCG; pfam02754 395491004120 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; cl01155 395491004121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395491004122 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491004123 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491004124 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 395491004125 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 395491004126 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 395491004127 motif II; other site 395491004128 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491004129 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 395491004130 active site 395491004131 catalytic tetrad [active] 395491004132 Domain of unknown function (DUF305); Region: DUF305; cl15795 395491004133 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 395491004134 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 ATP-dependent...; Region: HisRS-like_core; cd00773 395491004135 dimer interface [polypeptide binding]; other site 395491004136 motif 1; other site 395491004137 active site 395491004138 motif 2; other site 395491004139 motif 3; other site 395491004140 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 395491004141 anticodon binding site; other site 395491004142 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 395491004143 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 attaches...; Region: class_II_aaRS-like_core; cl00268 395491004144 motif 1; other site 395491004145 dimer interface [polypeptide binding]; other site 395491004146 active site 395491004147 motif 2; other site 395491004148 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 attaches...; Region: class_II_aaRS-like_core; cl00268 395491004149 motif 3; other site 395491004150 ATP phosphoribosyltransferase; Region: HisG; cl15266 395491004151 DoxX; Region: DoxX; cl00976 395491004152 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 395491004153 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 395491004154 C-terminal domain interface [polypeptide binding]; other site 395491004155 GSH binding site (G-site) [chemical binding]; other site 395491004156 dimer interface [polypeptide binding]; other site 395491004157 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 395491004158 dimer interface [polypeptide binding]; other site 395491004159 N-terminal domain interface [polypeptide binding]; other site 395491004160 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 395491004161 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 395491004162 ring oligomerisation interface [polypeptide binding]; other site 395491004163 ATP/Mg binding site [chemical binding]; other site 395491004164 stacking interactions; other site 395491004165 hinge regions; other site 395491004166 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 395491004167 oligomerisation interface [polypeptide binding]; other site 395491004168 mobile loop; other site 395491004169 roof hairpin; other site 395491004170 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 395491004171 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491004172 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491004173 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 395491004174 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 395491004175 active site 395491004176 Riboflavin kinase; Region: Flavokinase; cl03312 395491004177 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 395491004178 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395491004179 active site 395491004180 HIGH motif; other site 395491004181 nucleotide binding site [chemical binding]; other site 395491004182 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 395491004183 active site 395491004184 KMSKS motif; other site 395491004185 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 395491004186 tRNA binding surface [nucleotide binding]; other site 395491004187 anticodon binding site; other site 395491004188 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 395491004189 nucleoside/Zn binding site; other site 395491004190 dimer interface [polypeptide binding]; other site 395491004191 catalytic motif [active] 395491004192 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395491004193 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 395491004194 RNA binding surface [nucleotide binding]; other site 395491004195 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 395491004196 active site 395491004197 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 395491004198 S-adenosylmethionine binding site [chemical binding]; other site 395491004199 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 395491004200 nucleophile elbow; other site 395491004201 hypothetical protein; Provisional; Region: PRK10279 395491004202 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 395491004203 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 395491004204 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 395491004205 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 395491004206 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395491004207 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 395491004208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491004209 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 395491004210 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 395491004211 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 cysteine...; Region: CysQ; cd01638 395491004212 active site 395491004213 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 395491004214 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 395491004215 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 395491004216 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395491004217 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 395491004218 motif II; other site 395491004219 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 395491004220 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 395491004221 cell density-dependent motility repressor; Provisional; Region: PRK10082 395491004222 Helix-turn-helix domains; Region: HTH; cl00088 395491004223 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 395491004224 dimerization interface [polypeptide binding]; other site 395491004225 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 395491004226 homodimer interface [polypeptide binding]; other site 395491004227 substrate-cofactor binding pocket; other site 395491004228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491004229 catalytic residue [active] 395491004230 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 395491004231 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 395491004232 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 395491004233 ATP binding site [chemical binding]; other site 395491004234 Mg2+ binding site [ion binding]; other site 395491004235 G-X-G motif; other site 395491004236 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 395491004237 ATP binding site [chemical binding]; other site 395491004238 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 395491004239 PAS fold; Region: PAS_7; pfam12860 395491004240 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491004241 PAS fold; Region: PAS_4; pfam08448 395491004242 Response regulator receiver domain; Region: Response_reg; pfam00072 395491004243 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 395491004244 active site 395491004245 phosphorylation site [posttranslational modification] 395491004246 intermolecular recognition site; other site 395491004247 dimerization interface [polypeptide binding]; other site 395491004248 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491004249 metal binding site [ion binding]; metal-binding site 395491004250 active site 395491004251 I-site; other site 395491004252 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491004253 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 395491004254 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 395491004255 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 395491004256 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 395491004257 active site 395491004258 intersubunit interface [polypeptide binding]; other site 395491004259 catalytic residue [active] 395491004260 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 395491004261 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 395491004262 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 395491004263 classical (c) SDRs; Region: SDR_c; cd05233 395491004264 NAD(P) binding site [chemical binding]; other site 395491004265 active site 395491004266 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395491004267 Helix-turn-helix domains; Region: HTH; cl00088 395491004268 Bacterial transcriptional regulator; Region: IclR; pfam01614 395491004269 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395491004270 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 395491004271 dimerization interface [polypeptide binding]; other site 395491004272 DNA binding residues [nucleotide binding] 395491004273 Domain of unknown function DUF59; Region: DUF59; cl00941 395491004274 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 395491004275 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395491004276 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 395491004277 K+ potassium transporter; Region: K_trans; cl15781 395491004278 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 395491004279 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 395491004280 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 395491004281 ATP synthase A chain; Region: ATP-synt_A; cl00413 395491004282 ATP synthase subunit C; Region: ATP-synt_C; cl00466 395491004283 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 395491004284 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 395491004285 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395491004286 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 395491004287 RNA/DNA hybrid binding site [nucleotide binding]; other site 395491004288 active site 395491004289 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 395491004290 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 395491004291 FeS/SAM binding site; other site 395491004292 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 395491004293 active site 395491004294 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 395491004295 MPT binding site; other site 395491004296 trimer interface [polypeptide binding]; other site 395491004297 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 395491004298 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395491004299 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 395491004300 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 395491004301 binding surface 395491004302 TPR motif; other site 395491004303 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 395491004304 binding surface 395491004305 TPR motif; other site 395491004306 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395491004307 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395491004308 substrate binding pocket [chemical binding]; other site 395491004309 chain length determination region; other site 395491004310 substrate-Mg2+ binding site; other site 395491004311 catalytic residues [active] 395491004312 aspartate-rich region 1; other site 395491004313 active site lid residues [active] 395491004314 aspartate-rich region 2; other site 395491004315 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 395491004316 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 395491004317 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; cl16911 395491004318 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 395491004319 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395491004320 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 395491004321 tandem repeat interface [polypeptide binding]; other site 395491004322 oligomer interface [polypeptide binding]; other site 395491004323 active site residues [active] 395491004324 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 395491004325 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 395491004326 dimer interface [polypeptide binding]; other site 395491004327 motif 1; other site 395491004328 active site 395491004329 motif 2; other site 395491004330 motif 3; other site 395491004331 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 395491004332 LemA family; Region: LemA; cl00742 395491004333 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 395491004334 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 395491004335 hinge; other site 395491004336 active site 395491004337 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 395491004338 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 395491004339 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 395491004340 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491004341 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 395491004342 Cache domain; Region: Cache_2; cl07034 395491004343 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; cl01054 395491004344 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395491004345 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491004346 dimer interface [polypeptide binding]; other site 395491004347 putative CheW interface [polypeptide binding]; other site 395491004348 Cache domain; Region: Cache_2; cl07034 395491004349 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; cl01054 395491004350 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395491004351 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491004352 dimer interface [polypeptide binding]; other site 395491004353 putative CheW interface [polypeptide binding]; other site 395491004354 Protein of unknown function (DUF523); Region: DUF523; cl00733 395491004355 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 395491004356 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 395491004357 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 395491004358 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 includes...; Region: RuvC_resolvase; cl00243 395491004359 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 395491004360 RNA binding site [nucleotide binding]; other site 395491004361 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395491004362 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; cl16911 395491004363 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 395491004364 S-adenosylmethionine binding site [chemical binding]; other site 395491004365 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 395491004366 catalytic core [active] 395491004367 MltA-interacting protein MipA; Region: MipA; cl01504 395491004368 UbiA prenyltransferase family; Region: UbiA; cl00337 395491004369 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 395491004370 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 395491004371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491004372 catalytic residue [active] 395491004373 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491004374 Helix-turn-helix domains; Region: HTH; cl00088 395491004375 AsnC family; Region: AsnC_trans_reg; pfam01037 395491004376 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004377 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004378 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004379 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004380 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004381 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004382 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004383 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004384 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004385 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395491004386 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395491004387 FAD binding domain; Region: FAD_binding_4; pfam01565 395491004388 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 395491004389 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 395491004390 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395491004391 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395491004392 [2Fe-2S] cluster binding site [ion binding]; other site 395491004393 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 395491004394 putative alpha subunit interface [polypeptide binding]; other site 395491004395 putative active site [active] 395491004396 putative substrate binding site [chemical binding]; other site 395491004397 Fe binding site [ion binding]; other site 395491004398 BA14K-like protein; Region: BA14K; pfam07886 395491004399 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 395491004400 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 395491004401 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395491004402 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395491004403 active site 395491004404 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 395491004405 enoyl-CoA hydratase; Provisional; Region: PRK06688 395491004406 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 395491004407 substrate binding site [chemical binding]; other site 395491004408 oxyanion hole (OAH) forming residues; other site 395491004409 trimer interface [polypeptide binding]; other site 395491004410 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491004411 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 395491004412 TRAM domain; Region: TRAM; cl01282 395491004413 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; cl16911 395491004414 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 395491004415 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 395491004416 RNA binding surface [nucleotide binding]; other site 395491004417 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; cl16911 395491004418 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 395491004419 CHASE3 domain; Region: CHASE3; cl05000 395491004420 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; cl01054 395491004421 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 395491004422 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491004423 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491004424 dimer interface [polypeptide binding]; other site 395491004425 putative CheW interface [polypeptide binding]; other site 395491004426 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 395491004427 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 395491004428 TPP-binding site; other site 395491004429 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 395491004430 PYR/PP interface [polypeptide binding]; other site 395491004431 dimer interface [polypeptide binding]; other site 395491004432 TPP binding site [chemical binding]; other site 395491004433 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395491004434 Pirin-related protein [General function prediction only]; Region: COG1741 395491004435 Cupin domain; Region: Cupin_2; cl09118 395491004436 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395491004437 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491004438 classical (c) SDRs; Region: SDR_c; cd05233 395491004439 NAD(P) binding site [chemical binding]; other site 395491004440 active site 395491004441 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 395491004442 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 395491004443 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 395491004444 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 395491004445 active site 2 [active] 395491004446 active site 1 [active] 395491004447 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 395491004448 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491004449 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491004450 DNA-binding site [nucleotide binding]; DNA binding site 395491004451 FCD domain; Region: FCD; cl11656 395491004452 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 395491004453 malonyl-CoA synthase; Validated; Region: PRK07514 395491004454 AMP-binding enzyme; Region: AMP-binding; cl15778 395491004455 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491004456 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 395491004457 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 395491004458 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; cl15357 395491004459 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 395491004460 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 395491004461 active site 395491004462 HIGH motif; other site 395491004463 KMSKS motif; other site 395491004464 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 395491004465 anticodon binding site; other site 395491004466 tRNA binding surface [nucleotide binding]; other site 395491004467 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395491004468 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491004469 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 395491004470 dimer interface [polypeptide binding]; other site 395491004471 phosphorylation site [posttranslational modification] 395491004472 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 395491004473 ATP binding site [chemical binding]; other site 395491004474 Mg2+ binding site [ion binding]; other site 395491004475 G-X-G motif; other site 395491004476 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491004477 GXWXG protein; Region: GXWXG; pfam14231 395491004478 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 395491004479 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 395491004480 Cobalt transport protein; Region: CbiQ; cl00463 395491004481 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 395491004482 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 395491004483 Walker A/P-loop; other site 395491004484 ATP binding site [chemical binding]; other site 395491004485 Q-loop/lid; other site 395491004486 ABC transporter signature motif; other site 395491004487 Walker B; other site 395491004488 D-loop; other site 395491004489 H-loop/switch region; other site 395491004490 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 395491004491 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 395491004492 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 395491004493 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; cl00522 395491004494 dimerization interface [polypeptide binding]; other site 395491004495 active site 395491004496 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 395491004497 Tetramer interface [polypeptide binding]; other site 395491004498 active site 395491004499 FMN-binding site [chemical binding]; other site 395491004500 CHASE domain; Region: CHASE; cl01369 395491004501 putative diguanylate cyclase; Provisional; Region: PRK09776 395491004502 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491004503 PAS fold; Region: PAS_3; pfam08447 395491004504 putative active site [active] 395491004505 heme pocket [chemical binding]; other site 395491004506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491004507 metal binding site [ion binding]; metal-binding site 395491004508 active site 395491004509 I-site; other site 395491004510 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491004511 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 395491004512 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 395491004513 catalytic core [active] 395491004514 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 395491004515 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395491004516 NAD binding site [chemical binding]; other site 395491004517 homotetramer interface [polypeptide binding]; other site 395491004518 homodimer interface [polypeptide binding]; other site 395491004519 substrate binding site [chemical binding]; other site 395491004520 active site 395491004521 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 395491004522 HSP70 interaction site [polypeptide binding]; other site 395491004523 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395491004524 dimer interface [polypeptide binding]; other site 395491004525 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 395491004526 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491004527 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 395491004528 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 395491004529 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 395491004530 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 395491004531 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491004532 Sporulation related domain; Region: SPOR; cl10051 395491004533 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria; Region: NTP-PPase_u1; cd11538 395491004534 metal binding site [ion binding]; metal-binding site 395491004535 Predicted acetyltransferase [General function prediction only]; Region: COG3153 395491004536 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491004537 Coenzyme A binding pocket [chemical binding]; other site 395491004538 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 395491004539 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 395491004540 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 395491004541 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 395491004542 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 395491004543 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395491004544 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 395491004545 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 395491004546 Subunit I/III interface [polypeptide binding]; other site 395491004547 D-pathway; other site 395491004548 Subunit I/VIIc interface [polypeptide binding]; other site 395491004549 Subunit I/IV interface [polypeptide binding]; other site 395491004550 Subunit I/II interface [polypeptide binding]; other site 395491004551 Low-spin heme (heme a) binding site [chemical binding]; other site 395491004552 Subunit I/VIIa interface [polypeptide binding]; other site 395491004553 Subunit I/VIa interface [polypeptide binding]; other site 395491004554 Dimer interface; other site 395491004555 Putative water exit pathway; other site 395491004556 Binuclear center (heme a3/CuB) [ion binding]; other site 395491004557 K-pathway; other site 395491004558 Subunit I/Vb interface [polypeptide binding]; other site 395491004559 Putative proton exit pathway; other site 395491004560 Subunit I/VIb interface; other site 395491004561 Subunit I/VIc interface [polypeptide binding]; other site 395491004562 Electron transfer pathway; other site 395491004563 Subunit I/VIIIb interface [polypeptide binding]; other site 395491004564 Subunit I/VIIb interface [polypeptide binding]; other site 395491004565 UbiA prenyltransferase family; Region: UbiA; cl00337 395491004566 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 395491004567 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 395491004568 Subunit III/VIIa interface [polypeptide binding]; other site 395491004569 Phospholipid binding site [chemical binding]; other site 395491004570 Subunit I/III interface [polypeptide binding]; other site 395491004571 Subunit III/VIb interface [polypeptide binding]; other site 395491004572 Subunit III/VIa interface; other site 395491004573 Subunit III/Vb interface [polypeptide binding]; other site 395491004574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491004575 P-loop motif; other site 395491004576 ATP binding site [chemical binding]; other site 395491004577 Chloramphenicol (Cm) binding site [chemical binding]; other site 395491004578 catalytic residue [active] 395491004579 Protein of unknown function (DUF983); Region: DUF983; cl02211 395491004580 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 395491004581 LytB protein; Region: LYTB; cl00507 395491004582 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 395491004583 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 395491004584 Phosphotransferase enzyme family; Region: APH; pfam01636 395491004585 putative active site [active] 395491004586 putative substrate binding site [chemical binding]; other site 395491004587 ATP binding site [chemical binding]; other site 395491004588 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 395491004589 RNA/DNA hybrid binding site [nucleotide binding]; other site 395491004590 active site 395491004591 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491004592 Helix-turn-helix domains; Region: HTH; cl00088 395491004593 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 395491004594 putative effector binding pocket; other site 395491004595 putative dimerization interface [polypeptide binding]; other site 395491004596 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491004597 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491004598 Cupin domain; Region: Cupin_2; cl09118 395491004599 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491004600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 395491004601 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 395491004602 CsbD-like; Region: CsbD; cl15799 395491004603 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 395491004604 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 395491004605 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 395491004606 catalytic triad [active] 395491004607 dimer interface [polypeptide binding]; other site 395491004608 DoxX; Region: DoxX; cl00976 395491004609 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491004610 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 395491004611 short chain dehydrogenase; Provisional; Region: PRK12939 395491004612 NADP binding site [chemical binding]; other site 395491004613 substrate binding site [chemical binding]; other site 395491004614 active site 395491004615 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491004616 Helix-turn-helix domains; Region: HTH; cl00088 395491004617 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491004618 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 395491004619 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491004620 Helix-turn-helix domains; Region: HTH; cl00088 395491004621 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 395491004622 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 395491004623 dimerization interface [polypeptide binding]; other site 395491004624 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 395491004625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491004626 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491004627 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491004628 Walker A/P-loop; other site 395491004629 ATP binding site [chemical binding]; other site 395491004630 Q-loop/lid; other site 395491004631 ABC transporter signature motif; other site 395491004632 Walker B; other site 395491004633 D-loop; other site 395491004634 H-loop/switch region; other site 395491004635 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491004636 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 395491004637 substrate binding pocket [chemical binding]; other site 395491004638 membrane-bound complex binding site; other site 395491004639 hinge residues; other site 395491004640 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491004641 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 395491004642 dimer interface [polypeptide binding]; other site 395491004643 conserved gate region; other site 395491004644 putative PBP binding loops; other site 395491004645 ABC-ATPase subunit interface; other site 395491004646 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 395491004647 dimer interface [polypeptide binding]; other site 395491004648 conserved gate region; other site 395491004649 ABC-ATPase subunit interface; other site 395491004650 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 395491004651 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 395491004652 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 395491004653 ABC-ATPase subunit interface; other site 395491004654 dimer interface [polypeptide binding]; other site 395491004655 putative PBP binding regions; other site 395491004656 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 395491004657 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 395491004658 metal binding site [ion binding]; metal-binding site 395491004659 Cation efflux family; Region: Cation_efflux; cl00316 395491004660 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 395491004661 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 395491004662 homotrimer interaction site [polypeptide binding]; other site 395491004663 putative active site [active] 395491004664 tetracycline repressor protein TetR; Provisional; Region: PRK13756 395491004665 Helix-turn-helix domains; Region: HTH; cl00088 395491004666 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 395491004667 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 395491004668 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; cl16911 395491004669 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 395491004670 Moco binding site; other site 395491004671 metal coordination site [ion binding]; other site 395491004672 dimerization interface [polypeptide binding]; other site 395491004673 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; cl16911 395491004674 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]; Region: COG1936 395491004675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491004676 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 395491004677 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 395491004678 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491004679 putative active site [active] 395491004680 heme pocket [chemical binding]; other site 395491004681 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491004682 metal binding site [ion binding]; metal-binding site 395491004683 active site 395491004684 I-site; other site 395491004685 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491004686 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491004687 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395491004688 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395491004689 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395491004690 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395491004691 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 395491004692 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 395491004693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491004694 catalytic residue [active] 395491004695 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395491004696 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491004697 motif I; other site 395491004698 active site 395491004699 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491004700 motif II; other site 395491004701 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 395491004702 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; cl01054 395491004703 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491004704 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491004705 dimer interface [polypeptide binding]; other site 395491004706 putative CheW interface [polypeptide binding]; other site 395491004707 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 395491004708 putative DNA binding site [nucleotide binding]; other site 395491004709 NIPSNAP; Region: NIPSNAP; pfam07978 395491004710 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395491004711 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 395491004712 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; cl16911 395491004713 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491004714 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395491004715 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491004716 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 395491004717 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395491004718 minor groove reading motif; other site 395491004719 helix-hairpin-helix signature motif; other site 395491004720 substrate binding pocket [chemical binding]; other site 395491004721 active site 395491004722 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 395491004723 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 395491004724 DNA binding and oxoG recognition site [nucleotide binding] 395491004725 Protein of unknown function (DUF721); Region: DUF721; cl02324 395491004726 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 395491004727 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491004728 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491004729 DNA binding site [nucleotide binding] 395491004730 domain linker motif; other site 395491004731 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491004732 ligand binding site [chemical binding]; other site 395491004733 dimerization interface [polypeptide binding]; other site 395491004734 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491004735 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491004736 Walker A/P-loop; other site 395491004737 ATP binding site [chemical binding]; other site 395491004738 Q-loop/lid; other site 395491004739 ABC transporter signature motif; other site 395491004740 Walker B; other site 395491004741 D-loop; other site 395491004742 H-loop/switch region; other site 395491004743 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491004744 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 395491004745 TM-ABC transporter signature motif; other site 395491004746 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395491004747 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491004748 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491004749 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 395491004750 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395491004751 Walker A/P-loop; other site 395491004752 ATP binding site [chemical binding]; other site 395491004753 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 395491004754 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 395491004755 ABC transporter signature motif; other site 395491004756 Walker B; other site 395491004757 D-loop; other site 395491004758 H-loop/switch region; other site 395491004759 pyruvate phosphate dikinase; Provisional; Region: PRK09279 395491004760 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 395491004761 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 395491004762 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; cl09155 395491004763 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 395491004764 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 395491004765 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 395491004766 Protein of unknown function, DUF393; Region: DUF393; cl01136 395491004767 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395491004768 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491004769 Helix-turn-helix domains; Region: HTH; cl00088 395491004770 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395491004771 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 395491004772 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395491004773 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395491004774 Integrase core domain; Region: rve; cl01316 395491004775 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395491004776 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 395491004777 daunorubicin C-13 ketoreductase (KR), classical (c)-like SDRs; Region: DR_C-13_KR_SDR_c_like; cd08951 395491004778 short chain dehydrogenase; Provisional; Region: PRK06197 395491004779 putative NAD(P) binding site [chemical binding]; other site 395491004780 active site 395491004781 WHG domain; Region: WHG; pfam13305 395491004782 PspA/IM30 family; Region: PspA_IM30; pfam04012 395491004783 yiaA/B two helix domain; Region: YiaAB; cl01759 395491004784 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 395491004785 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 395491004786 putative substrate translocation pore; other site 395491004787 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395491004788 putative acyl-acceptor binding pocket; other site 395491004789 AMP-binding enzyme; Region: AMP-binding; cl15778 395491004790 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 395491004791 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491004792 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; cl00047 395491004793 ligand binding site [chemical binding]; other site 395491004794 flexible hinge region; other site 395491004795 Helix-turn-helix domains; Region: HTH; cl00088 395491004796 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 395491004797 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491004798 Helix-turn-helix domains; Region: HTH; cl00088 395491004799 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491004800 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 395491004801 Catalytic site [active] 395491004802 GcrA cell cycle regulator; Region: GcrA; cl11564 395491004803 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 395491004804 DNA binding residues [nucleotide binding] 395491004805 dimerization interface [polypeptide binding]; other site 395491004806 NIPSNAP; Region: NIPSNAP; pfam07978 395491004807 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 395491004808 active site 395491004809 substrate binding site [chemical binding]; other site 395491004810 ATP binding site [chemical binding]; other site 395491004811 Carboxylesterase family; Region: COesterase; pfam00135 395491004812 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491004813 substrate binding pocket [chemical binding]; other site 395491004814 catalytic triad [active] 395491004815 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 395491004816 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 395491004817 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 395491004818 dimer interface [polypeptide binding]; other site 395491004819 phosphorylation site [posttranslational modification] 395491004820 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 395491004821 ATP binding site [chemical binding]; other site 395491004822 Mg2+ binding site [ion binding]; other site 395491004823 G-X-G motif; other site 395491004824 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 395491004825 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 395491004826 active site 395491004827 phosphorylation site [posttranslational modification] 395491004828 intermolecular recognition site; other site 395491004829 dimerization interface [polypeptide binding]; other site 395491004830 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 395491004831 DNA binding site [nucleotide binding] 395491004832 Cupin domain; Region: Cupin_2; cl09118 395491004833 Cytochrome c; Region: Cytochrom_C; cl11414 395491004834 Cytochrome c; Region: Cytochrom_C; cl11414 395491004835 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; cl00214 395491004836 intersubunit interface [polypeptide binding]; other site 395491004837 active site 395491004838 Zn2+ binding site [ion binding]; other site 395491004839 Response regulator receiver domain; Region: Response_reg; pfam00072 395491004840 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 395491004841 active site 395491004842 phosphorylation site [posttranslational modification] 395491004843 intermolecular recognition site; other site 395491004844 dimerization interface [polypeptide binding]; other site 395491004845 PAS domain; Region: PAS_9; pfam13426 395491004846 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491004847 Histidine kinase; Region: HisKA_2; cl06527 395491004848 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 395491004849 ATP binding site [chemical binding]; other site 395491004850 Mg2+ binding site [ion binding]; other site 395491004851 G-X-G motif; other site 395491004852 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395491004853 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 395491004854 iron-sulfur cluster [ion binding]; other site 395491004855 [2Fe-2S] cluster binding site [ion binding]; other site 395491004856 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; cl00161 395491004857 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 395491004858 homotrimer interaction site [polypeptide binding]; other site 395491004859 putative active site [active] 395491004860 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491004861 Helix-turn-helix domains; Region: HTH; cl00088 395491004862 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491004863 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 395491004864 dimerization interface [polypeptide binding]; other site 395491004865 putative DNA binding site [nucleotide binding]; other site 395491004866 putative Zn2+ binding site [ion binding]; other site 395491004867 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395491004868 putative hydrophobic ligand binding site [chemical binding]; other site 395491004869 Clp protease; Region: CLP_protease; pfam00574 395491004870 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395491004871 oligomer interface [polypeptide binding]; other site 395491004872 active site residues [active] 395491004873 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 395491004874 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395491004875 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395491004876 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395491004877 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 395491004878 active site 395491004879 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491004880 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 395491004881 nucleoside/Zn binding site; other site 395491004882 dimer interface [polypeptide binding]; other site 395491004883 catalytic motif [active] 395491004884 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 395491004885 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491004886 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395491004887 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395491004888 putative NAD(P) binding site [chemical binding]; other site 395491004889 putative active site [active] 395491004890 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491004891 Helix-turn-helix domains; Region: HTH; cl00088 395491004892 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 395491004893 dimerization interface [polypeptide binding]; other site 395491004894 substrate binding pocket [chemical binding]; other site 395491004895 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 395491004896 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491004897 active site 395491004898 substrate binding site [chemical binding]; other site 395491004899 ATP binding site [chemical binding]; other site 395491004900 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 395491004901 dimerization interface [polypeptide binding]; other site 395491004902 putative DNA binding site [nucleotide binding]; other site 395491004903 putative Zn2+ binding site [ion binding]; other site 395491004904 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491004905 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 395491004906 NADP binding site [chemical binding]; other site 395491004907 homodimer interface [polypeptide binding]; other site 395491004908 active site 395491004909 substrate binding site [chemical binding]; other site 395491004910 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395491004911 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491004912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491004913 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491004914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491004915 NAD(P) binding site [chemical binding]; other site 395491004916 active site 395491004917 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491004918 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491004919 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 395491004920 N-terminal domain interface [polypeptide binding]; other site 395491004921 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395491004922 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491004923 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491004924 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491004925 BA14K-like protein; Region: BA14K; pfam07886 395491004926 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491004927 Helix-turn-helix domains; Region: HTH; cl00088 395491004928 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 395491004929 putative effector binding pocket; other site 395491004930 dimerization interface [polypeptide binding]; other site 395491004931 NmrA-like family; Region: NmrA; pfam05368 395491004932 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 395491004933 NADP binding site [chemical binding]; other site 395491004934 active site 395491004935 regulatory binding site [polypeptide binding]; other site 395491004936 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 395491004937 putative hydrophobic ligand binding site [chemical binding]; other site 395491004938 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 395491004939 potential catalytic triad [active] 395491004940 conserved cys residue [active] 395491004941 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 395491004942 Helix-turn-helix domains; Region: HTH; cl00088 395491004943 The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold; Region: PBP2_SyrM; cd08467 395491004944 putative substrate binding pocket [chemical binding]; other site 395491004945 putative dimerization interface [polypeptide binding]; other site 395491004946 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_19; cd07262 395491004947 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491004948 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491004949 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491004950 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395491004951 N-terminal domain interface [polypeptide binding]; other site 395491004952 dimer interface [polypeptide binding]; other site 395491004953 substrate binding pocket (H-site) [chemical binding]; other site 395491004954 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395491004955 putative hydrophobic ligand binding site [chemical binding]; other site 395491004956 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 395491004957 dimerization interface [polypeptide binding]; other site 395491004958 putative DNA binding site [nucleotide binding]; other site 395491004959 putative Zn2+ binding site [ion binding]; other site 395491004960 DoxX; Region: DoxX; cl00976 395491004961 Domain of unknown function (DUF4267); Region: DUF4267; pfam14087 395491004962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491004963 Helix-turn-helix domains; Region: HTH; cl00088 395491004964 WHG domain; Region: WHG; pfam13305 395491004965 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 395491004966 dimerization interface [polypeptide binding]; other site 395491004967 putative DNA binding site [nucleotide binding]; other site 395491004968 putative Zn2+ binding site [ion binding]; other site 395491004969 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 395491004970 putative hydrophobic ligand binding site [chemical binding]; other site 395491004971 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491004972 active site 395491004973 ATP binding site [chemical binding]; other site 395491004974 substrate binding site [chemical binding]; other site 395491004975 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395491004976 cyclase homology domain; Region: CHD; cd07302 395491004977 nucleotidyl binding site; other site 395491004978 metal binding site [ion binding]; metal-binding site 395491004979 dimer interface [polypeptide binding]; other site 395491004980 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 395491004981 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 395491004982 non-specific DNA binding site [nucleotide binding]; other site 395491004983 salt bridge; other site 395491004984 sequence-specific DNA binding site [nucleotide binding]; other site 395491004985 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 395491004986 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491004987 Helix-turn-helix domains; Region: HTH; cl00088 395491004988 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395491004989 short chain dehydrogenase; Provisional; Region: PRK06180 395491004990 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395491004991 NADP binding site [chemical binding]; other site 395491004992 active site 395491004993 steroid binding site; other site 395491004994 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395491004995 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491004996 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491004997 Helix-turn-helix domains; Region: HTH; cl00088 395491004998 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_8; cd07246 395491004999 putative dimer interface [polypeptide binding]; other site 395491005000 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491005001 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491005002 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491005003 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395491005004 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491005005 large terminase protein; Provisional; Region: 17; PHA02533 395491005006 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491005007 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 395491005008 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395491005009 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395491005010 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 395491005011 protein binding site [polypeptide binding]; other site 395491005012 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 395491005013 protein binding site [polypeptide binding]; other site 395491005014 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491005015 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491005016 DNA binding site [nucleotide binding] 395491005017 domain linker motif; other site 395491005018 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 395491005019 putative ligand binding site [chemical binding]; other site 395491005020 putative dimerization interface [polypeptide binding]; other site 395491005021 Helix-turn-helix domains; Region: HTH; cl00088 395491005022 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491005023 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 395491005024 putative effector binding pocket; other site 395491005025 dimerization interface [polypeptide binding]; other site 395491005026 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 395491005027 NmrA-like family; Region: NmrA; pfam05368 395491005028 NADP binding site [chemical binding]; other site 395491005029 active site 395491005030 regulatory binding site [polypeptide binding]; other site 395491005031 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 395491005032 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 395491005033 NADP binding site [chemical binding]; other site 395491005034 dimer interface [polypeptide binding]; other site 395491005035 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491005036 Helix-turn-helix domains; Region: HTH; cl00088 395491005037 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 395491005038 dimerization interface [polypeptide binding]; other site 395491005039 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491005040 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491005041 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 395491005042 putative catalytic residues [active] 395491005043 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 395491005044 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 395491005045 CysD dimerization site [polypeptide binding]; other site 395491005046 G1 box; other site 395491005047 putative GEF interaction site [polypeptide binding]; other site 395491005048 GTP/Mg2+ binding site [chemical binding]; other site 395491005049 Switch I region; other site 395491005050 G2 box; other site 395491005051 G3 box; other site 395491005052 Switch II region; other site 395491005053 G4 box; other site 395491005054 G5 box; other site 395491005055 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 395491005056 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 395491005057 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 395491005058 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 395491005059 Active Sites [active] 395491005060 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 395491005061 Active Sites [active] 395491005062 Predicted transcriptional regulator [Transcription]; Region: COG1959 395491005063 Helix-turn-helix domains; Region: HTH; cl00088 395491005064 Helix-turn-helix domains; Region: HTH; cl00088 395491005065 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395491005066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005067 NAD(P) binding site [chemical binding]; other site 395491005068 active site 395491005069 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 395491005070 active site 395491005071 FMN binding site [chemical binding]; other site 395491005072 substrate binding site [chemical binding]; other site 395491005073 homotetramer interface [polypeptide binding]; other site 395491005074 catalytic residue [active] 395491005075 choline dehydrogenase; Validated; Region: PRK02106 395491005076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005077 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395491005078 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491005079 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395491005080 NAD(P) binding site [chemical binding]; other site 395491005081 catalytic residues [active] 395491005082 transcriptional regulator BetI; Validated; Region: PRK00767 395491005083 Helix-turn-helix domains; Region: HTH; cl00088 395491005084 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 395491005085 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 395491005086 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491005087 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 395491005088 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 395491005089 NAD(P) binding site [chemical binding]; other site 395491005090 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 395491005091 putative substrate translocation pore; other site 395491005092 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 395491005093 Predicted transcriptional regulator [Transcription]; Region: COG2345 395491005094 Helix-turn-helix domains; Region: HTH; cl00088 395491005095 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491005096 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 395491005097 putative substrate translocation pore; other site 395491005098 L-asparaginase II; Region: Asparaginase_II; cl01842 395491005099 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395491005100 Helix-turn-helix domains; Region: HTH; cl00088 395491005101 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491005102 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; cl00198 395491005103 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 395491005104 glutathionine S-transferase; Provisional; Region: PRK10542 395491005105 C-terminal domain interface [polypeptide binding]; other site 395491005106 GSH binding site (G-site) [chemical binding]; other site 395491005107 dimer interface [polypeptide binding]; other site 395491005108 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 395491005109 dimer interface [polypeptide binding]; other site 395491005110 N-terminal domain interface [polypeptide binding]; other site 395491005111 substrate binding pocket (H-site) [chemical binding]; other site 395491005112 Protein of unknown function (DUF419); Region: DUF419; cl15265 395491005113 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491005114 Helix-turn-helix domains; Region: HTH; cl00088 395491005115 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 395491005116 dimerization interface [polypeptide binding]; other site 395491005117 substrate binding pocket [chemical binding]; other site 395491005118 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491005119 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 395491005120 putative C-terminal domain interface [polypeptide binding]; other site 395491005121 putative GSH binding site (G-site) [chemical binding]; other site 395491005122 putative dimer interface [polypeptide binding]; other site 395491005123 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 395491005124 dimer interface [polypeptide binding]; other site 395491005125 N-terminal domain interface [polypeptide binding]; other site 395491005126 putative substrate binding pocket (H-site) [chemical binding]; other site 395491005127 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 395491005128 PAS fold; Region: PAS_4; pfam08448 395491005129 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395491005130 GAF domain; Region: GAF_2; pfam13185 395491005131 GAF domain; Region: GAF; cl15785 395491005132 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491005133 metal binding site [ion binding]; metal-binding site 395491005134 active site 395491005135 I-site; other site 395491005136 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491005137 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial homologs of mammalian glycerophosphodiester phosphodiesterase GDE4; Region: GDPD_GDE4_like_1; cd08613 395491005138 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395491005139 putative active site [active] 395491005140 catalytic site [active] 395491005141 putative metal binding site [ion binding]; other site 395491005142 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491005143 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 395491005144 binding surface 395491005145 TPR motif; other site 395491005146 TPR repeat; Region: TPR_11; pfam13414 395491005147 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; cl16911 395491005148 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 395491005149 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491005150 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 395491005151 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 395491005152 active site 395491005153 DNA binding site [nucleotide binding] 395491005154 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 395491005155 DNA binding site [nucleotide binding] 395491005156 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 395491005157 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491005158 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 395491005159 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491005160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395491005161 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491005162 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 protein; Region: CSP_CDS; cd04458 395491005163 DNA-binding site [nucleotide binding]; DNA binding site 395491005164 RNA-binding motif; other site 395491005165 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 395491005166 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491005167 Helix-turn-helix domains; Region: HTH; cl00088 395491005168 OsmC-like protein; Region: OsmC; cl00767 395491005169 Helix-turn-helix domains; Region: HTH; cl00088 395491005170 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491005171 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 395491005172 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491005173 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 395491005174 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491005175 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 395491005176 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; cl01155 395491005177 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395491005178 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491005179 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491005180 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 395491005181 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395491005182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491005183 Walker A/P-loop; other site 395491005184 ATP binding site [chemical binding]; other site 395491005185 Q-loop/lid; other site 395491005186 ABC transporter signature motif; other site 395491005187 Walker B; other site 395491005188 D-loop; other site 395491005189 H-loop/switch region; other site 395491005190 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491005191 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 395491005192 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395491005193 nudix motif; other site 395491005194 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 395491005195 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395491005196 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395491005197 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 395491005198 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 395491005199 S-adenosylmethionine binding site [chemical binding]; other site 395491005200 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 395491005201 Domain of unknown function DUF21; Region: DUF21; pfam01595 395491005202 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 395491005203 Transporter associated domain; Region: CorC_HlyC; cl08393 395491005204 Cache domain; Region: Cache_1; pfam02743 395491005205 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491005206 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491005207 dimer interface [polypeptide binding]; other site 395491005208 putative CheW interface [polypeptide binding]; other site 395491005209 topology modulation protein; Reviewed; Region: PRK08118 395491005210 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491005211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491005212 Coenzyme A binding pocket [chemical binding]; other site 395491005213 Predicted kinase [General function prediction only]; Region: COG0645 395491005214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491005215 active site 395491005216 Cupin domain; Region: Cupin_2; cl09118 395491005217 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 395491005218 Metal-binding active site; metal-binding site 395491005219 AP (apurinic/apyrimidinic) site pocket; other site 395491005220 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395491005221 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 395491005222 putative NAD(P) binding site [chemical binding]; other site 395491005223 catalytic Zn binding site [ion binding]; other site 395491005224 structural Zn binding site [ion binding]; other site 395491005225 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 395491005226 homodimer interface [polypeptide binding]; other site 395491005227 substrate-cofactor binding pocket; other site 395491005228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491005229 catalytic residue [active] 395491005230 transcriptional regulator; Provisional; Region: PRK10632 395491005231 Helix-turn-helix domains; Region: HTH; cl00088 395491005232 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 395491005233 putative effector binding pocket; other site 395491005234 dimerization interface [polypeptide binding]; other site 395491005235 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 395491005236 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491005237 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491005238 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395491005239 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 395491005240 putative substrate translocation pore; other site 395491005241 cyclase homology domain; Region: CHD; cd07302 395491005242 nucleotidyl binding site; other site 395491005243 metal binding site [ion binding]; metal-binding site 395491005244 dimer interface [polypeptide binding]; other site 395491005245 NAD+ synthetase; Region: nadE; TIGR00552 395491005246 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 395491005247 homodimer interface [polypeptide binding]; other site 395491005248 NAD binding pocket [chemical binding]; other site 395491005249 ATP binding pocket [chemical binding]; other site 395491005250 Mg binding site [ion binding]; other site 395491005251 active-site loop [active] 395491005252 glutathionine S-transferase; Provisional; Region: PRK10542 395491005253 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 395491005254 C-terminal domain interface [polypeptide binding]; other site 395491005255 GSH binding site (G-site) [chemical binding]; other site 395491005256 dimer interface [polypeptide binding]; other site 395491005257 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 395491005258 N-terminal domain interface [polypeptide binding]; other site 395491005259 dimer interface [polypeptide binding]; other site 395491005260 substrate binding pocket (H-site) [chemical binding]; other site 395491005261 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491005262 Helix-turn-helix domains; Region: HTH; cl00088 395491005263 drug efflux system protein MdtG; Provisional; Region: PRK09874 395491005264 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 395491005265 putative substrate translocation pore; other site 395491005266 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491005267 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395491005268 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 395491005269 S-adenosylmethionine binding site [chemical binding]; other site 395491005270 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 395491005271 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 395491005272 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 395491005273 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain; Region: MPP_Nbla03831; cd07396 395491005274 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395491005275 active site 395491005276 metal binding site [ion binding]; metal-binding site 395491005277 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395491005278 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491005279 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491005280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005281 NAD(P) binding site [chemical binding]; other site 395491005282 active site 395491005283 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 395491005284 Helix-turn-helix domains; Region: HTH; cl00088 395491005285 WYL domain; Region: WYL; cl14852 395491005286 LysE type translocator; Region: LysE; cl00565 395491005287 Cytochrome C'; Region: Cytochrom_C_2; cl01610 395491005288 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395491005289 Cytochrome c; Region: Cytochrom_C; cl11414 395491005290 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491005291 GST_N family, unknown subfamily 4; 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_4; cd03056 395491005292 putative C-terminal domain interface [polypeptide binding]; other site 395491005293 putative GSH binding site (G-site) [chemical binding]; other site 395491005294 putative dimer interface [polypeptide binding]; other site 395491005295 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395491005296 N-terminal domain interface [polypeptide binding]; other site 395491005297 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395491005298 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491005299 Coenzyme A binding pocket [chemical binding]; other site 395491005300 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 395491005301 putative metal binding site [ion binding]; other site 395491005302 putative homodimer interface [polypeptide binding]; other site 395491005303 putative homotetramer interface [polypeptide binding]; other site 395491005304 putative homodimer-homodimer interface [polypeptide binding]; other site 395491005305 putative allosteric switch controlling residues; other site 395491005306 Cation efflux family; Region: Cation_efflux; cl00316 395491005307 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491005308 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 395491005309 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 395491005310 Trp docking motif [polypeptide binding]; other site 395491005311 putative active site [active] 395491005312 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395491005313 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491005314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491005315 Walker A/P-loop; other site 395491005316 ATP binding site [chemical binding]; other site 395491005317 Q-loop/lid; other site 395491005318 ABC transporter signature motif; other site 395491005319 Walker B; other site 395491005320 D-loop; other site 395491005321 H-loop/switch region; other site 395491005322 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 395491005323 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 395491005324 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395491005325 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 395491005326 putative substrate translocation pore; other site 395491005327 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 395491005328 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 395491005329 Helix-turn-helix domains; Region: HTH; cl00088 395491005330 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 395491005331 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 395491005332 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491005333 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 395491005334 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 395491005335 NodB motif; other site 395491005336 putative active site [active] 395491005337 putative catalytic site [active] 395491005338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005339 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395491005340 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395491005341 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395491005342 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 395491005343 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_12; cd07255 395491005344 putative metal binding site [ion binding]; other site 395491005345 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491005346 active site 395491005347 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 395491005348 Ligand Binding Site [chemical binding]; other site 395491005349 Haemolysin-III related; Region: HlyIII; cl03831 395491005350 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395491005351 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491005352 Coenzyme A binding pocket [chemical binding]; other site 395491005353 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 395491005354 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395491005355 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395491005356 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 395491005357 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 395491005358 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 395491005359 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395491005360 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 395491005361 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 395491005362 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 395491005363 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 395491005364 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395491005365 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 395491005366 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 395491005367 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 395491005368 Predicted transcriptional regulator [Transcription]; Region: COG4957 395491005369 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 395491005370 Fe-S metabolism associated domain; Region: SufE; cl00951 395491005371 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 395491005372 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 395491005373 dimer interface [polypeptide binding]; other site 395491005374 phosphorylation site [posttranslational modification] 395491005375 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 395491005376 ATP binding site [chemical binding]; other site 395491005377 Mg2+ binding site [ion binding]; other site 395491005378 G-X-G motif; other site 395491005379 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491005380 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491005381 Cupin domain; Region: Cupin_2; cl09118 395491005382 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491005383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491005384 oxidoreductase; Provisional; Region: PRK06196 395491005385 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 395491005386 putative NAD(P) binding site [chemical binding]; other site 395491005387 active site 395491005388 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491005389 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491005390 dimer interface [polypeptide binding]; other site 395491005391 putative CheW interface [polypeptide binding]; other site 395491005392 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 395491005393 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 395491005394 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 395491005395 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 395491005396 Transglycosylase; Region: Transgly; cl07896 395491005397 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395491005398 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491005399 Flagellin N-methylase; Region: FliB; cl00497 395491005400 Integral membrane protein TerC family; Region: TerC; cl10468 395491005401 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 395491005402 Helix-turn-helix domains; Region: HTH; cl00088 395491005403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005404 NAD(P) binding site [chemical binding]; other site 395491005405 active site 395491005406 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 395491005407 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 395491005408 putative di-iron ligands [ion binding]; other site 395491005409 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491005410 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 395491005411 putative substrate translocation pore; other site 395491005412 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 395491005413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491005414 Helix-turn-helix domains; Region: HTH; cl00088 395491005415 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 395491005416 putative substrate binding pocket [chemical binding]; other site 395491005417 putative dimerization interface [polypeptide binding]; other site 395491005418 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_19; cd07262 395491005419 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395491005420 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491005421 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 395491005422 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 395491005423 oligomerisation interface [polypeptide binding]; other site 395491005424 mobile loop; other site 395491005425 roof hairpin; other site 395491005426 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 395491005427 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 395491005428 ring oligomerisation interface [polypeptide binding]; other site 395491005429 ATP/Mg binding site [chemical binding]; other site 395491005430 stacking interactions; other site 395491005431 hinge regions; other site 395491005432 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491005433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005434 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491005435 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491005436 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491005437 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395491005438 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491005439 DNA binding site [nucleotide binding] 395491005440 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 395491005441 putative ligand binding site [chemical binding]; other site 395491005442 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395491005443 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 395491005444 Cupin domain; Region: Cupin_2; cl09118 395491005445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491005446 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491005447 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491005448 oxidoreductase; Provisional; Region: PRK06196 395491005449 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 395491005450 putative NAD(P) binding site [chemical binding]; other site 395491005451 active site 395491005452 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 395491005453 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491005454 DNA-binding site [nucleotide binding]; DNA binding site 395491005455 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 395491005456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491005457 homodimer interface [polypeptide binding]; other site 395491005458 catalytic residue [active] 395491005459 Protein of unknown function (DUF983); Region: DUF983; cl02211 395491005460 transcriptional regulator; Provisional; Region: PRK10632 395491005461 Helix-turn-helix domains; Region: HTH; cl00088 395491005462 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_2; cd08471 395491005463 putative effector binding pocket; other site 395491005464 putative dimerization interface [polypeptide binding]; other site 395491005465 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491005466 GST_N family, unknown subfamily 4; 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_4; cd03056 395491005467 putative C-terminal domain interface [polypeptide binding]; other site 395491005468 putative GSH binding site (G-site) [chemical binding]; other site 395491005469 putative dimer interface [polypeptide binding]; other site 395491005470 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 395491005471 putative N-terminal domain interface [polypeptide binding]; other site 395491005472 putative dimer interface [polypeptide binding]; other site 395491005473 putative substrate binding pocket (H-site) [chemical binding]; other site 395491005474 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491005475 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491005476 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 395491005477 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491005478 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491005479 Helix-turn-helix domains; Region: HTH; cl00088 395491005480 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 395491005481 catalytic residue [active] 395491005482 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 395491005483 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 395491005484 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491005485 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 395491005486 putative substrate translocation pore; other site 395491005487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491005488 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 395491005489 active site 395491005490 phosphorylation site [posttranslational modification] 395491005491 intermolecular recognition site; other site 395491005492 dimerization interface [polypeptide binding]; other site 395491005493 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 395491005494 DNA binding site [nucleotide binding] 395491005495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395491005496 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; cl00080 395491005497 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 395491005498 ATP binding site [chemical binding]; other site 395491005499 Mg2+ binding site [ion binding]; other site 395491005500 G-X-G motif; other site 395491005501 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 395491005502 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 395491005503 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 395491005504 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 395491005505 TPR motif; other site 395491005506 binding surface 395491005507 CcmE; Region: CcmE; cl00994 395491005508 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 395491005509 Cytochrome C biogenesis protein; Region: CcmH; cl01179 395491005510 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395491005511 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395491005512 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 395491005513 protein binding site [polypeptide binding]; other site 395491005514 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 395491005515 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491005516 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 395491005517 active site 395491005518 phosphorylation site [posttranslational modification] 395491005519 intermolecular recognition site; other site 395491005520 dimerization interface [polypeptide binding]; other site 395491005521 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 395491005522 DNA binding site [nucleotide binding] 395491005523 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 395491005524 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 395491005525 dimerization interface [polypeptide binding]; other site 395491005526 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 395491005527 dimer interface [polypeptide binding]; other site 395491005528 phosphorylation site [posttranslational modification] 395491005529 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 395491005530 ATP binding site [chemical binding]; other site 395491005531 Mg2+ binding site [ion binding]; other site 395491005532 G-X-G motif; other site 395491005533 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 395491005534 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395491005535 metal binding triad; other site 395491005536 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395491005537 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395491005538 metal binding triad; other site 395491005539 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 395491005540 putative C-terminal domain interface [polypeptide binding]; other site 395491005541 putative GSH binding site (G-site) [chemical binding]; other site 395491005542 putative dimer interface [polypeptide binding]; other site 395491005543 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 395491005544 dimer interface [polypeptide binding]; other site 395491005545 N-terminal domain interface [polypeptide binding]; other site 395491005546 putative substrate binding pocket (H-site) [chemical binding]; other site 395491005547 PAS fold; Region: PAS_3; pfam08447 395491005548 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395491005549 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395491005550 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 395491005551 dimer interface [polypeptide binding]; other site 395491005552 phosphorylation site [posttranslational modification] 395491005553 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 395491005554 ATP binding site [chemical binding]; other site 395491005555 Mg2+ binding site [ion binding]; other site 395491005556 G-X-G motif; other site 395491005557 aminopeptidase N; Provisional; Region: pepN; PRK14015 395491005558 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 395491005559 active site 395491005560 Zn binding site [ion binding]; other site 395491005561 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491005562 putative CheW interface [polypeptide binding]; other site 395491005563 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395491005564 EamA-like transporter family; Region: EamA; cl01037 395491005565 EamA-like transporter family; Region: EamA; cl01037 395491005566 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395491005567 Fe-S cluster binding site [ion binding]; other site 395491005568 active site 395491005569 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 395491005570 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 395491005571 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491005572 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491005573 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491005574 Phosphotransferase enzyme family; Region: APH; pfam01636 395491005575 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491005576 active site 395491005577 substrate binding site [chemical binding]; other site 395491005578 ATP binding site [chemical binding]; other site 395491005579 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491005580 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395491005581 putative NAD(P) binding site [chemical binding]; other site 395491005582 putative active site [active] 395491005583 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 395491005584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005585 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 395491005586 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395491005587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395491005588 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491005589 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491005590 Helix-turn-helix domains; Region: HTH; cl00088 395491005591 AsnC family; Region: AsnC_trans_reg; pfam01037 395491005592 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 395491005593 MgtE intracellular N domain; Region: MgtE_N; cl15244 395491005594 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 395491005595 Divalent cation transporter; Region: MgtE; cl00786 395491005596 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 395491005597 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 395491005598 putative NAD(P) binding site [chemical binding]; other site 395491005599 dimer interface [polypeptide binding]; other site 395491005600 Helix-turn-helix domains; Region: HTH; cl00088 395491005601 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395491005602 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 395491005603 putative substrate translocation pore; other site 395491005604 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 395491005605 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 395491005606 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395491005607 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395491005608 putative aminotransferase; Validated; Region: PRK07480 395491005609 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 395491005610 inhibitor-cofactor binding pocket; inhibition site 395491005611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491005612 catalytic residue [active] 395491005613 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491005614 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491005615 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395491005616 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395491005617 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395491005618 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395491005619 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 395491005620 Ligand binding site; other site 395491005621 Putative Catalytic site; other site 395491005622 DXD motif; other site 395491005623 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395491005624 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 395491005625 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491005626 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 395491005627 YCII-related domain; Region: YCII; cl00999 395491005628 YCII-related domain; Region: YCII; cl00999 395491005629 YCII-related domain; Region: YCII; cl00999 395491005630 AMP nucleosidase; Provisional; Region: PRK08292 395491005631 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 395491005632 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395491005633 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491005634 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491005635 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 395491005636 Sel1 repeat; Region: Sel1; cl02723 395491005637 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 395491005638 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 395491005639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491005640 homodimer interface [polypeptide binding]; other site 395491005641 catalytic residue [active] 395491005642 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 395491005643 Protein required for attachment to host cells; Region: Host_attach; cl02398 395491005644 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491005645 Helix-turn-helix domains; Region: HTH; cl00088 395491005646 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 395491005647 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491005648 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 395491005649 MatE; Region: MatE; cl10513 395491005650 MatE; Region: MatE; cl10513 395491005651 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491005652 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395491005653 KduI/IolB family; Region: KduI; cl01508 395491005654 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491005655 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 395491005656 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 395491005657 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395491005658 dimer interface [polypeptide binding]; other site 395491005659 PYR/PP interface [polypeptide binding]; other site 395491005660 TPP binding site [chemical binding]; other site 395491005661 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395491005662 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 395491005663 TPP-binding site; other site 395491005664 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491005665 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 395491005666 substrate binding site [chemical binding]; other site 395491005667 ATP binding site [chemical binding]; other site 395491005668 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; cl09108 395491005669 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395491005670 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395491005671 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 395491005672 putative active site [active] 395491005673 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491005674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005675 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491005676 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 395491005677 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491005678 Porin subfamily; Region: Porin_2; pfam02530 395491005679 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491005680 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395491005681 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 catalyze...; Region: LT_GEWL; cd00254 395491005682 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395491005683 catalytic residue [active] 395491005684 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491005685 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395491005686 dimer interface [polypeptide binding]; other site 395491005687 active site 395491005688 catalytic residue [active] 395491005689 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 395491005690 SmpB-tmRNA interface; other site 395491005691 Uncharacterized conserved protein [Function unknown]; Region: COG1432 395491005692 LabA_like proteins; Region: LabA; cd10911 395491005693 putative metal binding site [ion binding]; other site 395491005694 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 395491005695 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 395491005696 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491005697 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395491005698 synthetase active site [active] 395491005699 NTP binding site [chemical binding]; other site 395491005700 metal binding site [ion binding]; metal-binding site 395491005701 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 395491005702 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 395491005703 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 395491005704 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 395491005705 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 395491005706 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 395491005707 Catalytic site [active] 395491005708 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 395491005709 ribonuclease III; Reviewed; Region: PRK12371 395491005710 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 395491005711 dimerization interface [polypeptide binding]; other site 395491005712 active site 395491005713 metal binding site [ion binding]; metal-binding site 395491005714 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 395491005715 dsRNA binding site [nucleotide binding]; other site 395491005716 GTPase Era; Reviewed; Region: era; PRK00089 395491005717 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 395491005718 G1 box; other site 395491005719 GTP/Mg2+ binding site [chemical binding]; other site 395491005720 Switch I region; other site 395491005721 G2 box; other site 395491005722 Switch II region; other site 395491005723 G3 box; other site 395491005724 G4 box; other site 395491005725 G5 box; other site 395491005726 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 395491005727 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491005728 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 395491005729 ligand binding site [chemical binding]; other site 395491005730 flexible hinge region; other site 395491005731 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 395491005732 putative switch regulator; other site 395491005733 non-specific DNA interactions [nucleotide binding]; other site 395491005734 DNA binding site [nucleotide binding] 395491005735 sequence specific DNA binding site [nucleotide binding]; other site 395491005736 putative cAMP binding site [chemical binding]; other site 395491005737 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491005738 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 395491005739 active site 395491005740 phosphorylation site [posttranslational modification] 395491005741 intermolecular recognition site; other site 395491005742 dimerization interface [polypeptide binding]; other site 395491005743 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 395491005744 Recombination protein O N terminal; Region: RecO_N; cl15812 395491005745 Recombination protein O C terminal; Region: RecO_C; pfam02565 395491005746 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 395491005747 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491005748 active site 395491005749 catalytic tetrad [active] 395491005750 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 395491005751 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 395491005752 MOSC domain; Region: MOSC; pfam03473 395491005753 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491005754 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491005755 PAS fold; Region: PAS_7; pfam12860 395491005756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491005757 metal binding site [ion binding]; metal-binding site 395491005758 active site 395491005759 I-site; other site 395491005760 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491005761 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 395491005762 E-class dimer interface [polypeptide binding]; other site 395491005763 P-class dimer interface [polypeptide binding]; other site 395491005764 active site 395491005765 Cu2+ binding site [ion binding]; other site 395491005766 Zn2+ binding site [ion binding]; other site 395491005767 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395491005768 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 395491005769 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491005770 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 395491005771 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 395491005772 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395491005773 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 395491005774 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_15; cd04673 395491005775 nudix motif; other site 395491005776 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 395491005777 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395491005778 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 395491005779 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395491005780 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 395491005781 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 395491005782 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491005783 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 395491005784 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 395491005785 Walker A/P-loop; other site 395491005786 ATP binding site [chemical binding]; other site 395491005787 Q-loop/lid; other site 395491005788 ABC transporter signature motif; other site 395491005789 Walker B; other site 395491005790 D-loop; other site 395491005791 H-loop/switch region; other site 395491005792 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395491005793 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395491005794 Predicted permeases [General function prediction only]; Region: RarD; COG2962 395491005795 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 395491005796 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 395491005797 active site 395491005798 catalytic residues [active] 395491005799 metal binding site [ion binding]; metal-binding site 395491005800 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 395491005801 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 395491005802 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491005803 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491005804 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491005805 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 395491005806 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395491005807 active site 395491005808 HIGH motif; other site 395491005809 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395491005810 KMSKS motif; other site 395491005811 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 395491005812 tRNA binding surface [nucleotide binding]; other site 395491005813 anticodon binding site; other site 395491005814 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 395491005815 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 395491005816 active site 395491005817 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491005818 classical (c) SDRs; Region: SDR_c; cd05233 395491005819 NAD(P) binding site [chemical binding]; other site 395491005820 active site 395491005821 amidophosphoribosyltransferase; Provisional; Region: PRK09123 395491005822 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 395491005823 active site 395491005824 tetramer interface [polypeptide binding]; other site 395491005825 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395491005826 active site 395491005827 Colicin V production protein; Region: Colicin_V; cl00567 395491005828 DNA repair protein RadA; Provisional; Region: PRK11823 395491005829 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491005830 Walker A motif; other site 395491005831 ATP binding site [chemical binding]; other site 395491005832 Walker B motif; other site 395491005833 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395491005834 LysE type translocator; Region: LysE; cl00565 395491005835 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 395491005836 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 395491005837 active site 395491005838 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395491005839 dimer interface [polypeptide binding]; other site 395491005840 substrate binding site [chemical binding]; other site 395491005841 catalytic residues [active] 395491005842 replicative DNA helicase; Provisional; Region: PRK09165 395491005843 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 395491005844 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 395491005845 Walker A motif; other site 395491005846 ATP binding site [chemical binding]; other site 395491005847 Walker B motif; other site 395491005848 DNA binding loops [nucleotide binding] 395491005849 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 395491005850 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 395491005851 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 395491005852 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 395491005853 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 395491005854 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491005855 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 395491005856 active site 395491005857 catalytic tetrad [active] 395491005858 Acyl transferase domain; Region: Acyl_transf_1; cl08282 395491005859 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 395491005860 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 395491005861 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395491005862 NAD(P) binding site [chemical binding]; other site 395491005863 homotetramer interface [polypeptide binding]; other site 395491005864 homodimer interface [polypeptide binding]; other site 395491005865 active site 395491005866 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395491005867 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 395491005868 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 395491005869 dimer interface [polypeptide binding]; other site 395491005870 active site 395491005871 YceG-like family; Region: YceG; pfam02618 395491005872 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 395491005873 dimerization interface [polypeptide binding]; other site 395491005874 hypothetical protein; Provisional; Region: PRK11820 395491005875 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 395491005876 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 395491005877 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 395491005878 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 395491005879 catalytic site [active] 395491005880 G-X2-G-X-G-K; other site 395491005881 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 395491005882 S-adenosylmethionine binding site [chemical binding]; other site 395491005883 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 395491005884 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 395491005885 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 395491005886 SurA N-terminal domain; Region: SurA_N_3; cl07813 395491005887 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 395491005888 Organic solvent tolerance protein; Region: OstA_C; pfam04453 395491005889 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 395491005890 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395491005891 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 395491005892 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 395491005893 active site 395491005894 multifunctional aminopeptidase A; Provisional; Region: PRK00913 395491005895 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 395491005896 interface (dimer of trimers) [polypeptide binding]; other site 395491005897 Substrate-binding/catalytic site; other site 395491005898 Zn-binding sites [ion binding]; other site 395491005899 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 395491005900 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491005901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005902 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 395491005903 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491005904 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 395491005905 NodB motif; other site 395491005906 active site 395491005907 catalytic site [active] 395491005908 metal binding site [ion binding]; metal-binding site 395491005909 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395491005910 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491005911 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491005912 ABC transporter; Region: ABC_tran_2; pfam12848 395491005913 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491005914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491005915 metal binding site [ion binding]; metal-binding site 395491005916 active site 395491005917 I-site; other site 395491005918 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 395491005919 DinB superfamily; Region: DinB_2; pfam12867 395491005920 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 395491005921 glutaredoxin 2; Provisional; Region: PRK10387 395491005922 putative C-terminal domain interface [polypeptide binding]; other site 395491005923 putative GSH binding site (G-site) [chemical binding]; other site 395491005924 putative dimer interface [polypeptide binding]; other site 395491005925 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 395491005926 putative N-terminal domain interface [polypeptide binding]; other site 395491005927 putative dimer interface [polypeptide binding]; other site 395491005928 putative substrate binding pocket (H-site) [chemical binding]; other site 395491005929 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 395491005930 active site 395491005931 multimer interface [polypeptide binding]; other site 395491005932 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 395491005933 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 395491005934 CGNR zinc finger; Region: zf-CGNR; pfam11706 395491005935 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395491005936 TM-ABC transporter signature motif; other site 395491005937 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 395491005938 MoaE homodimer interface [polypeptide binding]; other site 395491005939 MoaD interaction [polypeptide binding]; other site 395491005940 active site residues [active] 395491005941 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 395491005942 MoaE interaction surface [polypeptide binding]; other site 395491005943 MoeB interaction surface [polypeptide binding]; other site 395491005944 thiocarboxylated glycine; other site 395491005945 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395491005946 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 395491005947 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 395491005948 GIY-YIG motif/motif A; other site 395491005949 active site 395491005950 catalytic site [active] 395491005951 putative DNA binding site [nucleotide binding]; other site 395491005952 metal binding site [ion binding]; metal-binding site 395491005953 UvrB/uvrC motif; Region: UVR; pfam02151 395491005954 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 395491005955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491005956 pteridine reductase; Provisional; Region: PRK09135 395491005957 NAD(P) binding site [chemical binding]; other site 395491005958 active site 395491005959 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; cl01155 395491005960 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 395491005961 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395491005962 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 395491005963 putative [4Fe-4S] binding site [ion binding]; other site 395491005964 putative molybdopterin cofactor binding site [chemical binding]; other site 395491005965 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 395491005966 putative molybdopterin cofactor binding site; other site 395491005967 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 395491005968 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 395491005969 dimer interface [polypeptide binding]; other site 395491005970 ADP-ribose binding site [chemical binding]; other site 395491005971 active site 395491005972 nudix motif; other site 395491005973 metal binding site [ion binding]; metal-binding site 395491005974 phosphonate metabolism protein PhnM; Region: phosphono_phnM; TIGR02318 395491005975 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 395491005976 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 395491005977 active site 395491005978 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 395491005979 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 395491005980 active site 395491005981 substrate binding site [chemical binding]; other site 395491005982 cosubstrate binding site; other site 395491005983 catalytic site [active] 395491005984 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 395491005985 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 395491005986 dimerization interface [polypeptide binding]; other site 395491005987 putative ATP binding site [chemical binding]; other site 395491005988 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395491005989 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491005990 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 395491005991 polyphosphate kinase; Provisional; Region: PRK05443 395491005992 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 395491005993 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 395491005994 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 395491005995 putative domain interface [polypeptide binding]; other site 395491005996 putative active site [active] 395491005997 catalytic site [active] 395491005998 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 395491005999 putative domain interface [polypeptide binding]; other site 395491006000 putative active site [active] 395491006001 catalytic site [active] 395491006002 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 395491006003 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 395491006004 Helix-turn-helix domains; Region: HTH; cl00088 395491006005 Winged helix-turn helix; Region: HTH_29; pfam13551 395491006006 Helix-turn-helix domains; Region: HTH; cl00088 395491006007 Integrase core domain; Region: rve; cl01316 395491006008 Integrase core domain; Region: rve_3; cl15866 395491006009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 395491006010 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 395491006011 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395491006012 cyclase homology domain; Region: CHD; cd07302 395491006013 nucleotidyl binding site; other site 395491006014 metal binding site [ion binding]; metal-binding site 395491006015 dimer interface [polypeptide binding]; other site 395491006016 ribonuclease D; Region: rnd; TIGR01388 395491006017 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 395491006018 catalytic site [active] 395491006019 putative active site [active] 395491006020 putative substrate binding site [chemical binding]; other site 395491006021 HRDC domain; Region: HRDC; cl02578 395491006022 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 395491006023 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395491006024 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395491006025 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 395491006026 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 395491006027 dimer interface [polypeptide binding]; other site 395491006028 anticodon binding site; other site 395491006029 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 the...; Region: AspRS_core; cd00777 395491006030 homodimer interface [polypeptide binding]; other site 395491006031 motif 1; other site 395491006032 active site 395491006033 motif 2; other site 395491006034 GAD domain; Region: GAD; pfam02938 395491006035 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 attaches...; Region: class_II_aaRS-like_core; cl00268 395491006036 active site 395491006037 motif 3; other site 395491006038 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395491006039 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491006040 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491006041 Helix-turn-helix domains; Region: HTH; cl00088 395491006042 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 395491006043 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 in DNA...; Region: TOP4c; cd00187 395491006044 CAP-like domain; other site 395491006045 active site 395491006046 primary dimer interface [polypeptide binding]; other site 395491006047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395491006048 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395491006049 putative hydrophobic ligand binding site [chemical binding]; other site 395491006050 Fic/DOC family; Region: Fic; cl00960 395491006051 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 395491006052 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 395491006053 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 395491006054 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491006055 RDD family; Region: RDD; cl00746 395491006056 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 395491006057 dimer interface [polypeptide binding]; other site 395491006058 allosteric magnesium binding site [ion binding]; other site 395491006059 active site 395491006060 aspartate-rich active site metal binding site; other site 395491006061 Schiff base residues; other site 395491006062 Helix-turn-helix domains; Region: HTH; cl00088 395491006063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 395491006064 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491006065 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491006066 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 395491006067 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 395491006068 dimer interface [polypeptide binding]; other site 395491006069 active site 395491006070 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395491006071 folate binding site [chemical binding]; other site 395491006072 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 395491006073 ATP cone domain; Region: ATP-cone; pfam03477 395491006074 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 395491006075 catalytic motif [active] 395491006076 Zn binding site [ion binding]; other site 395491006077 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; cl00161 395491006078 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; cl00161 395491006079 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 395491006080 Lumazine binding domain; Region: Lum_binding; pfam00677 395491006081 Lumazine binding domain; Region: Lum_binding; pfam00677 395491006082 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 395491006083 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 395491006084 substrate binding site; other site 395491006085 tetramer interface; other site 395491006086 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395491006087 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 395491006088 NADP binding site [chemical binding]; other site 395491006089 active site 395491006090 putative substrate binding site [chemical binding]; other site 395491006091 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 395491006092 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 395491006093 NAD binding site [chemical binding]; other site 395491006094 substrate binding site [chemical binding]; other site 395491006095 homodimer interface [polypeptide binding]; other site 395491006096 active site 395491006097 Cupin domain; Region: Cupin_2; cl09118 395491006098 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395491006099 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491006100 Cupin domain; Region: Cupin_2; cl09118 395491006101 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 395491006102 homopentamer interface [polypeptide binding]; other site 395491006103 active site 395491006104 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 395491006105 putative RNA binding site [nucleotide binding]; other site 395491006106 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 395491006107 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 395491006108 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 395491006109 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 395491006110 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 395491006111 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 395491006112 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 395491006113 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 395491006114 dimer interface [polypeptide binding]; other site 395491006115 active site 395491006116 CoA binding pocket [chemical binding]; other site 395491006117 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 395491006118 IHF dimer interface [polypeptide binding]; other site 395491006119 IHF - DNA interface [nucleotide binding]; other site 395491006120 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 395491006121 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395491006122 DNA binding residues [nucleotide binding] 395491006123 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491006124 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 395491006125 active site 395491006126 phosphorylation site [posttranslational modification] 395491006127 intermolecular recognition site; other site 395491006128 dimerization interface [polypeptide binding]; other site 395491006129 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395491006130 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395491006131 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 395491006132 dimer interface [polypeptide binding]; other site 395491006133 phosphorylation site [posttranslational modification] 395491006134 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 395491006135 ATP binding site [chemical binding]; other site 395491006136 Mg2+ binding site [ion binding]; other site 395491006137 G-X-G motif; other site 395491006138 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491006139 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 395491006140 active site 395491006141 phosphorylation site [posttranslational modification] 395491006142 intermolecular recognition site; other site 395491006143 dimerization interface [polypeptide binding]; other site 395491006144 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395491006145 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 395491006146 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 395491006147 DXD motif; other site 395491006148 PilZ domain; Region: PilZ; cl01260 395491006149 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 395491006150 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 395491006151 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395491006152 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 395491006153 motif II; other site 395491006154 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 395491006155 S-adenosylmethionine binding site [chemical binding]; other site 395491006156 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491006157 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491006158 Helix-turn-helix domains; Region: HTH; cl00088 395491006159 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491006160 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491006161 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491006162 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491006163 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 395491006164 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491006165 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 395491006166 dimer interface [polypeptide binding]; other site 395491006167 conserved gate region; other site 395491006168 putative PBP binding loops; other site 395491006169 ABC-ATPase subunit interface; other site 395491006170 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491006171 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 395491006172 dimer interface [polypeptide binding]; other site 395491006173 conserved gate region; other site 395491006174 putative PBP binding loops; other site 395491006175 ABC-ATPase subunit interface; other site 395491006176 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 395491006177 Bacterial sugar transferase; Region: Bac_transf; cl00939 395491006178 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395491006179 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491006180 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395491006181 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 395491006182 SLBB domain; Region: SLBB; pfam10531 395491006183 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 395491006184 Chain length determinant protein; Region: Wzz; cl15801 395491006185 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 395491006186 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491006187 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 395491006188 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 395491006189 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 395491006190 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395491006191 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 395491006192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491006193 Arginase family; Region: Arginase; cl00306 395491006194 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 395491006195 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; cl11420 395491006196 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 395491006197 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 395491006198 23S rRNA interface [nucleotide binding]; other site 395491006199 L3 interface [polypeptide binding]; other site 395491006200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491006201 Helix-turn-helix domains; Region: HTH; cl00088 395491006202 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 395491006203 dimerization interface [polypeptide binding]; other site 395491006204 enoyl-CoA hydratase; Validated; Region: PRK08139 395491006205 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 395491006206 substrate binding site [chemical binding]; other site 395491006207 oxyanion hole (OAH) forming residues; other site 395491006208 trimer interface [polypeptide binding]; other site 395491006209 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 395491006210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491006211 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 395491006212 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 395491006213 homodimer interface [polypeptide binding]; other site 395491006214 substrate-cofactor binding pocket; other site 395491006215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491006216 catalytic residue [active] 395491006217 Cupin domain; Region: Cupin_2; cl09118 395491006218 CHASE4 domain; Region: CHASE4; cl01308 395491006219 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491006220 metal binding site [ion binding]; metal-binding site 395491006221 active site 395491006222 I-site; other site 395491006223 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491006224 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 395491006225 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 395491006226 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 395491006227 dimer interface [polypeptide binding]; other site 395491006228 conserved gate region; other site 395491006229 putative PBP binding loops; other site 395491006230 ABC-ATPase subunit interface; other site 395491006231 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 395491006232 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 395491006233 dimer interface [polypeptide binding]; other site 395491006234 conserved gate region; other site 395491006235 putative PBP binding loops; other site 395491006236 ABC-ATPase subunit interface; other site 395491006237 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 395491006238 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 395491006239 Walker A/P-loop; other site 395491006240 ATP binding site [chemical binding]; other site 395491006241 Q-loop/lid; other site 395491006242 ABC transporter signature motif; other site 395491006243 Walker B; other site 395491006244 D-loop; other site 395491006245 H-loop/switch region; other site 395491006246 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 395491006247 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 395491006248 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491006249 metal binding site [ion binding]; metal-binding site 395491006250 active site 395491006251 I-site; other site 395491006252 Clp protease; Region: CLP_protease; pfam00574 395491006253 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395491006254 oligomer interface [polypeptide binding]; other site 395491006255 active site residues [active] 395491006256 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 395491006257 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 395491006258 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 395491006259 Walker A motif; other site 395491006260 ATP binding site [chemical binding]; other site 395491006261 Walker B motif; other site 395491006262 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395491006263 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 395491006264 Found in ATP-dependent protease La (LON); Region: LON; smart00464 395491006265 Found in ATP-dependent protease La (LON); Region: LON; smart00464 395491006266 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 395491006267 Walker A motif; other site 395491006268 ATP binding site [chemical binding]; other site 395491006269 Walker B motif; other site 395491006270 arginine finger; other site 395491006271 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395491006272 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 395491006273 IHF dimer interface [polypeptide binding]; other site 395491006274 IHF - DNA interface [nucleotide binding]; other site 395491006275 EamA-like transporter family; Region: EamA; cl01037 395491006276 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 395491006277 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 395491006278 active site 395491006279 catalytic tetrad [active] 395491006280 Cupin domain; Region: Cupin_2; cl09118 395491006281 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; cl16911 395491006282 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 395491006283 catalytic residues [active] 395491006284 dimer interface [polypeptide binding]; other site 395491006285 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 395491006286 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 395491006287 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 395491006288 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 395491006289 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 395491006290 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 395491006291 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 395491006292 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 395491006293 putative dimer interface [polypeptide binding]; other site 395491006294 [2Fe-2S] cluster binding site [ion binding]; other site 395491006295 Uncharacterized conserved protein [Function unknown]; Region: COG3743 395491006296 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 395491006297 SLBB domain; Region: SLBB; pfam10531 395491006298 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 395491006299 Uncharacterized conserved protein [Function unknown]; Region: COG3743 395491006300 NADH dehydrogenase subunit G; Validated; Region: PRK09130 395491006301 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 395491006302 catalytic loop [active] 395491006303 iron binding site [ion binding]; other site 395491006304 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 395491006305 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 395491006306 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 395491006307 NADH dehydrogenase; Region: NADHdh; cl00469 395491006308 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 395491006309 4Fe-4S binding domain; Region: Fer4; cl02805 395491006310 4Fe-4S binding domain; Region: Fer4; cl02805 395491006311 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 395491006312 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 395491006313 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 395491006314 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 395491006315 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 395491006316 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395491006317 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 395491006318 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 395491006319 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395491006320 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 395491006321 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395491006322 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 395491006323 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 395491006324 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 395491006325 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 395491006326 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491006327 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 395491006328 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491006329 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 395491006330 dimer interface [polypeptide binding]; other site 395491006331 substrate binding site [chemical binding]; other site 395491006332 metal binding site [ion binding]; metal-binding site 395491006333 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 395491006334 prolyl-tRNA synthetase; Provisional; Region: PRK12325 395491006335 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 formation of...; Region: ProRS_core_prok; cd00779 395491006336 dimer interface [polypeptide binding]; other site 395491006337 motif 1; other site 395491006338 active site 395491006339 motif 2; other site 395491006340 motif 3; other site 395491006341 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 395491006342 anticodon binding site; other site 395491006343 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 395491006344 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395491006345 FtsX-like permease family; Region: FtsX; cl15850 395491006346 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395491006347 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395491006348 Walker A/P-loop; other site 395491006349 ATP binding site [chemical binding]; other site 395491006350 Q-loop/lid; other site 395491006351 ABC transporter signature motif; other site 395491006352 Walker B; other site 395491006353 D-loop; other site 395491006354 H-loop/switch region; other site 395491006355 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 395491006356 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 395491006357 Protein of unknown function, DUF655; Region: DUF655; pfam04919 395491006358 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 395491006359 generic binding surface II; other site 395491006360 generic binding surface I; other site 395491006361 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491006362 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 395491006363 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491006364 hypothetical protein; Provisional; Region: PRK06132 395491006365 DNA polymerase IV; Provisional; Region: PRK02794 395491006366 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 395491006367 active site 395491006368 DNA binding site [nucleotide binding] 395491006369 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491006370 Coenzyme A binding pocket [chemical binding]; other site 395491006371 hypothetical protein; Provisional; Region: 30.2; PHA02597 395491006372 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 395491006373 Response regulator receiver domain; Region: Response_reg; pfam00072 395491006374 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 395491006375 active site 395491006376 phosphorylation site [posttranslational modification] 395491006377 intermolecular recognition site; other site 395491006378 dimerization interface [polypeptide binding]; other site 395491006379 response regulator PleD; Reviewed; Region: pleD; PRK09581 395491006380 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 395491006381 active site 395491006382 phosphorylation site [posttranslational modification] 395491006383 intermolecular recognition site; other site 395491006384 dimerization interface [polypeptide binding]; other site 395491006385 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 395491006386 active site 395491006387 phosphorylation site [posttranslational modification] 395491006388 intermolecular recognition site; other site 395491006389 dimerization interface [polypeptide binding]; other site 395491006390 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491006391 metal binding site [ion binding]; metal-binding site 395491006392 active site 395491006393 I-site; other site 395491006394 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 395491006395 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 395491006396 putative substrate translocation pore; other site 395491006397 Protein of unknown function (DUF983); Region: DUF983; cl02211 395491006398 ribonuclease R; Region: RNase_R; TIGR02063 395491006399 RNB domain; Region: RNB; pfam00773 395491006400 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 play an important...; Region: S1_RNase_R; cd04471 395491006401 RNA binding site [nucleotide binding]; other site 395491006402 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 395491006403 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 395491006404 active site 395491006405 interdomain interaction site; other site 395491006406 putative metal-binding site [ion binding]; other site 395491006407 nucleotide binding site [chemical binding]; other site 395491006408 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 395491006409 domain I; other site 395491006410 DNA binding groove [nucleotide binding] 395491006411 phosphate binding site [ion binding]; other site 395491006412 domain II; other site 395491006413 domain III; other site 395491006414 nucleotide binding site [chemical binding]; other site 395491006415 catalytic site [active] 395491006416 domain IV; other site 395491006417 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 395491006418 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395491006419 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395491006420 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395491006421 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 395491006422 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395491006423 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 395491006424 dihydroorotase; Validated; Region: PRK09059 395491006425 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 395491006426 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 395491006427 active site 395491006428 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 395491006429 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395491006430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491006431 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395491006432 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395491006433 active site 395491006434 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 395491006435 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 395491006436 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 395491006437 AMIN domain; Region: AMIN; pfam11741 395491006438 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 395491006439 active site 395491006440 metal binding site [ion binding]; metal-binding site 395491006441 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 395491006442 Transglycosylase; Region: Transgly; cl07896 395491006443 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491006444 peptide chain release factor 2; Provisional; Region: PRK07342 395491006445 RF-1 domain; Region: RF-1; cl02875 395491006446 RF-1 domain; Region: RF-1; cl02875 395491006447 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491006448 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491006449 Walker A/P-loop; other site 395491006450 ATP binding site [chemical binding]; other site 395491006451 Q-loop/lid; other site 395491006452 ABC transporter signature motif; other site 395491006453 Walker B; other site 395491006454 D-loop; other site 395491006455 H-loop/switch region; other site 395491006456 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491006457 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 395491006458 TM-ABC transporter signature motif; other site 395491006459 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 395491006460 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491006461 putative ligand binding site [chemical binding]; other site 395491006462 short chain dehydrogenase; Provisional; Region: PRK06841 395491006463 classical (c) SDRs; Region: SDR_c; cd05233 395491006464 NAD(P) binding site [chemical binding]; other site 395491006465 active site 395491006466 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 395491006467 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 395491006468 DAK2 domain; Region: Dak2; cl03685 395491006469 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395491006470 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491006471 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395491006472 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 395491006473 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 395491006474 DAK2 domain; Region: Dak2; cl03685 395491006475 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 395491006476 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 395491006477 Protease inhibitor Inh; Region: Inh; pfam02974 395491006478 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395491006479 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 395491006480 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395491006481 elongation factor Tu; Reviewed; Region: PRK00049 395491006482 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395491006483 G1 box; other site 395491006484 GEF interaction site [polypeptide binding]; other site 395491006485 GTP/Mg2+ binding site [chemical binding]; other site 395491006486 Switch I region; other site 395491006487 G2 box; other site 395491006488 G3 box; other site 395491006489 Switch II region; other site 395491006490 G4 box; other site 395491006491 G5 box; other site 395491006492 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 395491006493 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 395491006494 Antibiotic Binding Site [chemical binding]; other site 395491006495 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491006496 extended (e) SDRs; Region: SDR_e; cd08946 395491006497 NAD(P) binding site [chemical binding]; other site 395491006498 active site 395491006499 substrate binding site [chemical binding]; other site 395491006500 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 395491006501 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 395491006502 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 395491006503 putative homodimer interface [polypeptide binding]; other site 395491006504 KOW motif; Region: KOW; cl00354 395491006505 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 395491006506 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 395491006507 23S rRNA interface [nucleotide binding]; other site 395491006508 L7/L12 interface [polypeptide binding]; other site 395491006509 putative thiostrepton binding site; other site 395491006510 L25 interface [polypeptide binding]; other site 395491006511 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 395491006512 mRNA/rRNA interface [nucleotide binding]; other site 395491006513 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 395491006514 23S rRNA interface [nucleotide binding]; other site 395491006515 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 395491006516 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 395491006517 L11 interface [polypeptide binding]; other site 395491006518 putative EF-Tu interaction site [polypeptide binding]; other site 395491006519 putative EF-G interaction site [polypeptide binding]; other site 395491006520 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; cl04593 395491006521 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 395491006522 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 395491006523 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; cl04593 395491006524 RPB11 interaction site [polypeptide binding]; other site 395491006525 RPB12 interaction site [polypeptide binding]; other site 395491006526 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 395491006527 RPB1 interaction site [polypeptide binding]; other site 395491006528 RPB11 interaction site [polypeptide binding]; other site 395491006529 RPB10 interaction site [polypeptide binding]; other site 395491006530 RPB3 interaction site [polypeptide binding]; other site 395491006531 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 395491006532 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 395491006533 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 395491006534 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 395491006535 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 395491006536 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 395491006537 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395491006538 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 395491006539 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 395491006540 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395491006541 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 395491006542 DNA binding site [nucleotide binding] 395491006543 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 395491006544 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 395491006545 S17 interaction site [polypeptide binding]; other site 395491006546 S8 interaction site; other site 395491006547 16S rRNA interaction site [nucleotide binding]; other site 395491006548 streptomycin interaction site [chemical binding]; other site 395491006549 23S rRNA interaction site [nucleotide binding]; other site 395491006550 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 395491006551 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 395491006552 elongation factor G; Reviewed; Region: PRK00007 395491006553 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 395491006554 G1 box; other site 395491006555 putative GEF interaction site [polypeptide binding]; other site 395491006556 GTP/Mg2+ binding site [chemical binding]; other site 395491006557 Switch I region; other site 395491006558 G2 box; other site 395491006559 G3 box; other site 395491006560 Switch II region; other site 395491006561 G4 box; other site 395491006562 G5 box; other site 395491006563 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 395491006564 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 395491006565 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 395491006566 elongation factor Tu; Reviewed; Region: PRK00049 395491006567 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395491006568 G1 box; other site 395491006569 GEF interaction site [polypeptide binding]; other site 395491006570 GTP/Mg2+ binding site [chemical binding]; other site 395491006571 Switch I region; other site 395491006572 G2 box; other site 395491006573 G3 box; other site 395491006574 Switch II region; other site 395491006575 G4 box; other site 395491006576 G5 box; other site 395491006577 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 395491006578 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 395491006579 Antibiotic Binding Site [chemical binding]; other site 395491006580 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 395491006581 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 395491006582 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 395491006583 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 395491006584 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 395491006585 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 395491006586 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 395491006587 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 395491006588 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 395491006589 putative translocon binding site; other site 395491006590 protein-rRNA interface [nucleotide binding]; other site 395491006591 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 395491006592 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 395491006593 G-X-X-G motif; other site 395491006594 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 395491006595 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 395491006596 23S rRNA interface [nucleotide binding]; other site 395491006597 5S rRNA interface [nucleotide binding]; other site 395491006598 putative antibiotic binding site [chemical binding]; other site 395491006599 L25 interface [polypeptide binding]; other site 395491006600 L27 interface [polypeptide binding]; other site 395491006601 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 395491006602 23S rRNA interface [nucleotide binding]; other site 395491006603 putative translocon interaction site; other site 395491006604 signal recognition particle (SRP54) interaction site; other site 395491006605 L23 interface [polypeptide binding]; other site 395491006606 trigger factor interaction site; other site 395491006607 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 395491006608 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 395491006609 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 395491006610 KOW motif; Region: KOW; cl00354 395491006611 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 395491006612 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 395491006613 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 395491006614 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 395491006615 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 395491006616 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 395491006617 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395491006618 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395491006619 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 395491006620 23S rRNA interface [nucleotide binding]; other site 395491006621 L21e interface [polypeptide binding]; other site 395491006622 5S rRNA interface [nucleotide binding]; other site 395491006623 L27 interface [polypeptide binding]; other site 395491006624 L5 interface [polypeptide binding]; other site 395491006625 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 395491006626 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 395491006627 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 395491006628 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 395491006629 23S rRNA binding site [nucleotide binding]; other site 395491006630 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 395491006631 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 395491006632 SecY translocase; Region: SecY; pfam00344 395491006633 adenylate kinase; Reviewed; Region: adk; PRK00279 395491006634 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 395491006635 AMP-binding site [chemical binding]; other site 395491006636 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 395491006637 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 395491006638 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 395491006639 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 395491006640 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 395491006641 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 395491006642 alphaNTD homodimer interface [polypeptide binding]; other site 395491006643 alphaNTD - beta interaction site [polypeptide binding]; other site 395491006644 alphaNTD - beta' interaction site [polypeptide binding]; other site 395491006645 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 395491006646 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 395491006647 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 395491006648 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 395491006649 TMAO/DMSO reductase; Reviewed; Region: PRK05363 395491006650 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 395491006651 Moco binding site; other site 395491006652 metal coordination site [ion binding]; other site 395491006653 Dehydratase family; Region: ILVD_EDD; cl00340 395491006654 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395491006655 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 395491006656 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395491006657 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395491006658 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 395491006659 protein binding site [polypeptide binding]; other site 395491006660 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 395491006661 protein binding site [polypeptide binding]; other site 395491006662 recombination factor protein RarA; Reviewed; Region: PRK13342 395491006663 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 395491006664 Walker A motif; other site 395491006665 ATP binding site [chemical binding]; other site 395491006666 Walker B motif; other site 395491006667 arginine finger; other site 395491006668 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 395491006669 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 395491006670 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; cl09108 395491006671 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491006672 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 395491006673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491006674 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395491006675 short chain dehydrogenase; Provisional; Region: PRK06180 395491006676 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395491006677 NADP binding site [chemical binding]; other site 395491006678 active site 395491006679 steroid binding site; other site 395491006680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491006681 Helix-turn-helix domains; Region: HTH; cl00088 395491006682 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 395491006683 putative effector binding pocket; other site 395491006684 putative dimerization interface [polypeptide binding]; other site 395491006685 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 395491006686 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491006687 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395491006688 Uncharacterized conserved protein [Function unknown]; Region: COG2128 395491006689 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491006690 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491006691 PAS fold; Region: PAS_7; pfam12860 395491006692 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395491006693 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 395491006694 dimer interface [polypeptide binding]; other site 395491006695 phosphorylation site [posttranslational modification] 395491006696 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 395491006697 ATP binding site [chemical binding]; other site 395491006698 Mg2+ binding site [ion binding]; other site 395491006699 G-X-G motif; other site 395491006700 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491006701 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491006702 DNA binding site [nucleotide binding] 395491006703 domain linker motif; other site 395491006704 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 395491006705 putative dimerization interface [polypeptide binding]; other site 395491006706 putative ligand binding site [chemical binding]; other site 395491006707 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 395491006708 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491006709 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491006710 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395491006711 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 395491006712 substrate binding site [chemical binding]; other site 395491006713 oxyanion hole (OAH) forming residues; other site 395491006714 trimer interface [polypeptide binding]; other site 395491006715 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491006716 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 395491006717 NAD(P) binding site [chemical binding]; other site 395491006718 catalytic residues [active] 395491006719 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491006720 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 395491006721 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395491006722 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 395491006723 dimer interface [polypeptide binding]; other site 395491006724 putative PBP binding loops; other site 395491006725 ABC-ATPase subunit interface; other site 395491006726 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491006727 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 395491006728 dimer interface [polypeptide binding]; other site 395491006729 conserved gate region; other site 395491006730 putative PBP binding loops; other site 395491006731 ABC-ATPase subunit interface; other site 395491006732 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491006733 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491006734 Walker A/P-loop; other site 395491006735 ATP binding site [chemical binding]; other site 395491006736 Q-loop/lid; other site 395491006737 ABC transporter signature motif; other site 395491006738 Walker B; other site 395491006739 D-loop; other site 395491006740 H-loop/switch region; other site 395491006741 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 395491006742 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395491006743 choline dehydrogenase; Validated; Region: PRK02106 395491006744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491006745 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395491006746 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491006747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491006748 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491006749 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 395491006750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491006751 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 395491006752 putative catalytic site [active] 395491006753 putative phosphate binding site [ion binding]; other site 395491006754 active site 395491006755 metal binding site A [ion binding]; metal-binding site 395491006756 DNA binding site [nucleotide binding] 395491006757 putative AP binding site [nucleotide binding]; other site 395491006758 putative metal binding site B [ion binding]; other site 395491006759 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395491006760 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 395491006761 active site 395491006762 phosphorylation site [posttranslational modification] 395491006763 intermolecular recognition site; other site 395491006764 dimerization interface [polypeptide binding]; other site 395491006765 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 395491006766 DNA binding residues [nucleotide binding] 395491006767 dimerization interface [polypeptide binding]; other site 395491006768 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395491006769 Histidine kinase; Region: HisKA_3; pfam07730 395491006770 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 395491006771 ATP binding site [chemical binding]; other site 395491006772 Mg2+ binding site [ion binding]; other site 395491006773 G-X-G motif; other site 395491006774 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395491006775 BA14K-like protein; Region: BA14K; pfam07886 395491006776 BA14K-like protein; Region: BA14K; pfam07886 395491006777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491006778 Helix-turn-helix domains; Region: HTH; cl00088 395491006779 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 395491006780 putative effector binding pocket; other site 395491006781 putative dimerization interface [polypeptide binding]; other site 395491006782 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491006783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395491006784 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491006785 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 395491006786 cofactor binding site; other site 395491006787 metal binding site [ion binding]; metal-binding site 395491006788 Helix-turn-helix domains; Region: HTH; cl00088 395491006789 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491006790 AsnC family; Region: AsnC_trans_reg; pfam01037 395491006791 Helix-turn-helix domains; Region: HTH; cl00088 395491006792 AsnC family; Region: AsnC_trans_reg; pfam01037 395491006793 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 395491006794 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 395491006795 dimer interface [polypeptide binding]; other site 395491006796 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 395491006797 active site 395491006798 Fe binding site [ion binding]; other site 395491006799 Cupin domain; Region: Cupin_2; cl09118 395491006800 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 395491006801 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395491006802 maleylacetoacetate isomerase; Region: maiA; TIGR01262 395491006803 GST_N family, Class Zeta 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_Zeta; cd03042 395491006804 C-terminal domain interface [polypeptide binding]; other site 395491006805 GSH binding site (G-site) [chemical binding]; other site 395491006806 putative dimer interface [polypeptide binding]; other site 395491006807 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 395491006808 dimer interface [polypeptide binding]; other site 395491006809 N-terminal domain interface [polypeptide binding]; other site 395491006810 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 395491006811 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 395491006812 active site 395491006813 TniQ; Region: TniQ; pfam06527 395491006814 AAA domain; Region: AAA_22; pfam13401 395491006815 Integrase core domain; Region: rve; cl01316 395491006816 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 395491006817 putative active site [active] 395491006818 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 395491006819 active site 395491006820 FMN binding site [chemical binding]; other site 395491006821 substrate binding site [chemical binding]; other site 395491006822 homotetramer interface [polypeptide binding]; other site 395491006823 catalytic residue [active] 395491006824 Helix-turn-helix domains; Region: HTH; cl00088 395491006825 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 395491006826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491006827 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395491006828 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 395491006829 putative dimer interface [polypeptide binding]; other site 395491006830 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395491006831 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 395491006832 ligand binding site [chemical binding]; other site 395491006833 flexible hinge region; other site 395491006834 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 395491006835 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395491006836 dimerization interface [polypeptide binding]; other site 395491006837 DPS ferroxidase diiron center [ion binding]; other site 395491006838 ion pore; other site 395491006839 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; cl00200 395491006840 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 395491006841 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 395491006842 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 395491006843 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 395491006844 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 395491006845 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 395491006846 GAF domain; Region: GAF; cl15785 395491006847 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491006848 PAS domain; Region: PAS_9; pfam13426 395491006849 putative active site [active] 395491006850 heme pocket [chemical binding]; other site 395491006851 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491006852 PAS fold; Region: PAS_3; pfam08447 395491006853 putative active site [active] 395491006854 heme pocket [chemical binding]; other site 395491006855 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491006856 PAS fold; Region: PAS_3; pfam08447 395491006857 putative active site [active] 395491006858 heme pocket [chemical binding]; other site 395491006859 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 395491006860 dimer interface [polypeptide binding]; other site 395491006861 phosphorylation site [posttranslational modification] 395491006862 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 395491006863 ATP binding site [chemical binding]; other site 395491006864 G-X-G motif; other site 395491006865 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395491006866 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 395491006867 active site 395491006868 phosphorylation site [posttranslational modification] 395491006869 intermolecular recognition site; other site 395491006870 dimerization interface [polypeptide binding]; other site 395491006871 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 395491006872 DNA binding residues [nucleotide binding] 395491006873 dimerization interface [polypeptide binding]; other site 395491006874 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 395491006875 active site 395491006876 phosphorylation site [posttranslational modification] 395491006877 intermolecular recognition site; other site 395491006878 dimerization interface [polypeptide binding]; other site 395491006879 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 395491006880 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491006881 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491006882 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491006883 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491006884 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491006885 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491006886 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 395491006887 DNA binding site [nucleotide binding] 395491006888 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 395491006889 Response regulator receiver domain; Region: Response_reg; pfam00072 395491006890 active site 395491006891 phosphorylation site [posttranslational modification] 395491006892 intermolecular recognition site; other site 395491006893 dimerization interface [polypeptide binding]; other site 395491006894 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491006895 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491006896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491006897 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491006898 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 395491006899 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491006900 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395491006901 active site 395491006902 substrate pocket [chemical binding]; other site 395491006903 proteolytic cleavage site; other site 395491006904 dimer interface [polypeptide binding]; other site 395491006905 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491006906 PAS fold; Region: PAS_3; pfam08447 395491006907 putative active site [active] 395491006908 heme pocket [chemical binding]; other site 395491006909 PAS fold; Region: PAS_3; pfam08447 395491006910 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395491006911 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395491006912 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491006913 putative active site [active] 395491006914 heme pocket [chemical binding]; other site 395491006915 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 395491006916 dimer interface [polypeptide binding]; other site 395491006917 phosphorylation site [posttranslational modification] 395491006918 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 395491006919 ATP binding site [chemical binding]; other site 395491006920 Mg2+ binding site [ion binding]; other site 395491006921 G-X-G motif; other site 395491006922 Protein of unknown function (DUF983); Region: DUF983; cl02211 395491006923 Domain of unknown function DUF302; Region: DUF302; cl01364 395491006924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491006925 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491006926 NAD(P) binding site [chemical binding]; other site 395491006927 active site 395491006928 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395491006929 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491006930 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491006931 classical (c) SDRs; Region: SDR_c; cd05233 395491006932 NAD(P) binding site [chemical binding]; other site 395491006933 active site 395491006934 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491006935 substrate binding site [chemical binding]; other site 395491006936 activation loop (A-loop); other site 395491006937 Predicted ATPase [General function prediction only]; Region: COG3899 395491006938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491006939 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395491006940 GAF domain; Region: GAF; cl15785 395491006941 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491006942 putative active site [active] 395491006943 PAS fold; Region: PAS_3; pfam08447 395491006944 heme pocket [chemical binding]; other site 395491006945 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395491006946 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 395491006947 ATP binding site [chemical binding]; other site 395491006948 G-X-G motif; other site 395491006949 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491006950 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 395491006951 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395491006952 Walker A motif; other site 395491006953 ATP binding site [chemical binding]; other site 395491006954 Walker B motif; other site 395491006955 arginine finger; other site 395491006956 Peptidase family M41; Region: Peptidase_M41; pfam01434 395491006957 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 395491006958 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 395491006959 cofactor binding site; other site 395491006960 DNA binding site [nucleotide binding] 395491006961 substrate interaction site [chemical binding]; other site 395491006962 FRG domain; Region: FRG; cl07460 395491006963 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 395491006964 PLD-like domain; Region: PLDc_2; pfam13091 395491006965 putative active site [active] 395491006966 catalytic site [active] 395491006967 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 395491006968 putative active site [active] 395491006969 catalytic site [active] 395491006970 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 395491006971 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395491006972 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491006973 DNA helicase IV; Provisional; Region: helD; PRK11054 395491006974 Family description; Region: UvrD_C_2; cl15862 395491006975 DNA topoisomerase I; Validated; Region: PRK07219 395491006976 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 395491006977 AIPR protein; Region: AIPR; pfam10592 395491006978 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395491006979 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491006980 AAA domain; Region: AAA_23; pfam13476 395491006981 Walker A/P-loop; other site 395491006982 ATP binding site [chemical binding]; other site 395491006983 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491006984 ABC transporter signature motif; other site 395491006985 Walker B; other site 395491006986 D-loop; other site 395491006987 H-loop/switch region; other site 395491006988 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395491006989 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 395491006990 active site 395491006991 metal binding site [ion binding]; metal-binding site 395491006992 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 395491006993 active site 395491006994 iron coordination sites [ion binding]; other site 395491006995 substrate binding pocket [chemical binding]; other site 395491006996 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 395491006997 active site 395491006998 NTP binding site [chemical binding]; other site 395491006999 metal binding triad [ion binding]; metal-binding site 395491007000 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; cl00083 395491007001 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 395491007002 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 395491007003 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 395491007004 Transcriptional regulator; Region: Transcrip_reg; cl00361 395491007005 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 395491007006 active site 395491007007 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 395491007008 TSCPD domain; Region: TSCPD; cl14834 395491007009 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 395491007010 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395491007011 active site 395491007012 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 395491007013 Ligand Binding Site [chemical binding]; other site 395491007014 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 395491007015 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 395491007016 putative MPT binding site; other site 395491007017 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491007018 threonine dehydratase; Validated; Region: PRK08639 395491007019 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 395491007020 tetramer interface [polypeptide binding]; other site 395491007021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491007022 catalytic residue [active] 395491007023 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 395491007024 Transcriptional activator HlyU; Region: HlyU; cl02273 395491007025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491007026 metal binding site [ion binding]; metal-binding site 395491007027 active site 395491007028 I-site; other site 395491007029 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491007030 classical (c) SDRs; Region: SDR_c; cd05233 395491007031 NAD(P) binding site [chemical binding]; other site 395491007032 active site 395491007033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491007034 Helix-turn-helix domains; Region: HTH; cl00088 395491007035 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491007036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491007037 Helix-turn-helix domains; Region: HTH; cl00088 395491007038 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 395491007039 dimerization interface [polypeptide binding]; other site 395491007040 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 395491007041 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 395491007042 active site 395491007043 metal binding site [ion binding]; metal-binding site 395491007044 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 395491007045 PilZ domain; Region: PilZ; cl01260 395491007046 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491007047 Helix-turn-helix domains; Region: HTH; cl00088 395491007048 AsnC family; Region: AsnC_trans_reg; pfam01037 395491007049 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 395491007050 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 395491007051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007052 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 395491007053 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 395491007054 S-adenosylmethionine binding site [chemical binding]; other site 395491007055 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491007056 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 395491007057 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 395491007058 active site residue [active] 395491007059 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 395491007060 active site residue [active] 395491007061 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 395491007062 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 395491007063 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395491007064 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 395491007065 dimer interface [polypeptide binding]; other site 395491007066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491007067 catalytic residue [active] 395491007068 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 395491007069 Cupin domain; Region: Cupin_2; cl09118 395491007070 short chain dehydrogenase; Provisional; Region: PRK06101 395491007071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007072 NAD(P) binding site [chemical binding]; other site 395491007073 active site 395491007074 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395491007075 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; cl16911 395491007076 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 395491007077 S-adenosylmethionine binding site [chemical binding]; other site 395491007078 Uncharacterized conserved protein [Function unknown]; Region: COG3496 395491007079 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 395491007080 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 395491007081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007082 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 395491007083 DNA photolyase; Region: DNA_photolyase; pfam00875 395491007084 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 395491007085 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491007086 putative phosphatase; Provisional; Region: PRK11587 395491007087 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395491007088 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 395491007089 [4Fe-4S] binding site [ion binding]; other site 395491007090 molybdopterin cofactor binding site; other site 395491007091 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 395491007092 molybdopterin cofactor binding site; other site 395491007093 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395491007094 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 395491007095 [2Fe-2S] cluster binding site [ion binding]; other site 395491007096 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 395491007097 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491007098 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395491007099 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395491007100 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395491007101 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 395491007102 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 395491007103 putative substrate translocation pore; other site 395491007104 NMT1-like family; Region: NMT1_2; cl15260 395491007105 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 395491007106 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 395491007107 active site 395491007108 phosphorylation site [posttranslational modification] 395491007109 intermolecular recognition site; other site 395491007110 ANTAR domain; Region: ANTAR; cl04297 395491007111 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 395491007112 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 395491007113 C-terminal domain interface [polypeptide binding]; other site 395491007114 GSH binding site (G-site) [chemical binding]; other site 395491007115 dimer interface [polypeptide binding]; other site 395491007116 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395491007117 N-terminal domain interface [polypeptide binding]; other site 395491007118 dimer interface [polypeptide binding]; other site 395491007119 substrate binding pocket (H-site) [chemical binding]; other site 395491007120 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 395491007121 dimerization interface [polypeptide binding]; other site 395491007122 putative DNA binding site [nucleotide binding]; other site 395491007123 putative Zn2+ binding site [ion binding]; other site 395491007124 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395491007125 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 395491007126 membrane-bound complex binding site; other site 395491007127 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 395491007128 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 395491007129 dimer interface [polypeptide binding]; other site 395491007130 non-prolyl cis peptide bond; other site 395491007131 active site 395491007132 insertion regions; other site 395491007133 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 395491007134 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395491007135 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395491007136 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395491007137 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 395491007138 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 395491007139 dimer interface [polypeptide binding]; other site 395491007140 decamer (pentamer of dimers) interface [polypeptide binding]; other site 395491007141 catalytic triad [active] 395491007142 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 395491007143 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 395491007144 C-terminal domain interface [polypeptide binding]; other site 395491007145 GSH binding site (G-site) [chemical binding]; other site 395491007146 dimer interface [polypeptide binding]; other site 395491007147 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 395491007148 dimer interface [polypeptide binding]; other site 395491007149 N-terminal domain interface [polypeptide binding]; other site 395491007150 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 catalyze...; Region: LT_GEWL; cd00254 395491007151 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395491007152 catalytic residue [active] 395491007153 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491007154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007155 NAD(P) binding site [chemical binding]; other site 395491007156 active site 395491007157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007158 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 395491007159 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 395491007160 MOFRL family; Region: MOFRL; pfam05161 395491007161 hypothetical protein; Validated; Region: PRK09104 395491007162 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 395491007163 metal binding site [ion binding]; metal-binding site 395491007164 putative dimer interface [polypeptide binding]; other site 395491007165 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491007166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491007167 Walker A/P-loop; other site 395491007168 ATP binding site [chemical binding]; other site 395491007169 Q-loop/lid; other site 395491007170 ABC transporter signature motif; other site 395491007171 Walker B; other site 395491007172 D-loop; other site 395491007173 H-loop/switch region; other site 395491007174 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 395491007175 dimer interface [polypeptide binding]; other site 395491007176 conserved gate region; other site 395491007177 putative PBP binding loops; other site 395491007178 ABC-ATPase subunit interface; other site 395491007179 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 395491007180 dimer interface [polypeptide binding]; other site 395491007181 conserved gate region; other site 395491007182 putative PBP binding loops; other site 395491007183 ABC-ATPase subunit interface; other site 395491007184 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395491007185 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 395491007186 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 395491007187 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 395491007188 active site 395491007189 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 395491007190 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395491007191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491007192 Walker A/P-loop; other site 395491007193 ATP binding site [chemical binding]; other site 395491007194 Q-loop/lid; other site 395491007195 ABC transporter signature motif; other site 395491007196 Walker B; other site 395491007197 D-loop; other site 395491007198 H-loop/switch region; other site 395491007199 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 395491007200 ABC-ATPase subunit interface; other site 395491007201 dimer interface [polypeptide binding]; other site 395491007202 putative PBP binding regions; other site 395491007203 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 395491007204 intersubunit interface [polypeptide binding]; other site 395491007205 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 395491007206 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491007207 Cupin domain; Region: Cupin_2; cl09118 395491007208 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491007209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491007210 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 395491007211 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491007212 putative NAD(P) binding site [chemical binding]; other site 395491007213 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491007214 classical (c) SDRs; Region: SDR_c; cd05233 395491007215 NAD(P) binding site [chemical binding]; other site 395491007216 active site 395491007217 hydroperoxidase II; Provisional; Region: katE; PRK11249 395491007218 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 395491007219 tetramer interface [polypeptide binding]; other site 395491007220 heme binding pocket [chemical binding]; other site 395491007221 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 395491007222 domain interactions; other site 395491007223 KTSC domain; Region: KTSC; pfam13619 395491007224 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395491007225 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 395491007226 S-adenosylmethionine binding site [chemical binding]; other site 395491007227 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 395491007228 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 395491007229 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395491007230 HIGH motif; other site 395491007231 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395491007232 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395491007233 active site 395491007234 KMSKS motif; other site 395491007235 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 395491007236 tRNA binding surface [nucleotide binding]; other site 395491007237 anticodon binding site; other site 395491007238 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 395491007239 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; cl01155 395491007240 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395491007241 Sel1 repeat; Region: Sel1; cl02723 395491007242 Sel1 repeat; Region: Sel1; cl02723 395491007243 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 395491007244 putative catalytic site [active] 395491007245 putative phosphate binding site [ion binding]; other site 395491007246 active site 395491007247 metal binding site A [ion binding]; metal-binding site 395491007248 DNA binding site [nucleotide binding] 395491007249 putative AP binding site [nucleotide binding]; other site 395491007250 putative metal binding site B [ion binding]; other site 395491007251 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 395491007252 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 395491007253 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491007254 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 395491007255 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 395491007256 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 395491007257 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 395491007258 active site 395491007259 HIGH motif; other site 395491007260 KMSK motif region; other site 395491007261 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 395491007262 tRNA binding surface [nucleotide binding]; other site 395491007263 anticodon binding site; other site 395491007264 Sporulation related domain; Region: SPOR; cl10051 395491007265 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 395491007266 ScpA/B protein; Region: ScpA_ScpB; cl00598 395491007267 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 395491007268 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 395491007269 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 395491007270 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 395491007271 seryl-tRNA synthetase; Provisional; Region: PRK05431 395491007272 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 395491007273 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 bound...; Region: SerRS_core; cd00770 395491007274 dimer interface [polypeptide binding]; other site 395491007275 active site 395491007276 motif 1; other site 395491007277 motif 2; other site 395491007278 motif 3; other site 395491007279 Survival protein SurE; Region: SurE; cl00448 395491007280 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 395491007281 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; cl16911 395491007282 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 395491007283 S-adenosylmethionine binding site [chemical binding]; other site 395491007284 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 395491007285 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 395491007286 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395491007287 Peptidase family M23; Region: Peptidase_M23; pfam01551 395491007288 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 395491007289 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491007290 Preprotein translocase subunit; Region: YajC; cl00806 395491007291 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 395491007292 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395491007293 Protein export membrane protein; Region: SecD_SecF; cl14618 395491007294 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395491007295 Protein export membrane protein; Region: SecD_SecF; cl14618 395491007296 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 395491007297 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 395491007298 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 395491007299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007300 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395491007301 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395491007302 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 395491007303 GDYXXLXY protein; Region: GDYXXLXY; cl02066 395491007304 trigger factor; Provisional; Region: tig; PRK01490 395491007305 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 395491007306 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 395491007307 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491007308 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 395491007309 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 395491007310 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 395491007311 FeS/SAM binding site; other site 395491007312 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 395491007313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007314 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491007315 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395491007316 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 395491007317 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; cl09108 395491007318 phosphate binding site [ion binding]; other site 395491007319 hypothetical protein; Reviewed; Region: PRK00024 395491007320 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 395491007321 MPN+ (JAMM) motif; other site 395491007322 Zinc-binding site [ion binding]; other site 395491007323 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 395491007324 active site 395491007325 Helix-turn-helix domains; Region: HTH; cl00088 395491007326 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 includes...; Region: RuvC_resolvase; cl00243 395491007327 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491007328 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 395491007329 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395491007330 Amidase; Region: Amidase; cl11426 395491007331 Uncharacterized protein conserved in bacteria (DUF2084); Region: DUF2084; cl01566 395491007332 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395491007333 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491007334 Coenzyme A binding pocket [chemical binding]; other site 395491007335 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 395491007336 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 395491007337 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 395491007338 GatB domain; Region: GatB_Yqey; cl11497 395491007339 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395491007340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491007341 Coenzyme A binding pocket [chemical binding]; other site 395491007342 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395491007343 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395491007344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491007345 Coenzyme A binding pocket [chemical binding]; other site 395491007346 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 395491007347 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 395491007348 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 395491007349 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491007350 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 395491007351 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395491007352 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491007353 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395491007354 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 395491007355 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 395491007356 carboxyltransferase (CT) interaction site; other site 395491007357 biotinylation site [posttranslational modification]; other site 395491007358 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 395491007359 trimer interface [polypeptide binding]; other site 395491007360 active site 395491007361 dimer interface [polypeptide binding]; other site 395491007362 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 395491007363 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 395491007364 catalytic residues [active] 395491007365 aspartate aminotransferase; Provisional; Region: PRK05764 395491007366 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 395491007367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491007368 homodimer interface [polypeptide binding]; other site 395491007369 catalytic residue [active] 395491007370 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 395491007371 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 395491007372 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 395491007373 aminotransferase; Validated; Region: PRK09148 395491007374 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 395491007375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491007376 homodimer interface [polypeptide binding]; other site 395491007377 catalytic residue [active] 395491007378 homoserine dehydrogenase; Provisional; Region: PRK06349 395491007379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007380 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 395491007381 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 395491007382 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 395491007383 DHH family; Region: DHH; pfam01368 395491007384 DHHA1 domain; Region: DHHA1; pfam02272 395491007385 Peptidase M15; Region: Peptidase_M15_3; cl01194 395491007386 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491007387 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 395491007388 dimer interface [polypeptide binding]; other site 395491007389 active site 395491007390 metal binding site [ion binding]; metal-binding site 395491007391 glutathione binding site [chemical binding]; other site 395491007392 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 protein; Region: CSP_CDS; cd04458 395491007393 DNA-binding site [nucleotide binding]; DNA binding site 395491007394 RNA-binding motif; other site 395491007395 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 protein; Region: CSP_CDS; cd04458 395491007396 DNA-binding site [nucleotide binding]; DNA binding site 395491007397 RNA-binding motif; other site 395491007398 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 395491007399 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 395491007400 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 395491007401 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395491007402 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395491007403 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491007404 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 395491007405 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491007406 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491007407 Walker A/P-loop; other site 395491007408 ATP binding site [chemical binding]; other site 395491007409 Q-loop/lid; other site 395491007410 ABC transporter signature motif; other site 395491007411 Walker B; other site 395491007412 D-loop; other site 395491007413 H-loop/switch region; other site 395491007414 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491007415 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 395491007416 dimer interface [polypeptide binding]; other site 395491007417 conserved gate region; other site 395491007418 putative PBP binding loops; other site 395491007419 ABC-ATPase subunit interface; other site 395491007420 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 395491007421 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; cl00427 395491007422 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 395491007423 dimer interface [polypeptide binding]; other site 395491007424 conserved gate region; other site 395491007425 putative PBP binding loops; other site 395491007426 ABC-ATPase subunit interface; other site 395491007427 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395491007428 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 395491007429 substrate binding pocket [chemical binding]; other site 395491007430 membrane-bound complex binding site; other site 395491007431 hinge residues; other site 395491007432 cystathionine beta-lyase; Provisional; Region: PRK05967 395491007433 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 395491007434 homodimer interface [polypeptide binding]; other site 395491007435 substrate-cofactor binding pocket; other site 395491007436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491007437 catalytic residue [active] 395491007438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007439 salicylate hydroxylase; Provisional; Region: PRK06475 395491007440 Zinc-finger domain; Region: zf-CHCC; cl01821 395491007441 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491007442 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491007443 serine acetyltransferase; Provisional; Region: cysE; PRK11132 395491007444 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 395491007445 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 395491007446 trimer interface [polypeptide binding]; other site 395491007447 active site 395491007448 substrate binding site [chemical binding]; other site 395491007449 CoA binding site [chemical binding]; other site 395491007450 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 395491007451 Phasin protein; Region: Phasin_2; cl11491 395491007452 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 395491007453 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 395491007454 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 395491007455 Walker A motif; other site 395491007456 ATP binding site [chemical binding]; other site 395491007457 Walker B motif; other site 395491007458 arginine finger; other site 395491007459 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 395491007460 Walker A motif; other site 395491007461 ATP binding site [chemical binding]; other site 395491007462 Walker B motif; other site 395491007463 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395491007464 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 395491007465 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 395491007466 HIT family signature motif; other site 395491007467 catalytic residue [active] 395491007468 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491007469 Protein of unknown function, DUF482; Region: DUF482; pfam04339 395491007470 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 395491007471 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395491007472 putative active site [active] 395491007473 catalytic site [active] 395491007474 putative metal binding site [ion binding]; other site 395491007475 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_1; cd02199 395491007476 homotrimer interaction site [polypeptide binding]; other site 395491007477 putative active site [active] 395491007478 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 395491007479 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 395491007480 rRNA interaction site [nucleotide binding]; other site 395491007481 S8 interaction site; other site 395491007482 putative laminin-1 binding site; other site 395491007483 elongation factor Ts; Provisional; Region: tsf; PRK09377 395491007484 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 395491007485 Elongation factor TS; Region: EF_TS; pfam00889 395491007486 Elongation factor TS; Region: EF_TS; pfam00889 395491007487 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 395491007488 putative nucleotide binding site [chemical binding]; other site 395491007489 uridine monophosphate binding site [chemical binding]; other site 395491007490 homohexameric interface [polypeptide binding]; other site 395491007491 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 round of...; Region: RRF; cl00240 395491007492 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 395491007493 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 395491007494 catalytic residue [active] 395491007495 putative FPP diphosphate binding site; other site 395491007496 putative FPP binding hydrophobic cleft; other site 395491007497 dimer interface [polypeptide binding]; other site 395491007498 putative IPP diphosphate binding site; other site 395491007499 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 395491007500 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 395491007501 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 395491007502 active site 395491007503 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 395491007504 protein binding site [polypeptide binding]; other site 395491007505 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 395491007506 putative substrate binding region [chemical binding]; other site 395491007507 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 395491007508 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395491007509 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395491007510 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395491007511 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395491007512 Surface antigen; Region: Bac_surface_Ag; cl03097 395491007513 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 395491007514 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 395491007515 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 395491007516 trimer interface [polypeptide binding]; other site 395491007517 active site 395491007518 UDP-GlcNAc binding site [chemical binding]; other site 395491007519 lipid binding site [chemical binding]; lipid-binding site 395491007520 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 395491007521 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 395491007522 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 395491007523 active site 395491007524 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 395491007525 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 395491007526 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 395491007527 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 395491007528 dimer interface [polypeptide binding]; other site 395491007529 Citrate synthase; Region: Citrate_synt; pfam00285 395491007530 active site 395491007531 citrylCoA binding site [chemical binding]; other site 395491007532 NADH binding [chemical binding]; other site 395491007533 cationic pore residues; other site 395491007534 oxalacetate/citrate binding site [chemical binding]; other site 395491007535 coenzyme A binding site [chemical binding]; other site 395491007536 catalytic triad [active] 395491007537 Competence protein; Region: Competence; cl00471 395491007538 LexA repressor; Validated; Region: PRK00215 395491007539 Helix-turn-helix domains; Region: HTH; cl00088 395491007540 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 395491007541 Catalytic site [active] 395491007542 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491007543 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395491007544 NeuB family; Region: NeuB; cl00496 395491007545 enolase; Provisional; Region: eno; PRK00077 395491007546 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 395491007547 dimer interface [polypeptide binding]; other site 395491007548 metal binding site [ion binding]; metal-binding site 395491007549 substrate binding pocket [chemical binding]; other site 395491007550 Septum formation initiator; Region: DivIC; cl11433 395491007551 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 395491007552 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 395491007553 tetramer interface [polypeptide binding]; other site 395491007554 TPP-binding site [chemical binding]; other site 395491007555 heterodimer interface [polypeptide binding]; other site 395491007556 phosphorylation loop region [posttranslational modification] 395491007557 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 395491007558 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 395491007559 E3 interaction surface; other site 395491007560 lipoyl attachment site [posttranslational modification]; other site 395491007561 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 395491007562 alpha subunit interface [polypeptide binding]; other site 395491007563 TPP binding site [chemical binding]; other site 395491007564 heterodimer interface [polypeptide binding]; other site 395491007565 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395491007566 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 395491007567 E3 interaction surface; other site 395491007568 lipoyl attachment site [posttranslational modification]; other site 395491007569 e3 binding domain; Region: E3_binding; pfam02817 395491007570 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 395491007571 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 395491007572 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 395491007573 active site 395491007574 catalytic triad [active] 395491007575 oxyanion hole [active] 395491007576 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 395491007577 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 395491007578 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491007579 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395491007580 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 395491007581 lipoyl synthase; Provisional; Region: PRK05481 395491007582 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 395491007583 FeS/SAM binding site; other site 395491007584 topology modulation protein; Reviewed; Region: PRK08118 395491007585 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491007586 active site 395491007587 topology modulation protein; Reviewed; Region: PRK08118 395491007588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491007589 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 395491007590 putative coenzyme Q binding site [chemical binding]; other site 395491007591 Competence-damaged protein; Region: CinA; cl00666 395491007592 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 395491007593 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 395491007594 substrate binding site; other site 395491007595 dimer interface; other site 395491007596 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 395491007597 homotrimer interaction site [polypeptide binding]; other site 395491007598 zinc binding site [ion binding]; other site 395491007599 CDP-binding sites; other site 395491007600 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 395491007601 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 395491007602 FMN binding site [chemical binding]; other site 395491007603 active site 395491007604 catalytic residues [active] 395491007605 substrate binding site [chemical binding]; other site 395491007606 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395491007607 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 395491007608 dimer interface [polypeptide binding]; other site 395491007609 phosphorylation site [posttranslational modification] 395491007610 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 395491007611 ATP binding site [chemical binding]; other site 395491007612 Mg2+ binding site [ion binding]; other site 395491007613 G-X-G motif; other site 395491007614 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 395491007615 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 395491007616 active site 395491007617 phosphorylation site [posttranslational modification] 395491007618 intermolecular recognition site; other site 395491007619 dimerization interface [polypeptide binding]; other site 395491007620 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 395491007621 Walker A motif; other site 395491007622 ATP binding site [chemical binding]; other site 395491007623 Walker B motif; other site 395491007624 arginine finger; other site 395491007625 Helix-turn-helix domains; Region: HTH; cl00088 395491007626 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491007627 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 395491007628 active site 395491007629 catalytic tetrad [active] 395491007630 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 395491007631 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; cl01054 395491007632 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 395491007633 dimer interface [polypeptide binding]; other site 395491007634 phosphorylation site [posttranslational modification] 395491007635 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 395491007636 ATP binding site [chemical binding]; other site 395491007637 Mg2+ binding site [ion binding]; other site 395491007638 G-X-G motif; other site 395491007639 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395491007640 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 395491007641 active site 395491007642 phosphorylation site [posttranslational modification] 395491007643 intermolecular recognition site; other site 395491007644 dimerization interface [polypeptide binding]; other site 395491007645 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 395491007646 Walker A motif; other site 395491007647 ATP binding site [chemical binding]; other site 395491007648 Walker B motif; other site 395491007649 Helix-turn-helix domains; Region: HTH; cl00088 395491007650 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 395491007651 homodimer interface [polypeptide binding]; other site 395491007652 substrate-cofactor binding pocket; other site 395491007653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491007654 catalytic residue [active] 395491007655 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 395491007656 Sm1 motif; other site 395491007657 intra - hexamer interaction site; other site 395491007658 inter - hexamer interaction site [polypeptide binding]; other site 395491007659 nucleotide binding pocket [chemical binding]; other site 395491007660 Sm2 motif; other site 395491007661 GTPases [General function prediction only]; Region: HflX; COG2262 395491007662 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 395491007663 HflX GTPase family; Region: HflX; cd01878 395491007664 G1 box; other site 395491007665 GTP/Mg2+ binding site [chemical binding]; other site 395491007666 Switch I region; other site 395491007667 G2 box; other site 395491007668 G3 box; other site 395491007669 Switch II region; other site 395491007670 G4 box; other site 395491007671 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 395491007672 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 395491007673 homodimer interface [polypeptide binding]; other site 395491007674 metal binding site [ion binding]; metal-binding site 395491007675 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 395491007676 homodimer interface [polypeptide binding]; other site 395491007677 active site 395491007678 putative chemical substrate binding site [chemical binding]; other site 395491007679 metal binding site [ion binding]; metal-binding site 395491007680 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 395491007681 nucleoside/Zn binding site; other site 395491007682 dimer interface [polypeptide binding]; other site 395491007683 catalytic motif [active] 395491007684 siroheme synthase; Provisional; Region: cysG; PRK10637 395491007685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007686 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 395491007687 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395491007688 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 395491007689 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 395491007690 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395491007691 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395491007692 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 395491007693 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 395491007694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007695 Membrane transport protein; Region: Mem_trans; cl09117 395491007696 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491007697 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491007698 classical (c) SDRs; Region: SDR_c; cd05233 395491007699 NAD(P) binding site [chemical binding]; other site 395491007700 active site 395491007701 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491007702 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491007703 Walker A/P-loop; other site 395491007704 ATP binding site [chemical binding]; other site 395491007705 Q-loop/lid; other site 395491007706 ABC transporter signature motif; other site 395491007707 Walker B; other site 395491007708 D-loop; other site 395491007709 H-loop/switch region; other site 395491007710 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491007711 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 395491007712 dimer interface [polypeptide binding]; other site 395491007713 conserved gate region; other site 395491007714 putative PBP binding loops; other site 395491007715 ABC-ATPase subunit interface; other site 395491007716 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 395491007717 dimer interface [polypeptide binding]; other site 395491007718 conserved gate region; other site 395491007719 putative PBP binding loops; other site 395491007720 ABC-ATPase subunit interface; other site 395491007721 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 395491007722 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491007723 substrate binding pocket [chemical binding]; other site 395491007724 membrane-bound complex binding site; other site 395491007725 hinge residues; other site 395491007726 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 395491007727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007728 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 395491007729 Helix-turn-helix domains; Region: HTH; cl00088 395491007730 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491007731 classical (c) SDRs; Region: SDR_c; cd05233 395491007732 NAD(P) binding site [chemical binding]; other site 395491007733 active site 395491007734 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395491007735 CsbD-like; Region: CsbD; cl15799 395491007736 hypothetical protein; Provisional; Region: PRK06834 395491007737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007739 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 395491007740 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491007741 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 395491007742 cyclase homology domain; Region: CHD; cd07302 395491007743 nucleotidyl binding site; other site 395491007744 metal binding site [ion binding]; metal-binding site 395491007745 dimer interface [polypeptide binding]; other site 395491007746 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491007747 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491007748 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 395491007749 hypothetical protein; Provisional; Region: PRK06184 395491007750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007752 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491007753 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491007754 Helix-turn-helix domains; Region: HTH; cl00088 395491007755 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 395491007756 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395491007757 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491007758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491007759 Helix-turn-helix domains; Region: HTH; cl00088 395491007760 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491007761 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491007762 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491007763 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 395491007764 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 395491007765 dimer interface [polypeptide binding]; other site 395491007766 conserved gate region; other site 395491007767 putative PBP binding loops; other site 395491007768 ABC-ATPase subunit interface; other site 395491007769 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491007770 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 395491007771 dimer interface [polypeptide binding]; other site 395491007772 conserved gate region; other site 395491007773 putative PBP binding loops; other site 395491007774 ABC-ATPase subunit interface; other site 395491007775 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491007776 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491007777 Walker A/P-loop; other site 395491007778 ATP binding site [chemical binding]; other site 395491007779 Q-loop/lid; other site 395491007780 ABC transporter signature motif; other site 395491007781 Walker B; other site 395491007782 D-loop; other site 395491007783 H-loop/switch region; other site 395491007784 TOBE domain; Region: TOBE_2; cl01440 395491007785 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395491007786 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491007787 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491007788 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491007789 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491007790 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 395491007791 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491007792 putative active site [active] 395491007793 catalytic residue [active] 395491007794 D-mannonate dehydratase [Carbohydrate transport and metabolism]; Region: UxuA; COG1312 395491007795 mannonate dehydratase; Region: uxuA; TIGR00695 395491007796 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491007797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491007798 DNA-binding site [nucleotide binding]; DNA binding site 395491007799 FCD domain; Region: FCD; cl11656 395491007800 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_7; cd08512 395491007801 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491007802 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491007803 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 395491007804 dimer interface [polypeptide binding]; other site 395491007805 conserved gate region; other site 395491007806 putative PBP binding loops; other site 395491007807 ABC-ATPase subunit interface; other site 395491007808 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 395491007809 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395491007810 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; cl00427 395491007811 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491007812 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491007813 Walker A/P-loop; other site 395491007814 ATP binding site [chemical binding]; other site 395491007815 Q-loop/lid; other site 395491007816 ABC transporter signature motif; other site 395491007817 Walker B; other site 395491007818 D-loop; other site 395491007819 H-loop/switch region; other site 395491007820 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491007821 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491007822 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491007823 Walker A/P-loop; other site 395491007824 ATP binding site [chemical binding]; other site 395491007825 Q-loop/lid; other site 395491007826 ABC transporter signature motif; other site 395491007827 Walker B; other site 395491007828 D-loop; other site 395491007829 H-loop/switch region; other site 395491007830 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491007831 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491007832 DNA binding site [nucleotide binding] 395491007833 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491007834 ligand binding site [chemical binding]; other site 395491007835 dimerization interface [polypeptide binding]; other site 395491007836 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491007837 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 395491007838 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491007839 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 395491007840 dimer interface [polypeptide binding]; other site 395491007841 ABC-ATPase subunit interface; other site 395491007842 putative PBP binding loops; other site 395491007843 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 395491007844 dimer interface [polypeptide binding]; other site 395491007845 conserved gate region; other site 395491007846 putative PBP binding loops; other site 395491007847 ABC-ATPase subunit interface; other site 395491007848 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491007849 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491007850 Walker A/P-loop; other site 395491007851 ATP binding site [chemical binding]; other site 395491007852 Q-loop/lid; other site 395491007853 ABC transporter signature motif; other site 395491007854 Walker B; other site 395491007855 D-loop; other site 395491007856 H-loop/switch region; other site 395491007857 TOBE domain; Region: TOBE_2; cl01440 395491007858 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491007859 macrolide transporter subunit MacA; Provisional; Region: PRK11578 395491007860 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491007861 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491007862 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395491007863 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395491007864 Walker A/P-loop; other site 395491007865 ATP binding site [chemical binding]; other site 395491007866 Q-loop/lid; other site 395491007867 ABC transporter signature motif; other site 395491007868 Walker B; other site 395491007869 D-loop; other site 395491007870 H-loop/switch region; other site 395491007871 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395491007872 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395491007873 FtsX-like permease family; Region: FtsX; cl15850 395491007874 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491007875 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395491007876 active site 395491007877 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491007878 DNA-binding site [nucleotide binding]; DNA binding site 395491007879 FCD domain; Region: FCD; cl11656 395491007880 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395491007881 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 395491007882 FAD binding pocket [chemical binding]; other site 395491007883 FAD binding motif [chemical binding]; other site 395491007884 phosphate binding motif [ion binding]; other site 395491007885 beta-alpha-beta structure motif; other site 395491007886 NAD binding pocket [chemical binding]; other site 395491007887 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 395491007888 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395491007889 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 395491007890 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 395491007891 NADP binding site [chemical binding]; other site 395491007892 dimer interface [polypeptide binding]; other site 395491007893 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395491007894 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491007895 Walker A/P-loop; other site 395491007896 ATP binding site [chemical binding]; other site 395491007897 Q-loop/lid; other site 395491007898 ABC transporter signature motif; other site 395491007899 Walker B; other site 395491007900 D-loop; other site 395491007901 H-loop/switch region; other site 395491007902 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491007903 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491007904 TM-ABC transporter signature motif; other site 395491007905 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491007906 TM-ABC transporter signature motif; other site 395491007907 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 395491007908 putative ligand binding site [chemical binding]; other site 395491007909 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395491007910 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 395491007911 putative ligand binding site [chemical binding]; other site 395491007912 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491007913 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491007914 Walker A/P-loop; other site 395491007915 ATP binding site [chemical binding]; other site 395491007916 Q-loop/lid; other site 395491007917 ABC transporter signature motif; other site 395491007918 Walker B; other site 395491007919 D-loop; other site 395491007920 H-loop/switch region; other site 395491007921 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491007922 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 395491007923 TM-ABC transporter signature motif; other site 395491007924 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 395491007925 TM-ABC transporter signature motif; other site 395491007926 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491007927 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491007928 DNA-binding site [nucleotide binding]; DNA binding site 395491007929 FCD domain; Region: FCD; cl11656 395491007930 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 395491007931 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 395491007932 Substrate binding site; other site 395491007933 Mg++ binding site; other site 395491007934 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 395491007935 active site 395491007936 substrate binding site [chemical binding]; other site 395491007937 CoA binding site [chemical binding]; other site 395491007938 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395491007939 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 395491007940 glutaminase active site [active] 395491007941 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 395491007942 dimer interface [polypeptide binding]; other site 395491007943 active site 395491007944 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 395491007945 dimer interface [polypeptide binding]; other site 395491007946 active site 395491007947 Protein of unknown function (DUF502); Region: DUF502; cl01107 395491007948 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 395491007949 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 395491007950 generic binding surface II; other site 395491007951 ssDNA binding site; other site 395491007952 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 395491007953 ATP binding site [chemical binding]; other site 395491007954 putative Mg++ binding site [ion binding]; other site 395491007955 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 395491007956 nucleotide binding region [chemical binding]; other site 395491007957 ATP-binding site [chemical binding]; other site 395491007958 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 395491007959 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 395491007960 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 395491007961 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 395491007962 ATP binding site [chemical binding]; other site 395491007963 putative Mg++ binding site [ion binding]; other site 395491007964 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 395491007965 nucleotide binding region [chemical binding]; other site 395491007966 ATP-binding site [chemical binding]; other site 395491007967 TRCF domain; Region: TRCF; cl04088 395491007968 OsmC-like protein; Region: OsmC; cl00767 395491007969 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 395491007970 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 395491007971 catalytic residues [active] 395491007972 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 395491007973 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_14; cd08497 395491007974 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 395491007975 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 395491007976 glutamine synthetase; Provisional; Region: glnA; PRK09469 395491007977 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395491007978 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395491007979 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395491007980 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395491007981 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 395491007982 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 395491007983 putative substrate binding site [chemical binding]; other site 395491007984 putative ATP binding site [chemical binding]; other site 395491007985 Protein of unknown function (DUF808); Region: DUF808; cl01002 395491007986 Protein of unknown function DUF72; Region: DUF72; cl00777 395491007987 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395491007988 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491007989 Coenzyme A binding pocket [chemical binding]; other site 395491007990 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 395491007991 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 395491007992 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 395491007993 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 395491007994 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 395491007995 dimer interface [polypeptide binding]; other site 395491007996 ssDNA binding site [nucleotide binding]; other site 395491007997 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395491007998 MarC family integral membrane protein; Region: MarC; cl00919 395491007999 DNA gyrase subunit A; Validated; Region: PRK05560 395491008000 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 in DNA...; Region: TOP4c; cd00187 395491008001 CAP-like domain; other site 395491008002 active site 395491008003 primary dimer interface [polypeptide binding]; other site 395491008004 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395491008005 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395491008006 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395491008007 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395491008008 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395491008009 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 395491008010 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 395491008011 active site 395491008012 (T/H)XGH motif; other site 395491008013 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 395491008014 active site 395491008015 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 395491008016 active site 395491008017 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 395491008018 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 395491008019 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 395491008020 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 395491008021 OpgC protein; Region: OpgC_C; cl00792 395491008022 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 395491008023 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 395491008024 dimer interface [polypeptide binding]; other site 395491008025 active site 395491008026 Helix-turn-helix domains; Region: HTH; cl00088 395491008027 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 395491008028 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395491008029 glycogen branching enzyme; Provisional; Region: PRK05402 395491008030 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 395491008031 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395491008032 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395491008033 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395491008034 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395491008035 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395491008036 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395491008037 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491008038 Coenzyme A binding pocket [chemical binding]; other site 395491008039 Helix-turn-helix domains; Region: HTH; cl00088 395491008040 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491008041 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 395491008042 putative substrate translocation pore; other site 395491008043 Arginase family; Region: Arginase; cl00306 395491008044 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 395491008045 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 395491008046 DNA binding site [nucleotide binding] 395491008047 TolB amino-terminal domain; Region: TolB_N; cl00639 395491008048 TPR repeat; Region: TPR_11; pfam13414 395491008049 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 395491008050 TPR motif; other site 395491008051 binding surface 395491008052 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 395491008053 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 395491008054 putative catalytic residues [active] 395491008055 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 395491008056 Double zinc ribbon; Region: DZR; pfam12773 395491008057 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 395491008058 cyclase homology domain; Region: CHD; cd07302 395491008059 nucleotidyl binding site; other site 395491008060 metal binding site [ion binding]; metal-binding site 395491008061 dimer interface [polypeptide binding]; other site 395491008062 Predicted ATPase [General function prediction only]; Region: COG3899 395491008063 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491008064 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395491008065 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 395491008066 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395491008067 PYR/PP interface [polypeptide binding]; other site 395491008068 dimer interface [polypeptide binding]; other site 395491008069 TPP binding site [chemical binding]; other site 395491008070 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395491008071 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 395491008072 TPP-binding site [chemical binding]; other site 395491008073 dimer interface [polypeptide binding]; other site 395491008074 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491008075 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491008076 DNA binding site [nucleotide binding] 395491008077 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 395491008078 putative dimerization interface [polypeptide binding]; other site 395491008079 putative ligand binding site [chemical binding]; other site 395491008080 Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs; Region: PBP1_tmGBP; cd06314 395491008081 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491008082 ligand binding site [chemical binding]; other site 395491008083 dimerization interface [polypeptide binding]; other site 395491008084 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491008085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491008086 Walker A/P-loop; other site 395491008087 ATP binding site [chemical binding]; other site 395491008088 Q-loop/lid; other site 395491008089 ABC transporter signature motif; other site 395491008090 Walker B; other site 395491008091 D-loop; other site 395491008092 H-loop/switch region; other site 395491008093 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491008094 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 395491008095 TM-ABC transporter signature motif; other site 395491008096 Winged helix-turn helix; Region: HTH_29; pfam13551 395491008097 Helix-turn-helix domains; Region: HTH; cl00088 395491008098 Integrase core domain; Region: rve; cl01316 395491008099 Helix-turn-helix domains; Region: HTH; cl00088 395491008100 Winged helix-turn helix; Region: HTH_29; pfam13551 395491008101 Helix-turn-helix domains; Region: HTH; cl00088 395491008102 Integrase core domain; Region: rve; cl01316 395491008103 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 395491008104 DNA helicase, putative; Region: TIGR00376 395491008105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491008106 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 395491008107 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491008108 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 395491008109 putative active site [active] 395491008110 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 395491008111 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395491008112 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491008113 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_19; cd07262 395491008114 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491008115 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491008116 transcriptional regulator; Provisional; Region: PRK10632 395491008117 Helix-turn-helix domains; Region: HTH; cl00088 395491008118 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 395491008119 dimerization interface [polypeptide binding]; other site 395491008120 Protein of unknown function, DUF599; Region: DUF599; cl01575 395491008121 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 395491008122 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 395491008123 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 395491008124 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 395491008125 putative active site [active] 395491008126 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491008127 PAS fold; Region: PAS_3; pfam08447 395491008128 putative active site [active] 395491008129 heme pocket [chemical binding]; other site 395491008130 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 395491008131 Ligand Binding Site [chemical binding]; other site 395491008132 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 395491008133 Integral membrane protein TerC family; Region: TerC; cl10468 395491008134 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491008135 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 395491008136 active site 395491008137 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 395491008138 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 395491008139 active site 395491008140 HIGH motif; other site 395491008141 KMSKS motif; other site 395491008142 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 395491008143 tRNA binding surface [nucleotide binding]; other site 395491008144 anticodon binding site; other site 395491008145 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395491008146 DNA polymerase III subunit delta'; Validated; Region: PRK09112 395491008147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491008148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491008149 thymidylate kinase; Region: DTMP_kinase; TIGR00041 395491008150 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 395491008151 TMP-binding site; other site 395491008152 ATP-binding site [chemical binding]; other site 395491008153 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491008154 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 395491008155 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 395491008156 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 395491008157 GYD domain; Region: GYD; cl01743 395491008158 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491008159 metal binding site [ion binding]; metal-binding site 395491008160 active site 395491008161 I-site; other site 395491008162 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 395491008163 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395491008164 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 395491008165 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491008166 Helix-turn-helix domains; Region: HTH; cl00088 395491008167 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 395491008168 putative substrate binding pocket [chemical binding]; other site 395491008169 putative dimerization interface [polypeptide binding]; other site 395491008170 PhnA protein; Region: PhnA; pfam03831 395491008171 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395491008172 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491008173 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395491008174 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491008175 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 395491008176 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 395491008177 SurA N-terminal domain; Region: SurA_N_3; cl07813 395491008178 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 395491008179 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395491008180 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 395491008181 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395491008182 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 395491008183 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 395491008184 active site 395491008185 ribulose/triose binding site [chemical binding]; other site 395491008186 phosphate binding site [ion binding]; other site 395491008187 substrate (anthranilate) binding pocket [chemical binding]; other site 395491008188 product (indole) binding pocket [chemical binding]; other site 395491008189 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 395491008190 trimer interface [polypeptide binding]; other site 395491008191 dimer interface [polypeptide binding]; other site 395491008192 putative active site [active] 395491008193 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 395491008194 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 395491008195 dimer interface [polypeptide binding]; other site 395491008196 putative functional site; other site 395491008197 putative MPT binding site; other site 395491008198 Predicted methyltransferase [General function prediction only]; Region: COG3897 395491008199 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491008200 Coenzyme A binding pocket [chemical binding]; other site 395491008201 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 395491008202 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 395491008203 ATP binding site [chemical binding]; other site 395491008204 Mg++ binding site [ion binding]; other site 395491008205 motif III; other site 395491008206 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 395491008207 nucleotide binding region [chemical binding]; other site 395491008208 ATP-binding site [chemical binding]; other site 395491008209 DbpA RNA binding domain; Region: DbpA; pfam03880 395491008210 CHASE2 domain; Region: CHASE2; cl01732 395491008211 cyclase homology domain; Region: CHD; cd07302 395491008212 nucleotidyl binding site; other site 395491008213 metal binding site [ion binding]; metal-binding site 395491008214 dimer interface [polypeptide binding]; other site 395491008215 FecR protein; Region: FecR; pfam04773 395491008216 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 395491008217 dimer interface [polypeptide binding]; other site 395491008218 active site 395491008219 coenzyme A binding site [chemical binding]; other site 395491008220 citrylCoA binding site [chemical binding]; other site 395491008221 Citrate synthase; Region: Citrate_synt; pfam00285 395491008222 oxalacetate/citrate binding site [chemical binding]; other site 395491008223 catalytic triad [active] 395491008224 Bacillus subtilis (Bs) citrate synthase CS-I_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). 2MCS catalyzes the...; Region: BsCS-I_like; cd06109 395491008225 dimer interface [polypeptide binding]; other site 395491008226 Citrate synthase; Region: Citrate_synt; pfam00285 395491008227 active site 395491008228 citrylCoA binding site [chemical binding]; other site 395491008229 oxalacetate/citrate binding site [chemical binding]; other site 395491008230 coenzyme A binding site [chemical binding]; other site 395491008231 catalytic triad [active] 395491008232 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 395491008233 putative hydrophobic ligand binding site [chemical binding]; other site 395491008234 CTP synthetase; Validated; Region: pyrG; PRK05380 395491008235 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 395491008236 Catalytic site [active] 395491008237 active site 395491008238 UTP binding site [chemical binding]; other site 395491008239 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 395491008240 active site 395491008241 putative oxyanion hole; other site 395491008242 catalytic triad [active] 395491008243 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 395491008244 substrate binding site [chemical binding]; other site 395491008245 dimer interface [polypeptide binding]; other site 395491008246 catalytic triad [active] 395491008247 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395491008248 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 395491008249 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 395491008250 Mg2+ binding site [ion binding]; other site 395491008251 G-X-G motif; other site 395491008252 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 395491008253 anchoring element; other site 395491008254 dimer interface [polypeptide binding]; other site 395491008255 ATP binding site [chemical binding]; other site 395491008256 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 395491008257 active site 395491008258 metal binding site [ion binding]; metal-binding site 395491008259 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395491008260 OpgC protein; Region: OpgC_C; cl00792 395491008261 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 395491008262 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395491008263 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395491008264 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491008265 Coenzyme A binding pocket [chemical binding]; other site 395491008266 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 395491008267 Flavin Reductases; Region: FlaRed; cl00801 395491008268 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 395491008269 putative FMN binding site [chemical binding]; other site 395491008270 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 395491008271 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 395491008272 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 395491008273 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 395491008274 active site 395491008275 dimer interface [polypeptide binding]; other site 395491008276 motif 1; other site 395491008277 motif 2; other site 395491008278 motif 3; other site 395491008279 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 395491008280 anticodon binding site; other site 395491008281 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395491008282 Sel1 repeat; Region: Sel1; cl02723 395491008283 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395491008284 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395491008285 Sel1 repeat; Region: Sel1; cl02723 395491008286 Sel1 repeat; Region: Sel1; cl02723 395491008287 Sel1 repeat; Region: Sel1; cl02723 395491008288 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395491008289 Sel1 repeat; Region: Sel1; cl02723 395491008290 Sel1 repeat; Region: Sel1; cl02723 395491008291 Sel1 repeat; Region: Sel1; cl02723 395491008292 Sel1 repeat; Region: Sel1; cl02723 395491008293 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 395491008294 Haemolytic domain; Region: Haemolytic; cl00506 395491008295 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 395491008296 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 395491008297 trimerization site [polypeptide binding]; other site 395491008298 active site 395491008299 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395491008300 GTP cyclohydrolase I; Provisional; Region: PLN03044 395491008301 active site 395491008302 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 395491008303 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 395491008304 active site 395491008305 nucleophile elbow; other site 395491008306 FOG: CBS domain [General function prediction only]; Region: COG0517 395491008307 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 395491008308 Rhomboid family; Region: Rhomboid; cl11446 395491008309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 395491008310 PAS domain; Region: PAS_5; pfam07310 395491008311 PilZ domain; Region: PilZ; cl01260 395491008312 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 395491008313 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491008314 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395491008315 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491008316 Sporulation related domain; Region: SPOR; cl10051 395491008317 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 395491008318 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 395491008319 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 395491008320 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 395491008321 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_7; cd08353 395491008322 putative dimer interface [polypeptide binding]; other site 395491008323 OpgC protein; Region: OpgC_C; cl00792 395491008324 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395491008325 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 395491008326 Protein of unknown function, DUF599; Region: DUF599; cl01575 395491008327 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 395491008328 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 395491008329 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 395491008330 DNA binding residues [nucleotide binding] 395491008331 putative dimer interface [polypeptide binding]; other site 395491008332 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 395491008333 MgtE intracellular N domain; Region: MgtE_N; cl15244 395491008334 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 395491008335 Divalent cation transporter; Region: MgtE; cl00786 395491008336 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 395491008337 active site 395491008338 catalytic residues [active] 395491008339 metal binding site [ion binding]; metal-binding site 395491008340 BON domain; Region: BON; cl02771 395491008341 Phospholipid methyltransferase; Region: PEMT; cl00763 395491008342 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 395491008343 EamA-like transporter family; Region: EamA; cl01037 395491008344 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491008345 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 395491008346 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395491008347 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491008348 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395491008349 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 395491008350 carboxyltransferase (CT) interaction site; other site 395491008351 biotinylation site [posttranslational modification]; other site 395491008352 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395491008353 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491008354 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 395491008355 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 395491008356 DoxX; Region: DoxX; cl00976 395491008357 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 395491008358 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395491008359 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395491008360 ATP12 chaperone protein; Region: ATP12; cl02228 395491008361 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395491008362 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 395491008363 motif II; other site 395491008364 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 395491008365 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395491008366 active site 395491008367 CrcB-like protein; Region: CRCB; cl09114 395491008368 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 395491008369 Protein of unknown function (DUF461); Region: DUF461; cl01071 395491008370 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 395491008371 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395491008372 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 395491008373 lipoyl attachment site [posttranslational modification]; other site 395491008374 glycine dehydrogenase; Provisional; Region: PRK05367 395491008375 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 395491008376 tetramer interface [polypeptide binding]; other site 395491008377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491008378 catalytic residue [active] 395491008379 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 395491008380 tetramer interface [polypeptide binding]; other site 395491008381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491008382 catalytic residue [active] 395491008383 oxidoreductase; Provisional; Region: PRK06196 395491008384 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 395491008385 putative NAD(P) binding site [chemical binding]; other site 395491008386 active site 395491008387 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491008388 Helix-turn-helix domains; Region: HTH; cl00088 395491008389 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 395491008390 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 395491008391 active site 395491008392 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395491008393 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 395491008394 putative molybdopterin cofactor binding site [chemical binding]; other site 395491008395 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 395491008396 putative molybdopterin cofactor binding site; other site 395491008397 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 395491008398 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395491008399 dimerization interface [polypeptide binding]; other site 395491008400 DPS ferroxidase diiron center [ion binding]; other site 395491008401 ion pore; other site 395491008402 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 395491008403 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 395491008404 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 395491008405 Domain of unknown function DUF59; Region: DUF59; cl00941 395491008406 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 395491008407 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 395491008408 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491008409 catalytic residue [active] 395491008410 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 395491008411 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 395491008412 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 395491008413 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 395491008414 Walker A/P-loop; other site 395491008415 ATP binding site [chemical binding]; other site 395491008416 Q-loop/lid; other site 395491008417 ABC transporter signature motif; other site 395491008418 Walker B; other site 395491008419 D-loop; other site 395491008420 H-loop/switch region; other site 395491008421 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 395491008422 putative ABC transporter; Region: ycf24; CHL00085 395491008423 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 395491008424 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 395491008425 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491008426 catalytic residue [active] 395491008427 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 395491008428 OpgC protein; Region: OpgC_C; cl00792 395491008429 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395491008430 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395491008431 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491008432 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 395491008433 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 395491008434 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 395491008435 active site 395491008436 HIGH motif; other site 395491008437 dimer interface [polypeptide binding]; other site 395491008438 KMSKS motif; other site 395491008439 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 395491008440 RNA binding surface [nucleotide binding]; other site 395491008441 trehalose synthase; Region: treS_nterm; TIGR02456 395491008442 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 395491008443 active site 395491008444 catalytic site [active] 395491008445 Protein of unknown function; Region: DUF3971; pfam13116 395491008446 AsmA-like C-terminal region; Region: AsmA_2; cl15864 395491008447 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 395491008448 catalytic triad [active] 395491008449 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395491008450 dinuclear metal binding motif [ion binding]; other site 395491008451 Synaptobrevin; Region: Synaptobrevin; pfam00957 395491008452 Peptidase family M23; Region: Peptidase_M23; pfam01551 395491008453 helicase 45; Provisional; Region: PTZ00424 395491008454 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 395491008455 ATP binding site [chemical binding]; other site 395491008456 Mg++ binding site [ion binding]; other site 395491008457 motif III; other site 395491008458 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 395491008459 nucleotide binding region [chemical binding]; other site 395491008460 ATP-binding site [chemical binding]; other site 395491008461 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395491008462 nudix motif; other site 395491008463 TfoX N-terminal domain; Region: TfoX_N; cl01167 395491008464 Flavin Reductases; Region: FlaRed; cl00801 395491008465 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395491008466 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 395491008467 ligand binding site [chemical binding]; other site 395491008468 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 395491008469 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 395491008470 substrate binding site [chemical binding]; other site 395491008471 hexamer interface [polypeptide binding]; other site 395491008472 metal binding site [ion binding]; metal-binding site 395491008473 Predicted secreted protein (DUF2259); Region: DUF2259; cl02309 395491008474 adenylosuccinate lyase; Provisional; Region: PRK07492 395491008475 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 395491008476 tetramer interface [polypeptide binding]; other site 395491008477 active site 395491008478 Low affinity iron permease; Region: Iron_permease; cl12096 395491008479 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 395491008480 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491008481 putative diguanylate cyclase; Provisional; Region: PRK09776 395491008482 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395491008483 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491008484 metal binding site [ion binding]; metal-binding site 395491008485 active site 395491008486 I-site; other site 395491008487 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491008488 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 395491008489 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 395491008490 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 395491008491 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 395491008492 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 395491008493 putative active site [active] 395491008494 catalytic triad [active] 395491008495 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395491008496 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 395491008497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491008498 DNA-binding site [nucleotide binding]; DNA binding site 395491008499 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 395491008500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491008501 homodimer interface [polypeptide binding]; other site 395491008502 catalytic residue [active] 395491008503 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 395491008504 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 395491008505 substrate binding site [chemical binding]; other site 395491008506 Protein of unknown function (DUF521); Region: DUF521; pfam04412 395491008507 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 395491008508 substrate binding site [chemical binding]; other site 395491008509 ligand binding site [chemical binding]; other site 395491008510 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 395491008511 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 395491008512 dimerization interface [polypeptide binding]; other site 395491008513 ATP binding site [chemical binding]; other site 395491008514 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 395491008515 dimerization interface [polypeptide binding]; other site 395491008516 ATP binding site [chemical binding]; other site 395491008517 BolA-like protein; Region: BolA; cl00386 395491008518 Cytochrome c; Region: Cytochrom_C; cl11414 395491008519 Cytochrome c; Region: Cytochrom_C; cl11414 395491008520 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 395491008521 putative GSH binding site [chemical binding]; other site 395491008522 catalytic residues [active] 395491008523 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 395491008524 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 395491008525 putative substrate translocation pore; other site 395491008526 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 395491008527 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 395491008528 putative substrate translocation pore; other site 395491008529 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 395491008530 active site 395491008531 putative lithium-binding site [ion binding]; other site 395491008532 substrate binding site [chemical binding]; other site 395491008533 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 395491008534 active site 395491008535 putative lithium-binding site [ion binding]; other site 395491008536 substrate binding site [chemical binding]; other site 395491008537 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 395491008538 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 395491008539 Ligand Binding Site [chemical binding]; other site 395491008540 TIGR00269 family protein; Region: TIGR00269 395491008541 Glutaminase; Region: Glutaminase; cl00907 395491008542 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 395491008543 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 395491008544 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 395491008545 RNA binding surface [nucleotide binding]; other site 395491008546 Domain of unknown function DUF87; Region: DUF87; pfam01935 395491008547 HerA helicase [Replication, recombination, and repair]; Region: COG0433 395491008548 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 395491008549 putative substrate translocation pore; other site 395491008550 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395491008551 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 395491008552 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395491008553 Predicted membrane protein [Function unknown]; Region: COG1289 395491008554 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 395491008555 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 395491008556 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491008557 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491008558 Coenzyme A binding pocket [chemical binding]; other site 395491008559 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491008560 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 395491008561 putative C-terminal domain interface [polypeptide binding]; other site 395491008562 putative GSH binding site (G-site) [chemical binding]; other site 395491008563 putative dimer interface [polypeptide binding]; other site 395491008564 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 395491008565 dimer interface [polypeptide binding]; other site 395491008566 N-terminal domain interface [polypeptide binding]; other site 395491008567 putative substrate binding pocket (H-site) [chemical binding]; other site 395491008568 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491008569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491008570 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 395491008571 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 395491008572 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 formation of...; Region: AlaRS_core; cd00673 395491008573 motif 1; other site 395491008574 active site 395491008575 motif 2; other site 395491008576 motif 3; other site 395491008577 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 395491008578 DHHA1 domain; Region: DHHA1; pfam02272 395491008579 recombinase A; Provisional; Region: recA; PRK09354 395491008580 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 395491008581 hexamer interface [polypeptide binding]; other site 395491008582 Walker A motif; other site 395491008583 ATP binding site [chemical binding]; other site 395491008584 Walker B motif; other site 395491008585 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491008586 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 395491008587 substrate binding site [chemical binding]; other site 395491008588 ATP binding site [chemical binding]; other site 395491008589 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 395491008590 Helix-turn-helix domains; Region: HTH; cl00088 395491008591 Winged helix-turn helix; Region: HTH_29; pfam13551 395491008592 Helix-turn-helix domains; Region: HTH; cl00088 395491008593 Integrase core domain; Region: rve; cl01316 395491008594 Integrase core domain; Region: rve_3; cl15866 395491008595 PAS domain S-box; Region: sensory_box; TIGR00229 395491008596 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491008597 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395491008598 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 395491008599 dimer interface [polypeptide binding]; other site 395491008600 phosphorylation site [posttranslational modification] 395491008601 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 395491008602 ATP binding site [chemical binding]; other site 395491008603 Mg2+ binding site [ion binding]; other site 395491008604 G-X-G motif; other site 395491008605 Response regulator receiver domain; Region: Response_reg; pfam00072 395491008606 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 395491008607 active site 395491008608 phosphorylation site [posttranslational modification] 395491008609 intermolecular recognition site; other site 395491008610 dimerization interface [polypeptide binding]; other site 395491008611 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 395491008612 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 395491008613 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 395491008614 catalytic core [active] 395491008615 YcjX-like family, DUF463; Region: DUF463; cl01193 395491008616 hypothetical protein; Provisional; Region: PRK05415 395491008617 Domain of unknown function (DUF697); Region: DUF697; cl12064 395491008618 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 395491008619 catalytic center binding site [active] 395491008620 ATP binding site [chemical binding]; other site 395491008621 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 395491008622 homooctamer interface [polypeptide binding]; other site 395491008623 active site 395491008624 dihydropteroate synthase; Region: DHPS; TIGR01496 395491008625 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 395491008626 substrate binding pocket [chemical binding]; other site 395491008627 dimer interface [polypeptide binding]; other site 395491008628 inhibitor binding site; inhibition site 395491008629 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 395491008630 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; cl00159 395491008631 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 395491008632 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 395491008633 catalytic triad [active] 395491008634 conserved cis-peptide bond; other site 395491008635 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 attaches...; Region: class_II_aaRS-like_core; cd00768 395491008636 motif 1; other site 395491008637 dimer interface [polypeptide binding]; other site 395491008638 active site 395491008639 motif 2; other site 395491008640 motif 3; other site 395491008641 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 395491008642 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491008643 GAF domain; Region: GAF; cl15785 395491008644 GAF domain; Region: GAF_2; pfam13185 395491008645 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491008646 metal binding site [ion binding]; metal-binding site 395491008647 active site 395491008648 I-site; other site 395491008649 Protein of unknown function (DUF330); Region: DUF330; cl01135 395491008650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 395491008651 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 395491008652 mce related protein; Region: MCE; pfam02470 395491008653 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395491008654 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 395491008655 Walker A/P-loop; other site 395491008656 ATP binding site [chemical binding]; other site 395491008657 Q-loop/lid; other site 395491008658 ABC transporter signature motif; other site 395491008659 Walker B; other site 395491008660 D-loop; other site 395491008661 H-loop/switch region; other site 395491008662 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 395491008663 anti sigma factor interaction site; other site 395491008664 regulatory phosphorylation site [posttranslational modification]; other site 395491008665 Permease; Region: Permease; cl00510 395491008666 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 395491008667 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 395491008668 active site 395491008669 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 395491008670 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 395491008671 putative substrate translocation pore; other site 395491008672 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395491008673 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 395491008674 putative active site [active] 395491008675 putative metal binding site [ion binding]; other site 395491008676 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 395491008677 catalytic core [active] 395491008678 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395491008679 Protein export membrane protein; Region: SecD_SecF; cl14618 395491008680 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 395491008681 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491008682 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491008683 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491008684 Helix-turn-helix domains; Region: HTH; cl00088 395491008685 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395491008686 FAD binding domain; Region: FAD_binding_4; pfam01565 395491008687 Berberine and berberine like; Region: BBE; pfam08031 395491008688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491008689 Helix-turn-helix domains; Region: HTH; cl00088 395491008690 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 395491008691 putative effector binding pocket; other site 395491008692 dimerization interface [polypeptide binding]; other site 395491008693 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 395491008694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491008695 malic enzyme; Reviewed; Region: PRK12862 395491008696 Malic enzyme, N-terminal domain; Region: malic; pfam00390 395491008697 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 395491008698 putative NAD(P) binding site [chemical binding]; other site 395491008699 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 395491008700 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 395491008701 RNA/DNA hybrid binding site [nucleotide binding]; other site 395491008702 active site 395491008703 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 395491008704 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491008705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491008706 NAD(P) binding site [chemical binding]; other site 395491008707 active site 395491008708 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 395491008709 putative FMN binding site [chemical binding]; other site 395491008710 Helix-turn-helix domains; Region: HTH; cl00088 395491008711 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 395491008712 dimerization interface [polypeptide binding]; other site 395491008713 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395491008714 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 395491008715 putative transporter; Provisional; Region: PRK10504 395491008716 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 395491008717 putative substrate translocation pore; other site 395491008718 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 395491008719 putative substrate translocation pore; other site 395491008720 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; cl01054 395491008721 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491008722 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491008723 dimer interface [polypeptide binding]; other site 395491008724 putative CheW interface [polypeptide binding]; other site 395491008725 NeuB family; Region: NeuB; cl00496 395491008726 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395491008727 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 395491008728 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395491008729 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395491008730 NAD synthetase; Provisional; Region: PRK13981 395491008731 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 395491008732 multimer interface [polypeptide binding]; other site 395491008733 active site 395491008734 catalytic triad [active] 395491008735 protein interface 1 [polypeptide binding]; other site 395491008736 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 395491008737 homodimer interface [polypeptide binding]; other site 395491008738 NAD binding pocket [chemical binding]; other site 395491008739 ATP binding pocket [chemical binding]; other site 395491008740 Mg binding site [ion binding]; other site 395491008741 active-site loop [active] 395491008742 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 395491008743 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 395491008744 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491008745 ligand binding site [chemical binding]; other site 395491008746 dimer interface [polypeptide binding]; other site 395491008747 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491008748 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491008749 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395491008750 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 395491008751 Walker A/P-loop; other site 395491008752 ATP binding site [chemical binding]; other site 395491008753 Q-loop/lid; other site 395491008754 ABC transporter signature motif; other site 395491008755 Walker B; other site 395491008756 D-loop; other site 395491008757 H-loop/switch region; other site 395491008758 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 395491008759 TadE-like protein; Region: TadE; cl10688 395491008760 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 395491008761 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395491008762 glutathione reductase; Validated; Region: PRK06116 395491008763 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491008764 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395491008765 Acylphosphatase; Region: Acylphosphatase; cl00551 395491008766 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 395491008767 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 395491008768 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395491008769 active site 395491008770 dimer interface [polypeptide binding]; other site 395491008771 phosphoglycolate phosphatase; Provisional; Region: PRK13222 395491008772 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491008773 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 395491008774 motif II; other site 395491008775 Helix-turn-helix domains; Region: HTH; cl00088 395491008776 Winged helix-turn helix; Region: HTH_29; pfam13551 395491008777 Helix-turn-helix domains; Region: HTH; cl00088 395491008778 Integrase core domain; Region: rve; cl01316 395491008779 Integrase core domain; Region: rve_3; cl15866 395491008780 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 395491008781 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491008782 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491008783 fumarate hydratase; Reviewed; Region: fumC; PRK00485 395491008784 Class II fumarases; Region: Fumarase_classII; cd01362 395491008785 active site 395491008786 tetramer interface [polypeptide binding]; other site 395491008787 VCBS repeat; Region: VCBS_repeat; TIGR01965 395491008788 fumarate hydratase; Provisional; Region: PRK15389 395491008789 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 395491008790 Fumarase C-terminus; Region: Fumerase_C; cl00795 395491008791 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491008792 metal binding site [ion binding]; metal-binding site 395491008793 active site 395491008794 I-site; other site 395491008795 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491008796 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491008797 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491008798 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491008799 Helix-turn-helix domains; Region: HTH; cl00088 395491008800 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 395491008801 Protein of unknown function (DUF971); Region: DUF971; cl01414 395491008802 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 395491008803 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 395491008804 FeS/SAM binding site; other site 395491008805 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 395491008806 phosphoethanolamine N-methyltransferase; Region: PLN02336 395491008807 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 395491008808 S-adenosylmethionine binding site [chemical binding]; other site 395491008809 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 395491008810 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 395491008811 putative ligand binding residues [chemical binding]; other site 395491008812 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 395491008813 ABC-ATPase subunit interface; other site 395491008814 dimer interface [polypeptide binding]; other site 395491008815 putative PBP binding regions; other site 395491008816 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395491008817 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395491008818 Walker A/P-loop; other site 395491008819 ATP binding site [chemical binding]; other site 395491008820 Q-loop/lid; other site 395491008821 ABC transporter signature motif; other site 395491008822 Walker B; other site 395491008823 D-loop; other site 395491008824 H-loop/switch region; other site 395491008825 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395491008826 Helix-turn-helix domains; Region: HTH; cl00088 395491008827 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395491008828 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 395491008829 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 395491008830 putative N- and C-terminal domain interface [polypeptide binding]; other site 395491008831 putative active site [active] 395491008832 putative MgATP binding site [chemical binding]; other site 395491008833 catalytic site [active] 395491008834 metal binding site [ion binding]; metal-binding site 395491008835 putative homotetramer interface [polypeptide binding]; other site 395491008836 putative homodimer interface [polypeptide binding]; other site 395491008837 putative glycerol binding site [chemical binding]; other site 395491008838 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 395491008839 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 395491008840 PYR/PP interface [polypeptide binding]; other site 395491008841 dimer interface [polypeptide binding]; other site 395491008842 TPP binding site [chemical binding]; other site 395491008843 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395491008844 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 395491008845 TPP-binding site [chemical binding]; other site 395491008846 dimer interface [polypeptide binding]; other site 395491008847 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 395491008848 TM-ABC transporter signature motif; other site 395491008849 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395491008850 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 395491008851 ligand binding site [chemical binding]; other site 395491008852 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491008853 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491008854 Walker A/P-loop; other site 395491008855 ATP binding site [chemical binding]; other site 395491008856 Q-loop/lid; other site 395491008857 ABC transporter signature motif; other site 395491008858 Walker B; other site 395491008859 D-loop; other site 395491008860 H-loop/switch region; other site 395491008861 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491008862 short chain dehydrogenase; Provisional; Region: PRK06114 395491008863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491008864 NAD(P) binding site [chemical binding]; other site 395491008865 active site 395491008866 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491008867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491008868 NAD(P) binding site [chemical binding]; other site 395491008869 active site 395491008870 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 395491008871 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 395491008872 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491008873 classical (c) SDRs; Region: SDR_c; cd05233 395491008874 NAD(P) binding site [chemical binding]; other site 395491008875 active site 395491008876 EamA-like transporter family; Region: EamA; cl01037 395491008877 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 395491008878 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 395491008879 GTP binding site; other site 395491008880 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 395491008881 Walker A motif; other site 395491008882 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491008883 PAS fold; Region: PAS_3; pfam08447 395491008884 putative active site [active] 395491008885 heme pocket [chemical binding]; other site 395491008886 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395491008887 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; cl00075 395491008888 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491008889 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 395491008890 active site 395491008891 phosphorylation site [posttranslational modification] 395491008892 intermolecular recognition site; other site 395491008893 dimerization interface [polypeptide binding]; other site 395491008894 circadian clock protein KaiC; Reviewed; Region: PRK09302 395491008895 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491008896 Walker A motif; other site 395491008897 ATP binding site [chemical binding]; other site 395491008898 Walker B motif; other site 395491008899 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 395491008900 Walker A motif; other site 395491008901 ATP binding site [chemical binding]; other site 395491008902 Walker B motif; other site 395491008903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491008904 Helix-turn-helix domains; Region: HTH; cl00088 395491008905 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 395491008906 putative effector binding pocket; other site 395491008907 putative dimerization interface [polypeptide binding]; other site 395491008908 Cupin domain; Region: Cupin_2; cl09118 395491008909 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491008910 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 395491008911 active site 395491008912 catalytic tetrad [active] 395491008913 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491008914 maleylacetoacetate isomerase; Region: maiA; TIGR01262 395491008915 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395491008916 N-terminal domain interface [polypeptide binding]; other site 395491008917 OsmC-like protein; Region: OsmC; cl00767 395491008918 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; cl01054 395491008919 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; cl00080 395491008920 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 395491008921 ATP binding site [chemical binding]; other site 395491008922 Mg2+ binding site [ion binding]; other site 395491008923 G-X-G motif; other site 395491008924 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 395491008925 osmolarity response regulator; Provisional; Region: ompR; PRK09468 395491008926 active site 395491008927 phosphorylation site [posttranslational modification] 395491008928 intermolecular recognition site; other site 395491008929 dimerization interface [polypeptide binding]; other site 395491008930 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 395491008931 DNA binding site [nucleotide binding] 395491008932 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395491008933 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395491008934 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 395491008935 catalytic residues [active] 395491008936 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491008937 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491008938 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 395491008939 Helix-turn-helix domains; Region: HTH; cl00088 395491008940 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491008941 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 395491008942 intersubunit interface [polypeptide binding]; other site 395491008943 active site 395491008944 catalytic residue [active] 395491008945 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 395491008946 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491008947 NAD(P) binding site [chemical binding]; other site 395491008948 catalytic residues [active] 395491008949 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395491008950 NAD(P) binding site [chemical binding]; other site 395491008951 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 395491008952 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 395491008953 substrate binding site [chemical binding]; other site 395491008954 dimer interface [polypeptide binding]; other site 395491008955 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491008956 ATP binding site [chemical binding]; other site 395491008957 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491008958 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; cl00427 395491008959 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 395491008960 dimer interface [polypeptide binding]; other site 395491008961 ABC-ATPase subunit interface; other site 395491008962 putative PBP binding loops; other site 395491008963 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491008964 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 395491008965 dimer interface [polypeptide binding]; other site 395491008966 conserved gate region; other site 395491008967 putative PBP binding loops; other site 395491008968 ABC-ATPase subunit interface; other site 395491008969 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491008970 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 395491008971 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491008972 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491008973 Walker A/P-loop; other site 395491008974 ATP binding site [chemical binding]; other site 395491008975 Q-loop/lid; other site 395491008976 ABC transporter signature motif; other site 395491008977 Walker B; other site 395491008978 D-loop; other site 395491008979 H-loop/switch region; other site 395491008980 TOBE domain; Region: TOBE_2; cl01440 395491008981 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395491008982 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395491008983 ligand binding site [chemical binding]; other site 395491008984 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 395491008985 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491008986 substrate binding pocket [chemical binding]; other site 395491008987 membrane-bound complex binding site; other site 395491008988 hinge residues; other site 395491008989 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491008990 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 395491008991 dimer interface [polypeptide binding]; other site 395491008992 conserved gate region; other site 395491008993 putative PBP binding loops; other site 395491008994 ABC-ATPase subunit interface; other site 395491008995 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491008996 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 395491008997 dimer interface [polypeptide binding]; other site 395491008998 conserved gate region; other site 395491008999 putative PBP binding loops; other site 395491009000 ABC-ATPase subunit interface; other site 395491009001 Usg-like family; Region: Usg; cl11567 395491009002 Predicted integral membrane protein (DUF2270); Region: DUF2270; cl02337 395491009003 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 395491009004 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 395491009005 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491009006 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 395491009007 C-terminal domain interface [polypeptide binding]; other site 395491009008 GSH binding site (G-site) [chemical binding]; other site 395491009009 dimer interface [polypeptide binding]; other site 395491009010 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 395491009011 N-terminal domain interface [polypeptide binding]; other site 395491009012 dimer interface [polypeptide binding]; other site 395491009013 substrate binding pocket (H-site) [chemical binding]; other site 395491009014 Helix-turn-helix domains; Region: HTH; cl00088 395491009015 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 395491009016 putative hydrophobic ligand binding site [chemical binding]; other site 395491009017 Protein of unknown function (DUF419); Region: DUF419; cl15265 395491009018 Protein of unknown function (DUF419); Region: DUF419; cl15265 395491009019 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395491009020 putative hydrophobic ligand binding site [chemical binding]; other site 395491009021 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 395491009022 dimerization interface [polypeptide binding]; other site 395491009023 putative DNA binding site [nucleotide binding]; other site 395491009024 putative Zn2+ binding site [ion binding]; other site 395491009025 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491009026 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395491009027 Walker A/P-loop; other site 395491009028 ATP binding site [chemical binding]; other site 395491009029 Q-loop/lid; other site 395491009030 ABC transporter signature motif; other site 395491009031 Walker B; other site 395491009032 D-loop; other site 395491009033 H-loop/switch region; other site 395491009034 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491009035 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 395491009036 dimer interface [polypeptide binding]; other site 395491009037 conserved gate region; other site 395491009038 putative PBP binding loops; other site 395491009039 ABC-ATPase subunit interface; other site 395491009040 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 395491009041 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 395491009042 active site 395491009043 dimer interface [polypeptide binding]; other site 395491009044 non-prolyl cis peptide bond; other site 395491009045 insertion regions; other site 395491009046 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395491009047 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 395491009048 membrane-bound complex binding site; other site 395491009049 hinge residues; other site 395491009050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491009051 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395491009052 NAD(P) binding pocket [chemical binding]; other site 395491009053 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 395491009054 A new structural DNA glycosylase; Region: AlkD_like; cd06561 395491009055 active site 395491009056 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491009057 Helix-turn-helix domains; Region: HTH; cl00088 395491009058 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 395491009059 dimerization interface [polypeptide binding]; other site 395491009060 Porin subfamily; Region: Porin_2; pfam02530 395491009061 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491009062 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 395491009063 putative DNA binding site [nucleotide binding]; other site 395491009064 putative Zn2+ binding site [ion binding]; other site 395491009065 AsnC family; Region: AsnC_trans_reg; pfam01037 395491009066 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 395491009067 putative uracil binding site [chemical binding]; other site 395491009068 putative active site [active] 395491009069 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 395491009070 Catalytic site; other site 395491009071 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 395491009072 dimer interface [polypeptide binding]; other site 395491009073 phosphorylation site [posttranslational modification] 395491009074 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 395491009075 ATP binding site [chemical binding]; other site 395491009076 Mg2+ binding site [ion binding]; other site 395491009077 G-X-G motif; other site 395491009078 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 395491009079 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 395491009080 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 395491009081 putative dimer interface [polypeptide binding]; other site 395491009082 active site pocket [active] 395491009083 putative cataytic base [active] 395491009084 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 395491009085 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 395491009086 Predicted aspartyl protease [General function prediction only]; Region: COG3577 395491009087 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 395491009088 catalytic motif [active] 395491009089 Catalytic residue [active] 395491009090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491009091 Helix-turn-helix domains; Region: HTH; cl00088 395491009092 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 395491009093 dimerization interface [polypeptide binding]; other site 395491009094 classical (c) SDRs; Region: SDR_c; cd05233 395491009095 short chain dehydrogenase; Provisional; Region: PRK07041 395491009096 NAD(P) binding site [chemical binding]; other site 395491009097 active site 395491009098 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395491009099 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395491009100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009101 Walker A/P-loop; other site 395491009102 ATP binding site [chemical binding]; other site 395491009103 Q-loop/lid; other site 395491009104 ABC transporter signature motif; other site 395491009105 Walker B; other site 395491009106 D-loop; other site 395491009107 H-loop/switch region; other site 395491009108 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 395491009109 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 395491009110 inhibitor binding site; inhibition site 395491009111 active site 395491009112 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491009113 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 395491009114 active site 395491009115 catalytic tetrad [active] 395491009116 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491009117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491009118 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491009119 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 395491009120 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 395491009121 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 395491009122 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491009123 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491009124 Walker A/P-loop; other site 395491009125 ATP binding site [chemical binding]; other site 395491009126 Q-loop/lid; other site 395491009127 ABC transporter signature motif; other site 395491009128 Walker B; other site 395491009129 D-loop; other site 395491009130 H-loop/switch region; other site 395491009131 TOBE domain; Region: TOBE_2; cl01440 395491009132 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 395491009133 dimer interface [polypeptide binding]; other site 395491009134 conserved gate region; other site 395491009135 putative PBP binding loops; other site 395491009136 ABC-ATPase subunit interface; other site 395491009137 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491009138 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 395491009139 dimer interface [polypeptide binding]; other site 395491009140 conserved gate region; other site 395491009141 putative PBP binding loops; other site 395491009142 ABC-ATPase subunit interface; other site 395491009143 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491009144 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 395491009145 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491009146 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491009147 DNA binding site [nucleotide binding] 395491009148 domain linker motif; other site 395491009149 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395491009150 ligand binding site [chemical binding]; other site 395491009151 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 395491009152 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 395491009153 HIGH motif; other site 395491009154 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395491009155 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395491009156 active site 395491009157 KMSKS motif; other site 395491009158 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 395491009159 tRNA binding surface [nucleotide binding]; other site 395491009160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491009161 Helix-turn-helix domains; Region: HTH; cl00088 395491009162 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 395491009163 putative dimerization interface [polypeptide binding]; other site 395491009164 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). The cleavage...; Region: Peptidase_C39_like; cl00296 395491009165 putative active site [active] 395491009166 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 395491009167 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 395491009168 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491009169 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009170 AAA domain; Region: AAA_28; pfam13521 395491009171 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 395491009172 S-adenosylmethionine binding site [chemical binding]; other site 395491009173 Predicted acetyltransferase [General function prediction only]; Region: COG3153 395491009174 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491009175 Coenzyme A binding pocket [chemical binding]; other site 395491009176 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491009177 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 395491009178 ligand binding site [chemical binding]; other site 395491009179 dimer interface [polypeptide binding]; other site 395491009180 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 395491009181 active site 395491009182 catalytic triad [active] 395491009183 dimer interface [polypeptide binding]; other site 395491009184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491009185 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 395491009186 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 395491009187 Helix-turn-helix domain; Region: HTH_18; pfam12833 395491009188 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395491009189 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491009190 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 395491009191 PAS fold; Region: PAS_4; pfam08448 395491009192 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491009193 putative active site [active] 395491009194 heme pocket [chemical binding]; other site 395491009195 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 395491009196 putative acyl-acceptor binding pocket; other site 395491009197 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491009198 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 395491009199 putative NAD(P) binding site [chemical binding]; other site 395491009200 structural Zn binding site [ion binding]; other site 395491009201 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 395491009202 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 395491009203 dimer interface [polypeptide binding]; other site 395491009204 active site 395491009205 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 395491009206 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 395491009207 active site 395491009208 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 395491009209 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395491009210 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 395491009211 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491009212 ligand binding site [chemical binding]; other site 395491009213 flexible hinge region; other site 395491009214 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 395491009215 putative switch regulator; other site 395491009216 non-specific DNA interactions [nucleotide binding]; other site 395491009217 DNA binding site [nucleotide binding] 395491009218 sequence specific DNA binding site [nucleotide binding]; other site 395491009219 putative cAMP binding site [chemical binding]; other site 395491009220 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491009221 CobD/Cbib protein; Region: CobD_Cbib; cl00561 395491009222 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 395491009223 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 395491009224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491009225 homodimer interface [polypeptide binding]; other site 395491009226 catalytic residue [active] 395491009227 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 395491009228 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 395491009229 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395491009230 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395491009231 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 395491009232 active site 395491009233 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 395491009234 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 395491009235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009237 Walker A motif; other site 395491009238 ATP binding site [chemical binding]; other site 395491009239 Walker B motif; other site 395491009240 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395491009241 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395491009242 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395491009243 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 395491009244 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009245 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395491009246 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 395491009247 homotrimer interface [polypeptide binding]; other site 395491009248 Walker A motif; other site 395491009249 GTP binding site [chemical binding]; other site 395491009250 Walker B motif; other site 395491009251 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 395491009252 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 395491009253 Cl- selectivity filter; other site 395491009254 Cl- binding residues [ion binding]; other site 395491009255 pore gating glutamate residue; other site 395491009256 dimer interface [polypeptide binding]; other site 395491009257 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 395491009258 cyclase homology domain; Region: CHD; cd07302 395491009259 nucleotidyl binding site; other site 395491009260 metal binding site [ion binding]; metal-binding site 395491009261 dimer interface [polypeptide binding]; other site 395491009262 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395491009263 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 395491009264 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 395491009265 DNA binding residues [nucleotide binding] 395491009266 dimerization interface [polypeptide binding]; other site 395491009267 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 395491009268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491009269 NAD(P) binding site [chemical binding]; other site 395491009270 active site 395491009271 cobyric acid synthase; Provisional; Region: PRK00784 395491009272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009273 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009274 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 395491009275 catalytic triad [active] 395491009276 NMT1-like family; Region: NMT1_2; cl15260 395491009277 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395491009278 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491009279 Helix-turn-helix domains; Region: HTH; cl00088 395491009280 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 395491009281 dimerization interface [polypeptide binding]; other site 395491009282 LysE type translocator; Region: LysE; cl00565 395491009283 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 395491009284 Helix-turn-helix domains; Region: HTH; cl00088 395491009285 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 395491009286 dimerization interface [polypeptide binding]; other site 395491009287 transcription elongation factor regulatory protein; Validated; Region: PRK06342 395491009288 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395491009289 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 395491009290 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 395491009291 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 395491009292 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 395491009293 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 395491009294 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 395491009295 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395491009296 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491009297 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491009298 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 395491009299 TolB amino-terminal domain; Region: TolB_N; cl00639 395491009300 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 395491009301 TPR motif; other site 395491009302 binding surface 395491009303 invasion protein regulator; Provisional; Region: PRK12370 395491009304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 395491009305 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 395491009306 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 395491009307 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395491009308 MarC family integral membrane protein; Region: MarC; cl00919 395491009309 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 395491009310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009311 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009312 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491009313 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395491009314 conserved cys residue [active] 395491009315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491009316 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491009317 Response regulator receiver domain; Region: Response_reg; pfam00072 395491009318 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 395491009319 active site 395491009320 phosphorylation site [posttranslational modification] 395491009321 intermolecular recognition site; other site 395491009322 dimerization interface [polypeptide binding]; other site 395491009323 Response regulator receiver domain; Region: Response_reg; pfam00072 395491009324 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 395491009325 active site 395491009326 phosphorylation site [posttranslational modification] 395491009327 intermolecular recognition site; other site 395491009328 dimerization interface [polypeptide binding]; other site 395491009329 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491009330 metal binding site [ion binding]; metal-binding site 395491009331 active site 395491009332 I-site; other site 395491009333 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491009334 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; cl09944 395491009335 active site 395491009336 phosphorylation site [posttranslational modification] 395491009337 intermolecular recognition site; other site 395491009338 dimerization interface [polypeptide binding]; other site 395491009339 Response regulator receiver domain; Region: Response_reg; pfam00072 395491009340 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 395491009341 active site 395491009342 phosphorylation site [posttranslational modification] 395491009343 intermolecular recognition site; other site 395491009344 dimerization interface [polypeptide binding]; other site 395491009345 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491009346 Helix-turn-helix domains; Region: HTH; cl00088 395491009347 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 395491009348 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 395491009349 dimerization interface [polypeptide binding]; other site 395491009350 putative DNA binding site [nucleotide binding]; other site 395491009351 putative Zn2+ binding site [ion binding]; other site 395491009352 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395491009353 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 395491009354 active site 395491009355 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491009356 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; cl00200 395491009357 amphipathic channel; other site 395491009358 Asn-Pro-Ala signature motifs; other site 395491009359 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 395491009360 ArsC family; Region: ArsC; pfam03960 395491009361 catalytic residues [active] 395491009362 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491009363 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491009364 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 395491009365 putative substrate translocation pore; other site 395491009366 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 395491009367 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395491009368 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 395491009369 Response regulator receiver domain; Region: Response_reg; pfam00072 395491009370 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 395491009371 active site 395491009372 phosphorylation site [posttranslational modification] 395491009373 intermolecular recognition site; other site 395491009374 dimerization interface [polypeptide binding]; other site 395491009375 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491009376 Histidine kinase; Region: HisKA_2; cl06527 395491009377 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 395491009378 ATP binding site [chemical binding]; other site 395491009379 Mg2+ binding site [ion binding]; other site 395491009380 G-X-G motif; other site 395491009381 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 395491009382 putative transporter; Provisional; Region: PRK10504 395491009383 putative substrate translocation pore; other site 395491009384 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491009385 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 395491009386 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 395491009387 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491009388 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 395491009389 dimer interface [polypeptide binding]; other site 395491009390 conserved gate region; other site 395491009391 putative PBP binding loops; other site 395491009392 ABC-ATPase subunit interface; other site 395491009393 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491009394 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 395491009395 dimer interface [polypeptide binding]; other site 395491009396 conserved gate region; other site 395491009397 putative PBP binding loops; other site 395491009398 ABC-ATPase subunit interface; other site 395491009399 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395491009400 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491009401 Walker A/P-loop; other site 395491009402 ATP binding site [chemical binding]; other site 395491009403 Q-loop/lid; other site 395491009404 ABC transporter signature motif; other site 395491009405 Walker B; other site 395491009406 D-loop; other site 395491009407 H-loop/switch region; other site 395491009408 TOBE domain; Region: TOBE_2; cl01440 395491009409 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395491009410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009411 Walker A/P-loop; other site 395491009412 ATP binding site [chemical binding]; other site 395491009413 Q-loop/lid; other site 395491009414 ABC transporter signature motif; other site 395491009415 Walker B; other site 395491009416 D-loop; other site 395491009417 H-loop/switch region; other site 395491009418 TOBE domain; Region: TOBE_2; cl01440 395491009419 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 395491009420 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 395491009421 DAK2 domain; Region: Dak2; cl03685 395491009422 DAK2 domain; Region: Dak2; cl03685 395491009423 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; cl00025 395491009424 active site 395491009425 active pocket/dimerization site; other site 395491009426 phosphorylation site [posttranslational modification] 395491009427 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 395491009428 dimerization domain swap beta strand [polypeptide binding]; other site 395491009429 regulatory protein interface [polypeptide binding]; other site 395491009430 active site 395491009431 regulatory phosphorylation site [posttranslational modification]; other site 395491009432 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 395491009433 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 395491009434 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 395491009435 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; cl09155 395491009436 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 395491009437 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 395491009438 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491009439 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 395491009440 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491009441 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491009442 Helix-turn-helix domains; Region: HTH; cl00088 395491009443 Epoxide hydrolase N terminus; Region: EHN; pfam06441 395491009444 haloalkane dehalogenase; Provisional; Region: PRK03204 395491009445 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491009446 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491009447 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491009448 DNA-binding site [nucleotide binding]; DNA binding site 395491009449 FCD domain; Region: FCD; cl11656 395491009450 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; cl16911 395491009451 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 395491009452 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 395491009453 FAD binding pocket [chemical binding]; other site 395491009454 FAD binding motif [chemical binding]; other site 395491009455 phosphate binding motif [ion binding]; other site 395491009456 NAD binding pocket [chemical binding]; other site 395491009457 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395491009458 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 395491009459 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395491009460 conserved cys residue [active] 395491009461 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_1; cd02199 395491009462 homotrimer interaction site [polypeptide binding]; other site 395491009463 putative active site [active] 395491009464 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491009465 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 395491009466 dimer interface [polypeptide binding]; other site 395491009467 conserved gate region; other site 395491009468 putative PBP binding loops; other site 395491009469 ABC-ATPase subunit interface; other site 395491009470 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; cl00427 395491009471 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491009472 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491009473 Walker A/P-loop; other site 395491009474 ATP binding site [chemical binding]; other site 395491009475 Q-loop/lid; other site 395491009476 ABC transporter signature motif; other site 395491009477 Walker B; other site 395491009478 D-loop; other site 395491009479 H-loop/switch region; other site 395491009480 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 395491009481 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491009482 substrate binding pocket [chemical binding]; other site 395491009483 membrane-bound complex binding site; other site 395491009484 hinge residues; other site 395491009485 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491009486 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395491009487 conserved cys residue [active] 395491009488 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491009489 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491009490 Helix-turn-helix domains; Region: HTH; cl00088 395491009491 Epoxide hydrolase N terminus; Region: EHN; pfam06441 395491009492 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 395491009493 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 395491009494 active site 395491009495 8-oxo-dGMP binding site [chemical binding]; other site 395491009496 nudix motif; other site 395491009497 metal binding site [ion binding]; metal-binding site 395491009498 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 395491009499 OsmC-like protein; Region: OsmC; cl00767 395491009500 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 395491009501 S-adenosylmethionine binding site [chemical binding]; other site 395491009502 CAP-Gly domain; Region: CAP_GLY; cl08315 395491009503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 395491009504 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 395491009505 Cache domain; Region: Cache_2; cl07034 395491009506 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491009507 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491009508 dimer interface [polypeptide binding]; other site 395491009509 putative CheW interface [polypeptide binding]; other site 395491009510 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 395491009511 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 395491009512 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491009513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491009514 Helix-turn-helix domains; Region: HTH; cl00088 395491009515 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 395491009516 putative effector binding pocket; other site 395491009517 putative dimerization interface [polypeptide binding]; other site 395491009518 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491009519 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 395491009520 active site 395491009521 catalytic tetrad [active] 395491009522 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 395491009523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 395491009524 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 395491009525 Protein of unknown function, DUF486; Region: DUF486; cl01236 395491009526 RDD family; Region: RDD; cl00746 395491009527 putative sialic acid transporter; Region: 2A0112; TIGR00891 395491009528 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 395491009529 putative substrate translocation pore; other site 395491009530 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 395491009531 S-adenosylmethionine binding site [chemical binding]; other site 395491009532 Cupin domain; Region: Cupin_2; cl09118 395491009533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491009534 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491009535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491009536 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395491009537 classical (c) SDRs; Region: SDR_c; cd05233 395491009538 NAD(P) binding site [chemical binding]; other site 395491009539 active site 395491009540 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 395491009541 NmrA-like family; Region: NmrA; pfam05368 395491009542 NADP binding site [chemical binding]; other site 395491009543 active site 395491009544 regulatory binding site [polypeptide binding]; other site 395491009545 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491009546 Helix-turn-helix domains; Region: HTH; cl00088 395491009547 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 395491009548 putative effector binding pocket; other site 395491009549 dimerization interface [polypeptide binding]; other site 395491009550 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395491009551 Sulfate transporter family; Region: Sulfate_transp; cl15842 395491009552 Sulfate transporter family; Region: Sulfate_transp; cl15842 395491009553 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 395491009554 response regulator; Provisional; Region: PRK13435 395491009555 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; cl09944 395491009556 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 395491009557 PLD-like domain; Region: PLDc_2; pfam13091 395491009558 putative active site [active] 395491009559 catalytic site [active] 395491009560 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 395491009561 putative active site [active] 395491009562 catalytic site [active] 395491009563 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491009564 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395491009565 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 395491009566 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395491009567 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395491009568 cyclase homology domain; Region: CHD; cd07302 395491009569 nucleotidyl binding site; other site 395491009570 metal binding site [ion binding]; metal-binding site 395491009571 dimer interface [polypeptide binding]; other site 395491009572 TolB amino-terminal domain; Region: TolB_N; cl00639 395491009573 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 395491009574 TPR motif; other site 395491009575 TPR repeat; Region: TPR_11; pfam13414 395491009576 binding surface 395491009577 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 395491009578 binding surface 395491009579 TPR motif; other site 395491009580 Rhomboid family; Region: Rhomboid; cl11446 395491009581 lipoprotein NlpI; Provisional; Region: PRK11189 395491009582 cyclase homology domain; Region: CHD; cd07302 395491009583 nucleotidyl binding site; other site 395491009584 metal binding site [ion binding]; metal-binding site 395491009585 dimer interface [polypeptide binding]; other site 395491009586 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491009587 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 395491009588 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 395491009589 excinuclease ABC subunit B; Provisional; Region: PRK05298 395491009590 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 395491009591 ATP binding site [chemical binding]; other site 395491009592 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 395491009593 nucleotide binding region [chemical binding]; other site 395491009594 ATP-binding site [chemical binding]; other site 395491009595 Ultra-violet resistance protein B; Region: UvrB; pfam12344 395491009596 UvrB/uvrC motif; Region: UVR; pfam02151 395491009597 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491009598 Coenzyme A binding pocket [chemical binding]; other site 395491009599 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395491009600 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 395491009601 Ca2+ binding site [ion binding]; other site 395491009602 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 395491009603 Ca2+ binding site [ion binding]; other site 395491009604 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395491009605 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395491009606 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395491009607 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 395491009608 Ca2+ binding site [ion binding]; other site 395491009609 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 395491009610 Ca2+ binding site [ion binding]; other site 395491009611 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 395491009612 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 protein; Region: CSP_CDS; cd04458 395491009613 DNA-binding site [nucleotide binding]; DNA binding site 395491009614 RNA-binding motif; other site 395491009615 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 395491009616 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 395491009617 FMN binding site [chemical binding]; other site 395491009618 active site 395491009619 catalytic residues [active] 395491009620 substrate binding site [chemical binding]; other site 395491009621 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395491009622 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 395491009623 protein binding site [polypeptide binding]; other site 395491009624 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395491009625 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491009626 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395491009627 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395491009628 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395491009629 BA14K-like protein; Region: BA14K; pfam07886 395491009630 BA14K-like protein; Region: BA14K; pfam07886 395491009631 Predicted acetyltransferase [General function prediction only]; Region: COG3981 395491009632 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 395491009633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395491009634 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 395491009635 dimer interface [polypeptide binding]; other site 395491009636 phosphorylation site [posttranslational modification] 395491009637 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 395491009638 ATP binding site [chemical binding]; other site 395491009639 Mg2+ binding site [ion binding]; other site 395491009640 G-X-G motif; other site 395491009641 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491009642 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 395491009643 active site 395491009644 phosphorylation site [posttranslational modification] 395491009645 intermolecular recognition site; other site 395491009646 dimerization interface [polypeptide binding]; other site 395491009647 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 395491009648 DNA binding site [nucleotide binding] 395491009649 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491009650 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 395491009651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009652 Walker A/P-loop; other site 395491009653 ATP binding site [chemical binding]; other site 395491009654 Q-loop/lid; other site 395491009655 ABC transporter signature motif; other site 395491009656 Walker B; other site 395491009657 D-loop; other site 395491009658 H-loop/switch region; other site 395491009659 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 395491009660 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 395491009661 Helix-turn-helix domains; Region: HTH; cl00088 395491009662 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; cl00161 395491009663 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491009664 Helix-turn-helix domains; Region: HTH; cl00088 395491009665 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 395491009666 S-adenosylmethionine binding site [chemical binding]; other site 395491009667 Helix-turn-helix domains; Region: HTH; cl00088 395491009668 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491009669 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 395491009670 active site 395491009671 catalytic tetrad [active] 395491009672 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491009673 Coenzyme A binding pocket [chemical binding]; other site 395491009674 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491009675 Helix-turn-helix domains; Region: HTH; cl00088 395491009676 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 395491009677 dimerization interface [polypeptide binding]; other site 395491009678 substrate binding pocket [chemical binding]; other site 395491009679 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 395491009680 dimer interface [polypeptide binding]; other site 395491009681 short chain dehydrogenase; Provisional; Region: PRK07041 395491009682 classical (c) SDRs; Region: SDR_c; cd05233 395491009683 NAD(P) binding site [chemical binding]; other site 395491009684 active site 395491009685 Helix-turn-helix domains; Region: HTH; cl00088 395491009686 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 395491009687 putative DNA binding site [nucleotide binding]; other site 395491009688 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 395491009689 putative Zn2+ binding site [ion binding]; other site 395491009690 AsnC family; Region: AsnC_trans_reg; pfam01037 395491009691 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 395491009692 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 395491009693 ANP binding site [chemical binding]; other site 395491009694 Substrate Binding Site II [chemical binding]; other site 395491009695 Substrate Binding Site I [chemical binding]; other site 395491009696 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491009697 Helix-turn-helix domains; Region: HTH; cl00088 395491009698 WHG domain; Region: WHG; pfam13305 395491009699 Leucine carboxyl methyltransferase; Region: LCM; cl01306 395491009700 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_19; cd07262 395491009701 Predicted periplasmic protein [Function unknown]; Region: COG3698 395491009702 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395491009703 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491009704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009705 Walker A/P-loop; other site 395491009706 ATP binding site [chemical binding]; other site 395491009707 Q-loop/lid; other site 395491009708 ABC transporter signature motif; other site 395491009709 Walker B; other site 395491009710 D-loop; other site 395491009711 H-loop/switch region; other site 395491009712 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491009713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491009714 Helix-turn-helix domains; Region: HTH; cl00088 395491009715 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 395491009716 substrate binding pocket [chemical binding]; other site 395491009717 dimerization interface [polypeptide binding]; other site 395491009718 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491009719 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 395491009720 dimer interface [polypeptide binding]; other site 395491009721 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 395491009722 catalytic core [active] 395491009723 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395491009724 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 395491009725 active site 395491009726 catalytic triad [active] 395491009727 dimer interface [polypeptide binding]; other site 395491009728 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491009729 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395491009730 active site 395491009731 metal binding site [ion binding]; metal-binding site 395491009732 dihydrodipicolinate reductase; Provisional; Region: PRK00048 395491009733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491009734 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395491009735 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 395491009736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491009737 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395491009738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491009739 Coenzyme A binding pocket [chemical binding]; other site 395491009740 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 395491009741 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 395491009742 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491009743 catalytic residue [active] 395491009744 Low molecular weight phosphatase family; Region: LMWPc; cl00105 395491009745 active site 395491009746 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491009747 Coenzyme A binding pocket [chemical binding]; other site 395491009748 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 395491009749 S-adenosylmethionine binding site [chemical binding]; other site 395491009750 NlpC/P60 family; Region: NLPC_P60; cl11438 395491009751 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 395491009752 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491009753 putative substrate translocation pore; other site 395491009754 K+ potassium transporter; Region: K_trans; cl15781 395491009755 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 395491009756 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 395491009757 putative active site [active] 395491009758 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 395491009759 Moco binding site; other site 395491009760 metal coordination site [ion binding]; other site 395491009761 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 395491009762 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 395491009763 RNA polymerase sigma factor; Provisional; Region: PRK12536 395491009764 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491009765 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491009766 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 395491009767 Right handed beta helix region; Region: Beta_helix; pfam13229 395491009768 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 395491009769 EamA-like transporter family; Region: EamA; cl01037 395491009770 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491009771 EamA-like transporter family; Region: EamA; cl01037 395491009772 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491009773 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491009774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491009775 NAD(P) binding site [chemical binding]; other site 395491009776 active site 395491009777 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395491009778 FtsX-like permease family; Region: FtsX; cl15850 395491009779 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395491009780 FtsX-like permease family; Region: FtsX; cl15850 395491009781 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395491009782 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395491009783 Walker A/P-loop; other site 395491009784 ATP binding site [chemical binding]; other site 395491009785 Q-loop/lid; other site 395491009786 ABC transporter signature motif; other site 395491009787 Walker B; other site 395491009788 D-loop; other site 395491009789 H-loop/switch region; other site 395491009790 HlyD family secretion protein; Region: HlyD_2; pfam12700 395491009791 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491009792 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491009793 Helix-turn-helix domain; Region: HTH_18; pfam12833 395491009794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491009795 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491009796 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 395491009797 putative NAD(P) binding site [chemical binding]; other site 395491009798 active site 395491009799 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491009800 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395491009801 hypothetical protein; Provisional; Region: PRK06834 395491009802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491009803 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 395491009804 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 395491009805 Subunit I/III interface [polypeptide binding]; other site 395491009806 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 395491009807 Subunit I/III interface [polypeptide binding]; other site 395491009808 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395491009809 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 395491009810 D-pathway; other site 395491009811 Low-spin heme binding site [chemical binding]; other site 395491009812 Putative water exit pathway; other site 395491009813 Binuclear center (active site) [active] 395491009814 K-pathway; other site 395491009815 Putative proton exit pathway; other site 395491009816 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 395491009817 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395491009818 Cytochrome c; Region: Cytochrom_C; cl11414 395491009819 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 395491009820 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 395491009821 nucleotide binding site/active site [active] 395491009822 HIT family signature motif; other site 395491009823 catalytic residue [active] 395491009824 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395491009825 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395491009826 Walker A/P-loop; other site 395491009827 ATP binding site [chemical binding]; other site 395491009828 Q-loop/lid; other site 395491009829 ABC transporter signature motif; other site 395491009830 Walker B; other site 395491009831 D-loop; other site 395491009832 H-loop/switch region; other site 395491009833 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 395491009834 ABC-ATPase subunit interface; other site 395491009835 dimer interface [polypeptide binding]; other site 395491009836 putative PBP binding regions; other site 395491009837 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 395491009838 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 395491009839 putative ligand binding residues [chemical binding]; other site 395491009840 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395491009841 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 395491009842 putative active site [active] 395491009843 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 395491009844 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395491009845 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491009846 DsrE/DsrF-like family; Region: DrsE; cl00672 395491009847 Cupin domain; Region: Cupin_2; cl09118 395491009848 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491009849 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491009850 PAS fold; Region: PAS_4; pfam08448 395491009851 PAS fold; Region: PAS_3; pfam08447 395491009852 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395491009853 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491009854 Histidine kinase; Region: HisKA_2; cl06527 395491009855 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491009856 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 395491009857 active site 395491009858 phosphorylation site [posttranslational modification] 395491009859 intermolecular recognition site; other site 395491009860 dimerization interface [polypeptide binding]; other site 395491009861 Cupin domain; Region: Cupin_2; cl09118 395491009862 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_19; cd07262 395491009863 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491009864 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491009865 AAA domain; Region: AAA_33; pfam13671 395491009866 active site 395491009867 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491009868 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 395491009869 active site 395491009870 catalytic tetrad [active] 395491009871 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491009872 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 395491009873 active site 395491009874 phosphorylation site [posttranslational modification] 395491009875 intermolecular recognition site; other site 395491009876 dimerization interface [polypeptide binding]; other site 395491009877 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 395491009878 DNA binding site [nucleotide binding] 395491009879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395491009880 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 395491009881 ATP binding site [chemical binding]; other site 395491009882 Mg2+ binding site [ion binding]; other site 395491009883 G-X-G motif; other site 395491009884 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 395491009885 nucleotide binding site [chemical binding]; other site 395491009886 SulA interaction site; other site 395491009887 VCBS repeat; Region: VCBS_repeat; TIGR01965 395491009888 VCBS repeat; Region: VCBS_repeat; TIGR01965 395491009889 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 395491009890 salt bridge; other site 395491009891 non-specific DNA binding site [nucleotide binding]; other site 395491009892 sequence-specific DNA binding site [nucleotide binding]; other site 395491009893 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 395491009894 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395491009895 putative NAD(P) binding site [chemical binding]; other site 395491009896 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 395491009897 putative hydrophobic ligand binding site [chemical binding]; other site 395491009898 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491009899 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 395491009900 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 395491009901 potential catalytic triad [active] 395491009902 conserved cys residue [active] 395491009903 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491009904 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491009905 Helix-turn-helix domains; Region: HTH; cl00088 395491009906 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395491009907 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 395491009908 Cupin domain; Region: Cupin_2; cl09118 395491009909 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491009910 Helix-turn-helix domains; Region: HTH; cl00088 395491009911 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 395491009912 dimerization interface [polypeptide binding]; other site 395491009913 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491009914 metal binding site [ion binding]; metal-binding site 395491009915 active site 395491009916 I-site; other site 395491009917 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491009918 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395491009919 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 395491009920 S-adenosylmethionine binding site [chemical binding]; other site 395491009921 Cache domain; Region: Cache_1; pfam02743 395491009922 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 395491009923 dimerization interface [polypeptide binding]; other site 395491009924 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 395491009925 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 395491009926 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 395491009927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 395491009928 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 395491009929 anti sigma factor interaction site; other site 395491009930 regulatory phosphorylation site [posttranslational modification]; other site 395491009931 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 395491009932 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 395491009933 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395491009934 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 395491009935 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491009936 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491009937 Walker A/P-loop; other site 395491009938 ATP binding site [chemical binding]; other site 395491009939 Q-loop/lid; other site 395491009940 ABC transporter signature motif; other site 395491009941 Walker B; other site 395491009942 D-loop; other site 395491009943 H-loop/switch region; other site 395491009944 TOBE domain; Region: TOBE_2; cl01440 395491009945 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491009946 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 395491009947 dimer interface [polypeptide binding]; other site 395491009948 conserved gate region; other site 395491009949 putative PBP binding loops; other site 395491009950 ABC-ATPase subunit interface; other site 395491009951 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491009952 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 395491009953 dimer interface [polypeptide binding]; other site 395491009954 conserved gate region; other site 395491009955 putative PBP binding loops; other site 395491009956 ABC-ATPase subunit interface; other site 395491009957 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 395491009958 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491009959 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491009960 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491009961 Cupin domain; Region: Cupin_2; cl09118 395491009962 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395491009963 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491009964 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491009965 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 395491009966 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 395491009967 active site 395491009968 catalytic site [active] 395491009969 substrate binding site [chemical binding]; other site 395491009970 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 395491009971 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 395491009972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491009973 DNA-binding site [nucleotide binding]; DNA binding site 395491009974 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 395491009975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491009976 homodimer interface [polypeptide binding]; other site 395491009977 catalytic residue [active] 395491009978 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395491009979 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395491009980 Response regulator receiver domain; Region: Response_reg; pfam00072 395491009981 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 395491009982 active site 395491009983 phosphorylation site [posttranslational modification] 395491009984 intermolecular recognition site; other site 395491009985 dimerization interface [polypeptide binding]; other site 395491009986 CHASE4 domain; Region: CHASE4; cl01308 395491009987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395491009988 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 395491009989 dimer interface [polypeptide binding]; other site 395491009990 phosphorylation site [posttranslational modification] 395491009991 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 395491009992 ATP binding site [chemical binding]; other site 395491009993 Mg2+ binding site [ion binding]; other site 395491009994 G-X-G motif; other site 395491009995 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395491009996 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491009997 Coenzyme A binding pocket [chemical binding]; other site 395491009998 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 395491009999 active site 395491010000 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 395491010001 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491010002 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 395491010003 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395491010004 active site 395491010005 metal binding site [ion binding]; metal-binding site 395491010006 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395491010007 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 395491010008 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395491010009 Cupin domain; Region: Cupin_2; cl09118 395491010010 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491010011 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491010012 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395491010013 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491010014 Helix-turn-helix domains; Region: HTH; cl00088 395491010015 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 395491010016 putative effector binding pocket; other site 395491010017 dimerization interface [polypeptide binding]; other site 395491010018 H+ Antiporter protein; Region: 2A0121; TIGR00900 395491010019 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 395491010020 dimerization interface [polypeptide binding]; other site 395491010021 putative DNA binding site [nucleotide binding]; other site 395491010022 putative Zn2+ binding site [ion binding]; other site 395491010023 cyclase homology domain; Region: CHD; cd07302 395491010024 nucleotidyl binding site; other site 395491010025 metal binding site [ion binding]; metal-binding site 395491010026 dimer interface [polypeptide binding]; other site 395491010027 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395491010028 putative hydrophobic ligand binding site [chemical binding]; other site 395491010029 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 395491010030 active site 395491010031 homopentamer interface [polypeptide binding]; other site 395491010032 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491010033 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395491010034 putative NAD(P) binding site [chemical binding]; other site 395491010035 putative active site [active] 395491010036 haloalkane dehalogenase; Provisional; Region: PRK03592 395491010037 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 395491010038 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491010039 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 395491010040 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 395491010041 CGNR zinc finger; Region: zf-CGNR; pfam11706 395491010042 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_16; cd07263 395491010043 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491010044 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491010045 Helix-turn-helix domains; Region: HTH; cl00088 395491010046 The C-terminal substrate-domain of LysR-type transcriptional regulators for beta-lactamase genes, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_beta_lactamase; cd08484 395491010047 putative dimerization interface [polypeptide binding]; other site 395491010048 putative substrate binding pocket [chemical binding]; other site 395491010049 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491010050 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395491010051 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491010052 Helix-turn-helix domains; Region: HTH; cl00088 395491010053 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 395491010054 putative effector binding pocket; other site 395491010055 dimerization interface [polypeptide binding]; other site 395491010056 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491010057 classical (c) SDRs; Region: SDR_c; cd05233 395491010058 NAD(P) binding site [chemical binding]; other site 395491010059 active site 395491010060 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_1; cd02199 395491010061 homotrimer interaction site [polypeptide binding]; other site 395491010062 putative active site [active] 395491010063 FecR protein; Region: FecR; pfam04773 395491010064 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 395491010065 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 395491010066 TPR motif; other site 395491010067 binding surface 395491010068 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 395491010069 TPR motif; other site 395491010070 TPR repeat; Region: TPR_11; pfam13414 395491010071 binding surface 395491010072 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 395491010073 binding surface 395491010074 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395491010075 TPR motif; other site 395491010076 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; cl01155 395491010077 CHASE2 domain; Region: CHASE2; cl01732 395491010078 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 395491010079 cyclase homology domain; Region: CHD; cd07302 395491010080 nucleotidyl binding site; other site 395491010081 metal binding site [ion binding]; metal-binding site 395491010082 dimer interface [polypeptide binding]; other site 395491010083 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491010084 Helix-turn-helix domains; Region: HTH; cl00088 395491010085 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 395491010086 dimerization interface [polypeptide binding]; other site 395491010087 EamA-like transporter family; Region: EamA; cl01037 395491010088 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491010089 EamA-like transporter family; Region: EamA; cl01037 395491010090 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 395491010091 active site 395491010092 NTP binding site [chemical binding]; other site 395491010093 metal binding triad [ion binding]; metal-binding site 395491010094 antibiotic binding site [chemical binding]; other site 395491010095 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395491010096 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 395491010097 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 395491010098 trimer interface [polypeptide binding]; other site 395491010099 putative metal binding site [ion binding]; other site 395491010100 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395491010101 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395491010102 Phospholipid methyltransferase; Region: PEMT; cl00763 395491010103 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491010104 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491010105 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395491010106 metal binding site 2 [ion binding]; metal-binding site 395491010107 putative DNA binding helix; other site 395491010108 metal binding site 1 [ion binding]; metal-binding site 395491010109 dimer interface [polypeptide binding]; other site 395491010110 structural Zn2+ binding site [ion binding]; other site 395491010111 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 395491010112 ABC-ATPase subunit interface; other site 395491010113 dimer interface [polypeptide binding]; other site 395491010114 putative PBP binding regions; other site 395491010115 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 395491010116 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 395491010117 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 395491010118 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 395491010119 metal binding site [ion binding]; metal-binding site 395491010120 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395491010121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010122 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395491010123 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 395491010124 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395491010125 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491010126 active site 395491010127 metal binding site [ion binding]; metal-binding site 395491010128 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 395491010129 Domain of unknown function DUF21; Region: DUF21; pfam01595 395491010130 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 395491010131 Transporter associated domain; Region: CorC_HlyC; cl08393 395491010132 Chromate transporter; Region: Chromate_transp; pfam02417 395491010133 Chromate transporter; Region: Chromate_transp; pfam02417 395491010134 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; cl00125 395491010135 active site residue [active] 395491010136 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 395491010137 Protein of unknown function (DUF995); Region: DUF995; pfam06191 395491010138 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 395491010139 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395491010140 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395491010141 putative catalytic site [active] 395491010142 putative metal binding site [ion binding]; other site 395491010143 putative phosphate binding site [ion binding]; other site 395491010144 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395491010145 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 395491010146 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395491010147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010148 Walker A/P-loop; other site 395491010149 ATP binding site [chemical binding]; other site 395491010150 Q-loop/lid; other site 395491010151 ABC transporter signature motif; other site 395491010152 Walker B; other site 395491010153 D-loop; other site 395491010154 H-loop/switch region; other site 395491010155 TOBE domain; Region: TOBE_2; cl01440 395491010156 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 395491010157 dimer interface [polypeptide binding]; other site 395491010158 conserved gate region; other site 395491010159 putative PBP binding loops; other site 395491010160 ABC-ATPase subunit interface; other site 395491010161 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 395491010162 dimer interface [polypeptide binding]; other site 395491010163 conserved gate region; other site 395491010164 putative PBP binding loops; other site 395491010165 ABC-ATPase subunit interface; other site 395491010166 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 395491010167 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491010168 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491010169 Helix-turn-helix domains; Region: HTH; cl00088 395491010170 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491010171 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 395491010172 active site 395491010173 catalytic tetrad [active] 395491010174 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 395491010175 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 395491010176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491010177 homodimer interface [polypeptide binding]; other site 395491010178 catalytic residue [active] 395491010179 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 395491010180 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 395491010181 homodimer interface [polypeptide binding]; other site 395491010182 substrate-cofactor binding pocket; other site 395491010183 catalytic residue [active] 395491010184 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 395491010185 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 395491010186 putative active site [active] 395491010187 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491010188 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491010189 tellurite resistance protein TehB; Provisional; Region: PRK12335 395491010190 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 395491010191 S-adenosylmethionine binding site [chemical binding]; other site 395491010192 ketol-acid reductoisomerase; Provisional; Region: PRK05479 395491010193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491010194 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 395491010195 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491010196 Helix-turn-helix domains; Region: HTH; cl00088 395491010197 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395491010198 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 395491010199 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 395491010200 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 395491010201 Ligand binding site; other site 395491010202 Putative Catalytic site; other site 395491010203 DXD motif; other site 395491010204 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395491010205 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491010206 probable cinnamyl alcohol dehydrogenase; Region: PLN02586 395491010207 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 395491010208 putative NAD(P) binding site [chemical binding]; other site 395491010209 putative substrate binding site [chemical binding]; other site 395491010210 catalytic Zn binding site [ion binding]; other site 395491010211 structural Zn binding site [ion binding]; other site 395491010212 dimer interface [polypeptide binding]; other site 395491010213 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 395491010214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010215 G1 box; other site 395491010216 GTP/Mg2+ binding site [chemical binding]; other site 395491010217 G2 box; other site 395491010218 Switch I region; other site 395491010219 G3 box; other site 395491010220 Switch II region; other site 395491010221 G4 box; other site 395491010222 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 395491010223 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 395491010224 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 395491010225 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 395491010226 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491010227 Helix-turn-helix domains; Region: HTH; cl00088 395491010228 AsnC family; Region: AsnC_trans_reg; pfam01037 395491010229 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395491010230 Helix-turn-helix domains; Region: HTH; cl00088 395491010231 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491010232 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491010233 Coenzyme A binding pocket [chemical binding]; other site 395491010234 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491010235 Helix-turn-helix domains; Region: HTH; cl00088 395491010236 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395491010237 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; cl11420 395491010238 Helix-turn-helix domains; Region: HTH; cl00088 395491010239 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 395491010240 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395491010241 NADP binding site [chemical binding]; other site 395491010242 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 395491010243 active site 395491010244 hydrophilic channel; other site 395491010245 dimerization interface [polypeptide binding]; other site 395491010246 catalytic residues [active] 395491010247 active site lid [active] 395491010248 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 395491010249 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395491010250 dimer interface [polypeptide binding]; other site 395491010251 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 395491010252 DNA binding residues [nucleotide binding] 395491010253 dimerization interface [polypeptide binding]; other site 395491010254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010255 Family description; Region: UvrD_C_2; cl15862 395491010256 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491010257 Helix-turn-helix domains; Region: HTH; cl00088 395491010258 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 395491010259 putative effector binding pocket; other site 395491010260 dimerization interface [polypeptide binding]; other site 395491010261 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491010262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491010263 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395491010264 NAD(P) binding site [chemical binding]; other site 395491010265 active site 395491010266 Cupin domain; Region: Cupin_2; cl09118 395491010267 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395491010268 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 395491010269 ligand binding site [chemical binding]; other site 395491010270 flexible hinge region; other site 395491010271 Predicted transcriptional regulator [Transcription]; Region: COG1959 395491010272 Helix-turn-helix domains; Region: HTH; cl00088 395491010273 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491010274 Helix-turn-helix domains; Region: HTH; cl00088 395491010275 Cupin domain; Region: Cupin_2; cl09118 395491010276 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_24; cd09012 395491010277 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395491010278 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395491010279 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491010280 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 395491010281 DNA binding residues [nucleotide binding] 395491010282 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395491010283 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 395491010284 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 395491010285 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 395491010286 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 395491010287 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 395491010288 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 395491010289 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491010290 putative NAD(P) binding site [chemical binding]; other site 395491010291 active site 395491010292 DoxX-like family; Region: DoxX_3; pfam13781 395491010293 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 395491010294 LysE type translocator; Region: LysE; cl00565 395491010295 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 395491010296 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395491010297 active site 395491010298 catalytic tetrad [active] 395491010299 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 395491010300 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 395491010301 putative valine binding site [chemical binding]; other site 395491010302 dimer interface [polypeptide binding]; other site 395491010303 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 395491010304 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 395491010305 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395491010306 PYR/PP interface [polypeptide binding]; other site 395491010307 dimer interface [polypeptide binding]; other site 395491010308 TPP binding site [chemical binding]; other site 395491010309 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395491010310 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 395491010311 TPP-binding site [chemical binding]; other site 395491010312 dimer interface [polypeptide binding]; other site 395491010313 HerA helicase [Replication, recombination, and repair]; Region: COG0433 395491010314 Domain of unknown function DUF87; Region: DUF87; pfam01935 395491010315 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491010316 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491010317 inhibitor site; inhibition site 395491010318 active site 395491010319 dimer interface [polypeptide binding]; other site 395491010320 catalytic residue [active] 395491010321 LysE type translocator; Region: LysE; cl00565 395491010322 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491010323 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 395491010324 DNA-binding site [nucleotide binding]; DNA binding site 395491010325 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 395491010326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491010327 homodimer interface [polypeptide binding]; other site 395491010328 catalytic residue [active] 395491010329 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 395491010330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010331 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 395491010332 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 395491010333 motif II; other site 395491010334 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395491010335 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395491010336 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 395491010337 protein binding site [polypeptide binding]; other site 395491010338 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 395491010339 protein binding site [polypeptide binding]; other site 395491010340 HflC protein; Region: hflC; TIGR01932 395491010341 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 395491010342 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 395491010343 HflK protein; Region: hflK; TIGR01933 395491010344 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 395491010345 folate binding site [chemical binding]; other site 395491010346 NADP+ binding site [chemical binding]; other site 395491010347 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 395491010348 dimerization interface [polypeptide binding]; other site 395491010349 active site 395491010350 Stringent starvation protein B; Region: SspB; cl01120 395491010351 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 395491010352 Ribbon-helix-helix domain; Region: RHH_4; cl01775 395491010353 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 395491010354 AsmA-like C-terminal region; Region: AsmA_2; cl15864 395491010355 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 395491010356 FAD binding domain; Region: FAD_binding_4; pfam01565 395491010357 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491010358 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 395491010359 active site 395491010360 catalytic tetrad [active] 395491010361 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491010362 Helix-turn-helix domains; Region: HTH; cl00088 395491010363 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 395491010364 dimerization interface [polypeptide binding]; other site 395491010365 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 395491010366 Putative ammonia monooxygenase; Region: AmoA; pfam05145 395491010367 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 395491010368 Cupin domain; Region: Cupin_2; cl09118 395491010369 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491010370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491010371 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 395491010372 putative outer membrane lipoprotein; Provisional; Region: PRK10510 395491010373 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395491010374 ligand binding site [chemical binding]; other site 395491010375 flagellin; Reviewed; Region: PRK12687 395491010376 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395491010377 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395491010378 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395491010379 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491010380 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491010381 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491010382 cyclase homology domain; Region: CHD; cd07302 395491010383 nucleotidyl binding site; other site 395491010384 metal binding site [ion binding]; metal-binding site 395491010385 dimer interface [polypeptide binding]; other site 395491010386 SpoVR family protein; Provisional; Region: PRK11767 395491010387 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 395491010388 Uncharacterized conserved protein [Function unknown]; Region: COG2718 395491010389 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395491010390 PrkA family serine protein kinase; Provisional; Region: PRK15455 395491010391 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010392 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 395491010393 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 395491010394 dimer interface [polypeptide binding]; other site 395491010395 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 395491010396 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010397 Family description; Region: UvrD_C_2; cl15862 395491010398 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 395491010399 Isochorismatase family; Region: Isochorismatase; pfam00857 395491010400 catalytic triad [active] 395491010401 metal binding site [ion binding]; metal-binding site 395491010402 conserved cis-peptide bond; other site 395491010403 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; cl00161 395491010404 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 395491010405 AzlC protein; Region: AzlC; cl00570 395491010406 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 395491010407 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395491010408 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395491010409 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 395491010410 active site 395491010411 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 395491010412 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 395491010413 S-adenosylmethionine binding site [chemical binding]; other site 395491010414 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 395491010415 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 395491010416 Cu(I) binding site [ion binding]; other site 395491010417 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395491010418 putative CheA interaction surface; other site 395491010419 CreA protein; Region: CreA; pfam05981 395491010420 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 395491010421 active site 395491010422 catalytic site [active] 395491010423 substrate binding site [chemical binding]; other site 395491010424 putative acetyltransferase YhhY; Provisional; Region: PRK10140 395491010425 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491010426 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 395491010427 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 395491010428 nucleotide binding pocket [chemical binding]; other site 395491010429 K-X-D-G motif; other site 395491010430 catalytic site [active] 395491010431 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 395491010432 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 395491010433 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 395491010434 Dimer interface [polypeptide binding]; other site 395491010435 BRCT sequence motif; other site 395491010436 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 395491010437 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 395491010438 Walker A/P-loop; other site 395491010439 ATP binding site [chemical binding]; other site 395491010440 Q-loop/lid; other site 395491010441 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 395491010442 ABC transporter signature motif; other site 395491010443 Walker B; other site 395491010444 D-loop; other site 395491010445 H-loop/switch region; other site 395491010446 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 395491010447 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 395491010448 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 395491010449 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 395491010450 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 395491010451 nucleotide binding site [chemical binding]; other site 395491010452 SulA interaction site; other site 395491010453 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 395491010454 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 395491010455 Cell division protein FtsA; Region: FtsA; cl11496 395491010456 Cell division protein FtsA; Region: FtsA; cl11496 395491010457 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 395491010458 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 395491010459 Cell division protein FtsQ; Region: FtsQ; pfam03799 395491010460 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 395491010461 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 395491010462 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491010463 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; cl00200 395491010464 amphipathic channel; other site 395491010465 Asn-Pro-Ala signature motifs; other site 395491010466 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 395491010467 metabolite-proton symporter; Region: 2A0106; TIGR00883 395491010468 putative substrate translocation pore; other site 395491010469 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491010470 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 395491010471 putative NAD(P) binding site [chemical binding]; other site 395491010472 active site 395491010473 putative substrate binding site [chemical binding]; other site 395491010474 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 395491010475 FAD binding domain; Region: FAD_binding_4; pfam01565 395491010476 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 395491010477 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 395491010478 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395491010479 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395491010480 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395491010481 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 395491010482 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 395491010483 active site 395491010484 homodimer interface [polypeptide binding]; other site 395491010485 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 395491010486 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 395491010487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491010488 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395491010489 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 395491010490 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 395491010491 Mg++ binding site [ion binding]; other site 395491010492 putative catalytic motif [active] 395491010493 putative substrate binding site [chemical binding]; other site 395491010494 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 395491010495 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395491010496 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395491010497 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 395491010498 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395491010499 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395491010500 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 395491010501 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395491010502 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491010503 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 395491010504 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 395491010505 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 395491010506 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; cl16911 395491010507 cell division protein MraZ; Reviewed; Region: PRK00326 395491010508 FAD dependent oxidoreductase; Region: DAO; pfam01266 395491010509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491010510 FAD dependent oxidoreductase; Region: DAO; pfam01266 395491010511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491010512 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 catalyze...; Region: LT_GEWL; cd00254 395491010513 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395491010514 catalytic residue [active] 395491010515 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 395491010516 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 395491010517 amidase catalytic site [active] 395491010518 Zn binding residues [ion binding]; other site 395491010519 substrate binding site [chemical binding]; other site 395491010520 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491010521 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 395491010522 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 395491010523 putative metal binding site [ion binding]; other site 395491010524 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 395491010525 HSP70 interaction site [polypeptide binding]; other site 395491010526 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 395491010527 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 395491010528 active site 395491010529 ADP/pyrophosphate binding site [chemical binding]; other site 395491010530 allosteric effector site; other site 395491010531 dimerization interface [polypeptide binding]; other site 395491010532 fructose-1,6-bisphosphate binding site; other site 395491010533 LysE type translocator; Region: LysE; cl00565 395491010534 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 395491010535 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 catalyze...; Region: LT_GEWL; cd00254 395491010536 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395491010537 catalytic residue [active] 395491010538 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491010539 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 395491010540 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 395491010541 S-adenosylmethionine binding site [chemical binding]; other site 395491010542 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395491010543 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 395491010544 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 395491010545 active site 395491010546 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 395491010547 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491010548 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491010549 EamA-like transporter family; Region: EamA; cl01037 395491010550 EamA-like transporter family; Region: EamA; cl01037 395491010551 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 395491010552 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 395491010553 FAD binding site [chemical binding]; other site 395491010554 Helix-turn-helix domains; Region: HTH; cl00088 395491010555 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 395491010556 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 395491010557 S-adenosylmethionine binding site [chemical binding]; other site 395491010558 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; cl16911 395491010559 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 395491010560 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010561 Walker A/P-loop; other site 395491010562 ATP binding site [chemical binding]; other site 395491010563 Q-loop/lid; other site 395491010564 ABC transporter signature motif; other site 395491010565 Walker B; other site 395491010566 D-loop; other site 395491010567 H-loop/switch region; other site 395491010568 ABC transporter; Region: ABC_tran_2; pfam12848 395491010569 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491010570 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_prok; cd01062 395491010571 B1 nucleotide binding pocket [chemical binding]; other site 395491010572 B2 nucleotide binding pocket [chemical binding]; other site 395491010573 CAS motifs; other site 395491010574 active site 395491010575 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 395491010576 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491010577 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 395491010578 EamA-like transporter family; Region: EamA; cl01037 395491010579 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491010580 EamA-like transporter family; Region: EamA; cl01037 395491010581 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395491010582 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395491010583 thiamine pyrophosphate protein; Validated; Region: PRK08199 395491010584 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395491010585 PYR/PP interface [polypeptide binding]; other site 395491010586 dimer interface [polypeptide binding]; other site 395491010587 TPP binding site [chemical binding]; other site 395491010588 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395491010589 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 395491010590 TPP-binding site [chemical binding]; other site 395491010591 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 395491010592 homotrimer interaction site [polypeptide binding]; other site 395491010593 putative active site [active] 395491010594 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 395491010595 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 395491010596 active site 395491010597 catalytic residues [active] 395491010598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395491010599 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491010600 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395491010601 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 395491010602 P-loop; other site 395491010603 Magnesium ion binding site [ion binding]; other site 395491010604 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395491010605 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 395491010606 putative active site [active] 395491010607 metal binding site [ion binding]; metal-binding site 395491010608 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491010609 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 395491010610 NAD(P) binding site [chemical binding]; other site 395491010611 catalytic residues [active] 395491010612 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395491010613 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395491010614 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 395491010615 Spore germination protein; Region: Spore_permease; cl15802 395491010616 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395491010617 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395491010618 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395491010619 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 395491010620 putative active site [active] 395491010621 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491010622 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 395491010623 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; cl00427 395491010624 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395491010625 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 395491010626 dimer interface [polypeptide binding]; other site 395491010627 conserved gate region; other site 395491010628 putative PBP binding loops; other site 395491010629 ABC-ATPase subunit interface; other site 395491010630 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491010631 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010632 Walker A/P-loop; other site 395491010633 ATP binding site [chemical binding]; other site 395491010634 Q-loop/lid; other site 395491010635 ABC transporter signature motif; other site 395491010636 Walker B; other site 395491010637 D-loop; other site 395491010638 H-loop/switch region; other site 395491010639 TOBE domain; Region: TOBE_2; cl01440 395491010640 NIPSNAP; Region: NIPSNAP; pfam07978 395491010641 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491010642 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491010643 Walker A/P-loop; other site 395491010644 ATP binding site [chemical binding]; other site 395491010645 Q-loop/lid; other site 395491010646 ABC transporter signature motif; other site 395491010647 Walker B; other site 395491010648 D-loop; other site 395491010649 H-loop/switch region; other site 395491010650 TOBE domain; Region: TOBE_2; cl01440 395491010651 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491010652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491010653 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491010654 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 395491010655 dimer interface [polypeptide binding]; other site 395491010656 conserved gate region; other site 395491010657 putative PBP binding loops; other site 395491010658 ABC-ATPase subunit interface; other site 395491010659 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491010660 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 395491010661 dimer interface [polypeptide binding]; other site 395491010662 conserved gate region; other site 395491010663 putative PBP binding loops; other site 395491010664 ABC-ATPase subunit interface; other site 395491010665 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491010666 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 395491010667 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 395491010668 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491010669 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395491010670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491010671 DNA-binding site [nucleotide binding]; DNA binding site 395491010672 UTRA domain; Region: UTRA; cl01230 395491010673 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 395491010674 putative active site [active] 395491010675 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395491010676 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 395491010677 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 395491010678 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 395491010679 substrate binding pocket [chemical binding]; other site 395491010680 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 395491010681 B12 binding site [chemical binding]; other site 395491010682 cobalt ligand [ion binding]; other site 395491010683 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 395491010684 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 395491010685 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 395491010686 dimerization interface [polypeptide binding]; other site 395491010687 putative active cleft [active] 395491010688 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 395491010689 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 395491010690 Domain of unknown function (DUF336); Region: DUF336; cl01249 395491010691 Flavin Reductases; Region: FlaRed; cl00801 395491010692 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395491010693 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491010694 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 395491010695 dimer interface [polypeptide binding]; other site 395491010696 conserved gate region; other site 395491010697 putative PBP binding loops; other site 395491010698 ABC-ATPase subunit interface; other site 395491010699 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 395491010700 dimer interface [polypeptide binding]; other site 395491010701 conserved gate region; other site 395491010702 putative PBP binding loops; other site 395491010703 ABC-ATPase subunit interface; other site 395491010704 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 395491010705 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491010706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491010707 Walker A/P-loop; other site 395491010708 ATP binding site [chemical binding]; other site 395491010709 Q-loop/lid; other site 395491010710 ABC transporter signature motif; other site 395491010711 Walker B; other site 395491010712 D-loop; other site 395491010713 H-loop/switch region; other site 395491010714 TOBE domain; Region: TOBE_2; cl01440 395491010715 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491010716 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491010717 DNA-binding site [nucleotide binding]; DNA binding site 395491010718 FCD domain; Region: FCD; cl11656 395491010719 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 395491010720 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491010721 N-terminal catalytic domain of mainly uncharacterized eukaryotic proteins similar to alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_like_1; cd10791 395491010722 putative active site [active] 395491010723 catalytic site [active] 395491010724 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395491010725 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 395491010726 DNA binding residues [nucleotide binding] 395491010727 dimerization interface [polypeptide binding]; other site 395491010728 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491010729 Response regulator receiver domain; Region: Response_reg; pfam00072 395491010730 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 395491010731 active site 395491010732 phosphorylation site [posttranslational modification] 395491010733 intermolecular recognition site; other site 395491010734 dimerization interface [polypeptide binding]; other site 395491010735 Protein of unknown function (DUF541); Region: SIMPL; cl01077 395491010736 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 395491010737 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 395491010738 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 395491010739 H+ Antiporter protein; Region: 2A0121; TIGR00900 395491010740 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 395491010741 putative substrate translocation pore; other site 395491010742 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 395491010743 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491010744 ligand binding site [chemical binding]; other site 395491010745 flexible hinge region; other site 395491010746 Helix-turn-helix domains; Region: HTH; cl00088 395491010747 Domain of unknown function (DUF427); Region: DUF427; cl00998 395491010748 B3/4 domain; Region: B3_4; cl11458 395491010749 EamA-like transporter family; Region: EamA; cl01037 395491010750 EamA-like transporter family; Region: EamA; cl01037 395491010751 Cupin domain; Region: Cupin_2; cl09118 395491010752 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491010753 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491010754 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase; Region: APH; cd05150 395491010755 Phosphotransferase enzyme family; Region: APH; pfam01636 395491010756 active site 395491010757 ATP binding site [chemical binding]; other site 395491010758 antibiotic binding site [chemical binding]; other site 395491010759 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 395491010760 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 395491010761 GYD domain; Region: GYD; cl01743 395491010762 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 395491010763 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 395491010764 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395491010765 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 395491010766 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491010767 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395491010768 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 395491010769 DNA binding residues [nucleotide binding] 395491010770 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491010771 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 395491010772 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395491010773 NAD(P) binding site [chemical binding]; other site 395491010774 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 395491010775 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 395491010776 substrate-cofactor binding pocket; other site 395491010777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491010778 catalytic residue [active] 395491010779 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 395491010780 S-adenosylmethionine binding site [chemical binding]; other site 395491010781 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 395491010782 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 395491010783 ATP binding site [chemical binding]; other site 395491010784 putative Mg++ binding site [ion binding]; other site 395491010785 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 395491010786 nucleotide binding region [chemical binding]; other site 395491010787 ATP-binding site [chemical binding]; other site 395491010788 RQC domain; Region: RQC; cl09632 395491010789 HRDC domain; Region: HRDC; cl02578 395491010790 DNA primase; Validated; Region: dnaG; PRK05667 395491010791 CHC2 zinc finger; Region: zf-CHC2; cl15369 395491010792 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 395491010793 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 395491010794 active site 395491010795 metal binding site [ion binding]; metal-binding site 395491010796 interdomain interaction site; other site 395491010797 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 395491010798 GatB domain; Region: GatB_Yqey; cl11497 395491010799 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 395491010800 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 395491010801 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 395491010802 catalytic site [active] 395491010803 subunit interface [polypeptide binding]; other site 395491010804 multidrug efflux protein; Reviewed; Region: PRK01766 395491010805 MatE; Region: MatE; cl10513 395491010806 MatE; Region: MatE; cl10513 395491010807 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491010808 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 395491010809 putative substrate translocation pore; other site 395491010810 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491010811 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 395491010812 active site 395491010813 catalytic tetrad [active] 395491010814 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 395491010815 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 395491010816 LytTr DNA-binding domain; Region: LytTR; cl04498 395491010817 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 395491010818 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395491010819 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491010820 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 395491010821 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395491010822 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491010823 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 395491010824 IMP binding site; other site 395491010825 dimer interface [polypeptide binding]; other site 395491010826 partial ornithine binding site; other site 395491010827 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 395491010828 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395491010829 Fe-S cluster binding site [ion binding]; other site 395491010830 active site 395491010831 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 395491010832 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 395491010833 FeS/SAM binding site; other site 395491010834 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 395491010835 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 395491010836 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395491010837 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395491010838 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 395491010839 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 395491010840 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395491010841 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 395491010842 dimer interface [polypeptide binding]; other site 395491010843 phosphorylation site [posttranslational modification] 395491010844 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 395491010845 ATP binding site [chemical binding]; other site 395491010846 Mg2+ binding site [ion binding]; other site 395491010847 G-X-G motif; other site 395491010848 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395491010849 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 395491010850 active site 395491010851 phosphorylation site [posttranslational modification] 395491010852 intermolecular recognition site; other site 395491010853 dimerization interface [polypeptide binding]; other site 395491010854 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 395491010855 Walker A motif; other site 395491010856 ATP binding site [chemical binding]; other site 395491010857 Walker B motif; other site 395491010858 arginine finger; other site 395491010859 Helix-turn-helix domains; Region: HTH; cl00088 395491010860 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491010861 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 395491010862 putative DNA binding site [nucleotide binding]; other site 395491010863 putative Zn2+ binding site [ion binding]; other site 395491010864 AsnC family; Region: AsnC_trans_reg; pfam01037 395491010865 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 395491010866 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491010867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491010868 Helix-turn-helix domains; Region: HTH; cl00088 395491010869 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 395491010870 putative effector binding pocket; other site 395491010871 dimerization interface [polypeptide binding]; other site 395491010872 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 395491010873 dimerization interface [polypeptide binding]; other site 395491010874 putative DNA binding site [nucleotide binding]; other site 395491010875 putative Zn2+ binding site [ion binding]; other site 395491010876 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 395491010877 putative substrate translocation pore; other site 395491010878 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 395491010879 FMN binding site [chemical binding]; other site 395491010880 active site 395491010881 substrate binding site [chemical binding]; other site 395491010882 catalytic residue [active] 395491010883 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491010884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491010885 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491010886 NAD(P) binding site [chemical binding]; other site 395491010887 active site 395491010888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491010889 Helix-turn-helix domains; Region: HTH; cl00088 395491010890 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 395491010891 dimerization interface [polypeptide binding]; other site 395491010892 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 395491010893 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 395491010894 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 395491010895 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 395491010896 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 395491010897 Ligand binding site; other site 395491010898 metal-binding site 395491010899 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 395491010900 putative active site [active] 395491010901 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395491010902 aspartate aminotransferase; Provisional; Region: PRK05764 395491010903 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 395491010904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491010905 homodimer interface [polypeptide binding]; other site 395491010906 catalytic residue [active] 395491010907 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 395491010908 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 395491010909 vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to...; Region: vWA_interalpha_trypsin_inhibitor; cd01461 395491010910 metal ion-dependent adhesion site (MIDAS); other site 395491010911 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 395491010912 active site 395491010913 catalytic site [active] 395491010914 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 395491010915 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 395491010916 EamA-like transporter family; Region: EamA; cl01037 395491010917 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 protein; Region: CSP_CDS; cd04458 395491010918 DNA-binding site [nucleotide binding]; DNA binding site 395491010919 RNA-binding motif; other site 395491010920 BA14K-like protein; Region: BA14K; pfam07886 395491010921 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395491010922 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 395491010923 dimerization interface [polypeptide binding]; other site 395491010924 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491010925 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491010926 dimer interface [polypeptide binding]; other site 395491010927 putative CheW interface [polypeptide binding]; other site 395491010928 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 395491010929 substrate binding pocket [chemical binding]; other site 395491010930 membrane-bound complex binding site; other site 395491010931 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491010932 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 395491010933 dimer interface [polypeptide binding]; other site 395491010934 conserved gate region; other site 395491010935 putative PBP binding loops; other site 395491010936 ABC-ATPase subunit interface; other site 395491010937 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395491010938 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491010939 Walker A/P-loop; other site 395491010940 ATP binding site [chemical binding]; other site 395491010941 Q-loop/lid; other site 395491010942 ABC transporter signature motif; other site 395491010943 Walker B; other site 395491010944 D-loop; other site 395491010945 H-loop/switch region; other site 395491010946 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; cl01054 395491010947 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 395491010948 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 395491010949 ATP binding site [chemical binding]; other site 395491010950 Mg2+ binding site [ion binding]; other site 395491010951 G-X-G motif; other site 395491010952 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491010953 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 395491010954 active site 395491010955 phosphorylation site [posttranslational modification] 395491010956 intermolecular recognition site; other site 395491010957 dimerization interface [polypeptide binding]; other site 395491010958 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 395491010959 DNA binding site [nucleotide binding] 395491010960 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491010961 Helix-turn-helix domains; Region: HTH; cl00088 395491010962 Bacterial SH3 domain; Region: SH3_3; cl02551 395491010963 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395491010964 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491010965 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 395491010966 dimer interface [polypeptide binding]; other site 395491010967 putative tRNA-binding site [nucleotide binding]; other site 395491010968 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 395491010969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491010970 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 395491010971 Membrane fusogenic activity; Region: BMFP; cl01115 395491010972 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 395491010973 Uncharacterized conserved protein [Function unknown]; Region: COG1565 395491010974 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 395491010975 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 395491010976 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 395491010977 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395491010978 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395491010979 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; cd01066 395491010980 active site 395491010981 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 395491010982 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 395491010983 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395491010984 active site 395491010985 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 395491010986 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395491010987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491010988 metal binding site [ion binding]; metal-binding site 395491010989 active site 395491010990 I-site; other site 395491010991 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491010992 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 395491010993 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 395491010994 5S rRNA interface [nucleotide binding]; other site 395491010995 CTC domain interface [polypeptide binding]; other site 395491010996 L16 interface [polypeptide binding]; other site 395491010997 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; cl01054 395491010998 PAS domain S-box; Region: sensory_box; TIGR00229 395491010999 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491011000 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491011001 metal binding site [ion binding]; metal-binding site 395491011002 active site 395491011003 I-site; other site 395491011004 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491011005 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 395491011006 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491011007 substrate binding pocket [chemical binding]; other site 395491011008 membrane-bound complex binding site; other site 395491011009 hinge residues; other site 395491011010 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 395491011011 putative active site [active] 395491011012 catalytic residue [active] 395491011013 putative acetyltransferase; Provisional; Region: PRK03624 395491011014 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491011015 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 395491011016 GTP-binding protein YchF; Reviewed; Region: PRK09601 395491011017 YchF GTPase; Region: YchF; cd01900 395491011018 G1 box; other site 395491011019 GTP/Mg2+ binding site [chemical binding]; other site 395491011020 Switch I region; other site 395491011021 G2 box; other site 395491011022 Switch II region; other site 395491011023 G3 box; other site 395491011024 G4 box; other site 395491011025 G5 box; other site 395491011026 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 395491011027 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 395491011028 putative active site [active] 395491011029 putative catalytic site [active] 395491011030 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 395491011031 putative active site [active] 395491011032 putative catalytic site [active] 395491011033 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395491011034 active site 395491011035 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 395491011036 cytochrome b; Provisional; Region: CYTB; MTH00191 395491011037 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; cd00284 395491011038 Qi binding site; other site 395491011039 intrachain domain interface; other site 395491011040 interchain domain interface [polypeptide binding]; other site 395491011041 heme bH binding site [chemical binding]; other site 395491011042 heme bL binding site [chemical binding]; other site 395491011043 Qo binding site; other site 395491011044 Cytochrome b(C-terminus)/b6/petD: 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_C; cd00290 395491011045 interchain domain interface [polypeptide binding]; other site 395491011046 intrachain domain interface; other site 395491011047 Qi binding site; other site 395491011048 Qo binding site; other site 395491011049 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 395491011050 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 395491011051 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 395491011052 [2Fe-2S] cluster binding site [ion binding]; other site 395491011053 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395491011054 putative catalytic site [active] 395491011055 putative metal binding site [ion binding]; other site 395491011056 putative phosphate binding site [ion binding]; other site 395491011057 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395491011058 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491011059 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 395491011060 Walker A/P-loop; other site 395491011061 ATP binding site [chemical binding]; other site 395491011062 Q-loop/lid; other site 395491011063 ABC transporter signature motif; other site 395491011064 Walker B; other site 395491011065 D-loop; other site 395491011066 H-loop/switch region; other site 395491011067 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491011068 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395491011069 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491011070 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 395491011071 Walker A/P-loop; other site 395491011072 ATP binding site [chemical binding]; other site 395491011073 Q-loop/lid; other site 395491011074 ABC transporter signature motif; other site 395491011075 Walker B; other site 395491011076 D-loop; other site 395491011077 H-loop/switch region; other site 395491011078 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395491011079 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 395491011080 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 395491011081 PhoU domain; Region: PhoU; pfam01895 395491011082 PhoU domain; Region: PhoU; pfam01895 395491011083 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 395491011084 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 395491011085 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 395491011086 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 395491011087 active site 395491011088 NTP binding site [chemical binding]; other site 395491011089 metal binding triad [ion binding]; metal-binding site 395491011090 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 395491011091 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491011092 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 395491011093 putative active site [active] 395491011094 putative CoA binding site [chemical binding]; other site 395491011095 nudix motif; other site 395491011096 metal binding site [ion binding]; metal-binding site 395491011097 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 395491011098 MoxR-like ATPases [General function prediction only]; Region: COG0714 395491011099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491011100 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 395491011101 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395491011102 Aerotolerance regulator N-terminal; Region: BatA; cl06567 395491011103 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395491011104 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 395491011105 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395491011106 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491011107 Predicted acetyltransferase [General function prediction only]; Region: COG3153 395491011108 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491011109 Coenzyme A binding pocket [chemical binding]; other site 395491011110 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 395491011111 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491011112 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 395491011113 putative dimer interface [polypeptide binding]; other site 395491011114 N-terminal domain interface [polypeptide binding]; other site 395491011115 putative substrate binding pocket (H-site) [chemical binding]; other site 395491011116 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_21; cd04680 395491011117 nudix motif; other site 395491011118 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395491011119 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 395491011120 putative active site [active] 395491011121 putative metal binding site [ion binding]; other site 395491011122 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395491011123 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 395491011124 binding surface 395491011125 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395491011126 TPR motif; other site 395491011127 RNA polymerase sigma factor; Provisional; Region: PRK12547 395491011128 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491011129 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491011130 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395491011131 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491011132 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 395491011133 NAD(P) binding site [chemical binding]; other site 395491011134 Helix-turn-helix domains; Region: HTH; cl00088 395491011135 2-isopropylmalate synthase; Validated; Region: PRK03739 395491011136 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 395491011137 active site 395491011138 catalytic residues [active] 395491011139 metal binding site [ion binding]; metal-binding site 395491011140 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 395491011141 Benzoate membrane transport protein; Region: BenE; pfam03594 395491011142 benzoate transporter; Region: benE; TIGR00843 395491011143 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 395491011144 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395491011145 oligomer interface [polypeptide binding]; other site 395491011146 active site residues [active] 395491011147 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 395491011148 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395491011149 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395491011150 Cation efflux family; Region: Cation_efflux; cl00316 395491011151 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 395491011152 anthranilate synthase; Provisional; Region: PRK13566 395491011153 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 395491011154 chorismate binding enzyme; Region: Chorismate_bind; cl10555 395491011155 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 395491011156 glutamine binding [chemical binding]; other site 395491011157 catalytic triad [active] 395491011158 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 395491011159 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 395491011160 N-terminal plug; other site 395491011161 ligand-binding site [chemical binding]; other site 395491011162 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 395491011163 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491011164 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491011165 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 395491011166 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 395491011167 Potassium binding sites [ion binding]; other site 395491011168 Cesium cation binding sites [ion binding]; other site 395491011169 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 395491011170 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 395491011171 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 395491011172 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395491011173 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 395491011174 DNA binding residues [nucleotide binding] 395491011175 dimerization interface [polypeptide binding]; other site 395491011176 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491011177 PAS fold; Region: PAS_3; pfam08447 395491011178 putative active site [active] 395491011179 heme pocket [chemical binding]; other site 395491011180 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 395491011181 thymidine kinase; Provisional; Region: PRK04296 395491011182 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 395491011183 NMT1-like family; Region: NMT1_2; cl15260 395491011184 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 395491011185 dimer interface [polypeptide binding]; other site 395491011186 conserved gate region; other site 395491011187 ABC-ATPase subunit interface; other site 395491011188 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 395491011189 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491011190 Walker A/P-loop; other site 395491011191 ATP binding site [chemical binding]; other site 395491011192 Q-loop/lid; other site 395491011193 ABC transporter signature motif; other site 395491011194 Walker B; other site 395491011195 D-loop; other site 395491011196 H-loop/switch region; other site 395491011197 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491011198 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 395491011199 dimerization interface [polypeptide binding]; other site 395491011200 putative DNA binding site [nucleotide binding]; other site 395491011201 putative Zn2+ binding site [ion binding]; other site 395491011202 omega amino acid--pyruvate transaminase; Provisional; Region: PRK13360 395491011203 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 395491011204 inhibitor-cofactor binding pocket; inhibition site 395491011205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491011206 catalytic residue [active] 395491011207 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 395491011208 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395491011209 Zn2+ binding site [ion binding]; other site 395491011210 Mg2+ binding site [ion binding]; other site 395491011211 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 395491011212 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395491011213 dimerization interface [polypeptide binding]; other site 395491011214 ligand binding site [chemical binding]; other site 395491011215 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 395491011216 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 395491011217 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 395491011218 active site 395491011219 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 395491011220 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 395491011221 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 395491011222 active site 395491011223 catalytic site [active] 395491011224 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 395491011225 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 395491011226 peptide binding site [polypeptide binding]; other site 395491011227 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 395491011228 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 395491011229 dimer interface [polypeptide binding]; other site 395491011230 conserved gate region; other site 395491011231 putative PBP binding loops; other site 395491011232 ABC-ATPase subunit interface; other site 395491011233 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395491011234 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 395491011235 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 395491011236 dimer interface [polypeptide binding]; other site 395491011237 conserved gate region; other site 395491011238 putative PBP binding loops; other site 395491011239 ABC-ATPase subunit interface; other site 395491011240 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395491011241 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491011242 Walker A/P-loop; other site 395491011243 ATP binding site [chemical binding]; other site 395491011244 Q-loop/lid; other site 395491011245 ABC transporter signature motif; other site 395491011246 Walker B; other site 395491011247 D-loop; other site 395491011248 H-loop/switch region; other site 395491011249 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491011250 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 395491011251 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491011252 Walker A/P-loop; other site 395491011253 ATP binding site [chemical binding]; other site 395491011254 Q-loop/lid; other site 395491011255 ABC transporter signature motif; other site 395491011256 Walker B; other site 395491011257 D-loop; other site 395491011258 H-loop/switch region; other site 395491011259 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491011260 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 395491011261 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491011262 substrate binding site [chemical binding]; other site 395491011263 ATP binding site [chemical binding]; other site 395491011264 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 395491011265 glutamine synthetase; Region: PLN02284 395491011266 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395491011267 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395491011268 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491011269 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 395491011270 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491011271 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395491011272 Helix-turn-helix domains; Region: HTH; cl00088 395491011273 GTP-binding protein Der; Reviewed; Region: PRK00093 395491011274 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 395491011275 G1 box; other site 395491011276 GTP/Mg2+ binding site [chemical binding]; other site 395491011277 Switch I region; other site 395491011278 G2 box; other site 395491011279 Switch II region; other site 395491011280 G3 box; other site 395491011281 G4 box; other site 395491011282 G5 box; other site 395491011283 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 395491011284 G1 box; other site 395491011285 GTP/Mg2+ binding site [chemical binding]; other site 395491011286 Switch I region; other site 395491011287 G2 box; other site 395491011288 G3 box; other site 395491011289 Switch II region; other site 395491011290 G4 box; other site 395491011291 G5 box; other site 395491011292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 395491011293 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 395491011294 Phospholipid methyltransferase; Region: PEMT; cl00763 395491011295 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 395491011296 NodB motif; other site 395491011297 putative active site [active] 395491011298 putative catalytic site [active] 395491011299 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491011300 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 395491011301 Helix-turn-helix domains; Region: HTH; cl00088 395491011302 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 395491011303 active site 395491011304 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 395491011305 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395491011306 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 395491011307 GIY-YIG motif/motif A; other site 395491011308 putative active site [active] 395491011309 putative metal binding site [ion binding]; other site 395491011310 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 395491011311 putative hydrophobic ligand binding site [chemical binding]; other site 395491011312 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 395491011313 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491011314 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491011315 YCII-related domain; Region: YCII; cl00999 395491011316 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491011317 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491011318 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395491011319 conserved cys residue [active] 395491011320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491011321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491011322 glycerol kinase; Provisional; Region: glpK; PRK00047 395491011323 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 395491011324 N- and C-terminal domain interface [polypeptide binding]; other site 395491011325 active site 395491011326 MgATP binding site [chemical binding]; other site 395491011327 catalytic site [active] 395491011328 metal binding site [ion binding]; metal-binding site 395491011329 glycerol binding site [chemical binding]; other site 395491011330 homotetramer interface [polypeptide binding]; other site 395491011331 homodimer interface [polypeptide binding]; other site 395491011332 FBP binding site [chemical binding]; other site 395491011333 protein IIAGlc interface [polypeptide binding]; other site 395491011334 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 395491011335 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 395491011336 NAD binding site [chemical binding]; other site 395491011337 homotetramer interface [polypeptide binding]; other site 395491011338 homodimer interface [polypeptide binding]; other site 395491011339 substrate binding site [chemical binding]; other site 395491011340 active site 395491011341 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 395491011342 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; cl00159 395491011343 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395491011344 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 395491011345 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 395491011346 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 395491011347 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395491011348 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 395491011349 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 395491011350 XdhC Rossmann domain; Region: XdhC_C; pfam13478 395491011351 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491011352 Helix-turn-helix domains; Region: HTH; cl00088 395491011353 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 395491011354 dimerization interface [polypeptide binding]; other site 395491011355 substrate binding pocket [chemical binding]; other site 395491011356 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 395491011357 catalytic triad [active] 395491011358 active site nucleophile [active] 395491011359 Predicted membrane protein [Function unknown]; Region: COG3748 395491011360 Protein of unknown function (DUF989); Region: DUF989; pfam06181 395491011361 Cytochrome c; Region: Cytochrom_C; cl11414 395491011362 guanine deaminase; Provisional; Region: PRK09228 395491011363 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 395491011364 active site 395491011365 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; cl09108 395491011366 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 395491011367 phosphate binding site [ion binding]; other site 395491011368 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 395491011369 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 395491011370 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 395491011371 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 395491011372 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 395491011373 active site 395491011374 metal binding site [ion binding]; metal-binding site 395491011375 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 395491011376 active site 395491011377 homotetramer interface [polypeptide binding]; other site 395491011378 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 395491011379 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 395491011380 Protein of unknown function DUF86; Region: DUF86; cl01031 395491011381 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 395491011382 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 395491011383 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 395491011384 active site 395491011385 catalytic site [active] 395491011386 tetramer interface [polypeptide binding]; other site 395491011387 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 395491011388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491011389 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395491011390 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; cl16911 395491011391 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491011392 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491011393 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491011394 PAS domain; Region: PAS_9; pfam13426 395491011395 putative active site [active] 395491011396 heme pocket [chemical binding]; other site 395491011397 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491011398 PAS fold; Region: PAS_7; pfam12860 395491011399 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395491011400 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 395491011401 dimer interface [polypeptide binding]; other site 395491011402 phosphorylation site [posttranslational modification] 395491011403 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 395491011404 ATP binding site [chemical binding]; other site 395491011405 Mg2+ binding site [ion binding]; other site 395491011406 G-X-G motif; other site 395491011407 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491011408 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 395491011409 active site 395491011410 phosphorylation site [posttranslational modification] 395491011411 intermolecular recognition site; other site 395491011412 dimerization interface [polypeptide binding]; other site 395491011413 Response regulator receiver domain; Region: Response_reg; pfam00072 395491011414 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 395491011415 active site 395491011416 phosphorylation site [posttranslational modification] 395491011417 intermolecular recognition site; other site 395491011418 dimerization interface [polypeptide binding]; other site 395491011419 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 395491011420 benzoate transport; Region: 2A0115; TIGR00895 395491011421 putative substrate translocation pore; other site 395491011422 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 395491011423 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491011424 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491011425 inhibitor site; inhibition site 395491011426 active site 395491011427 dimer interface [polypeptide binding]; other site 395491011428 catalytic residue [active] 395491011429 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491011430 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491011431 DNA binding site [nucleotide binding] 395491011432 domain linker motif; other site 395491011433 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395491011434 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 395491011435 helicase 45; Provisional; Region: PTZ00424 395491011436 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 395491011437 ATP binding site [chemical binding]; other site 395491011438 Mg++ binding site [ion binding]; other site 395491011439 motif III; other site 395491011440 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 395491011441 nucleotide binding region [chemical binding]; other site 395491011442 ATP-binding site [chemical binding]; other site 395491011443 Uncharacterized conserved protein [Function unknown]; Region: COG2308 395491011444 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 395491011445 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 395491011446 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395491011447 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395491011448 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491011449 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395491011450 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 395491011451 active site 395491011452 phosphorylation site [posttranslational modification] 395491011453 intermolecular recognition site; other site 395491011454 dimerization interface [polypeptide binding]; other site 395491011455 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395491011456 Zn2+ binding site [ion binding]; other site 395491011457 Mg2+ binding site [ion binding]; other site 395491011458 Dehydratase family; Region: ILVD_EDD; cl00340 395491011459 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 395491011460 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491011461 NAD(P) binding site [chemical binding]; other site 395491011462 catalytic residues [active] 395491011463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 395491011464 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395491011465 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 395491011466 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 395491011467 TM-ABC transporter signature motif; other site 395491011468 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 395491011469 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491011470 Walker A/P-loop; other site 395491011471 ATP binding site [chemical binding]; other site 395491011472 Q-loop/lid; other site 395491011473 ABC transporter signature motif; other site 395491011474 Walker B; other site 395491011475 D-loop; other site 395491011476 H-loop/switch region; other site 395491011477 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491011478 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 395491011479 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 395491011480 putative ligand binding site [chemical binding]; other site 395491011481 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 395491011482 Helix-turn-helix domains; Region: HTH; cl00088 395491011483 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 395491011484 putative dimerization interface [polypeptide binding]; other site 395491011485 Hint domain; Region: Hint_2; pfam13403 395491011486 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; cl15780 395491011487 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491011488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491011489 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491011490 Helix-turn-helix domains; Region: HTH; cl00088 395491011491 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491011492 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491011493 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 395491011494 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 395491011495 putative ligand binding site [chemical binding]; other site 395491011496 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 395491011497 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 395491011498 TM-ABC transporter signature motif; other site 395491011499 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491011500 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491011501 Walker A/P-loop; other site 395491011502 ATP binding site [chemical binding]; other site 395491011503 Q-loop/lid; other site 395491011504 ABC transporter signature motif; other site 395491011505 Walker B; other site 395491011506 D-loop; other site 395491011507 H-loop/switch region; other site 395491011508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 395491011509 Peptidase M15; Region: Peptidase_M15_3; cl01194 395491011510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491011511 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395491011512 NAD(P) binding site [chemical binding]; other site 395491011513 active site 395491011514 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395491011515 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 395491011516 active site 395491011517 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395491011518 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 395491011519 active site 395491011520 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 395491011521 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 395491011522 Walker A/P-loop; other site 395491011523 ATP binding site [chemical binding]; other site 395491011524 Q-loop/lid; other site 395491011525 ABC transporter signature motif; other site 395491011526 Walker B; other site 395491011527 D-loop; other site 395491011528 H-loop/switch region; other site 395491011529 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 395491011530 putative carbohydrate binding site [chemical binding]; other site 395491011531 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395491011532 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395491011533 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 395491011534 active site 395491011535 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 395491011536 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 395491011537 S-adenosylmethionine binding site [chemical binding]; other site 395491011538 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 395491011539 putative active site [active] 395491011540 putative metal binding site [ion binding]; other site 395491011541 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395491011542 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 395491011543 active site 395491011544 Uncharacterized conserved protein [Function unknown]; Region: COG3482 395491011545 Uncharacterized conserved protein [Function unknown]; Region: COG1944 395491011546 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 395491011547 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 395491011548 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 395491011549 binding surface 395491011550 TPR motif; other site 395491011551 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 395491011552 non-specific DNA binding site [nucleotide binding]; other site 395491011553 salt bridge; other site 395491011554 sequence-specific DNA binding site [nucleotide binding]; other site 395491011555 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; cl16911 395491011556 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 395491011557 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491011558 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: GT1_like_7; cd05844 395491011559 putative ADP-binding pocket [chemical binding]; other site 395491011560 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 395491011561 trimer interface [polypeptide binding]; other site 395491011562 active site 395491011563 CoA binding site [chemical binding]; other site 395491011564 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 395491011565 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395491011566 MatE; Region: MatE; cl10513 395491011567 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 395491011568 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395491011569 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 395491011570 active site 395491011571 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 395491011572 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 395491011573 active site 395491011574 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 395491011575 active site 395491011576 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl15759 395491011577 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 395491011578 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; cd00229 395491011579 active site 395491011580 catalytic triad [active] 395491011581 oxyanion hole [active] 395491011582 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395491011583 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491011584 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491011585 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 395491011586 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491011587 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 395491011588 Walker A/P-loop; other site 395491011589 ATP binding site [chemical binding]; other site 395491011590 Q-loop/lid; other site 395491011591 ABC transporter signature motif; other site 395491011592 Walker B; other site 395491011593 D-loop; other site 395491011594 H-loop/switch region; other site 395491011595 Right handed beta helix region; Region: Beta_helix; pfam13229 395491011596 Chain length determinant protein; Region: Wzz; cl15801 395491011597 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 395491011598 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; cd01983 395491011599 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395491011600 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 395491011601 SLBB domain; Region: SLBB; pfam10531 395491011602 O-Antigen ligase; Region: Wzy_C; cl04850 395491011603 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491011604 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 395491011605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491011606 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395491011607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491011608 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395491011609 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 395491011610 active site 395491011611 metal binding site [ion binding]; metal-binding site 395491011612 KTSC domain; Region: KTSC; pfam13619 395491011613 Predicted esterase [General function prediction only]; Region: COG0400 395491011614 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491011615 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 395491011616 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491011617 Zn binding site [ion binding]; other site 395491011618 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 395491011619 Zn binding site [ion binding]; other site 395491011620 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 395491011621 ligand binding site [chemical binding]; other site 395491011622 active site 395491011623 UGI interface [polypeptide binding]; other site 395491011624 catalytic site [active] 395491011625 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 395491011626 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 395491011627 active site 395491011628 substrate binding site [chemical binding]; other site 395491011629 metal binding site [ion binding]; metal-binding site 395491011630 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 395491011631 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 395491011632 Substrate binding site; other site 395491011633 Cupin domain; Region: Cupin_2; cl09118 395491011634 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395491011635 putative catalytic site [active] 395491011636 putative metal binding site [ion binding]; other site 395491011637 putative phosphate binding site [ion binding]; other site 395491011638 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491011639 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 395491011640 putative NAD(P) binding site [chemical binding]; other site 395491011641 active site 395491011642 putative substrate binding site [chemical binding]; other site 395491011643 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 395491011644 Helix-turn-helix domains; Region: HTH; cl00088 395491011645 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 395491011646 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 395491011647 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491011648 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491011649 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395491011650 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 395491011651 Walker A/P-loop; other site 395491011652 ATP binding site [chemical binding]; other site 395491011653 Q-loop/lid; other site 395491011654 ABC transporter signature motif; other site 395491011655 Walker B; other site 395491011656 D-loop; other site 395491011657 H-loop/switch region; other site 395491011658 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 395491011659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491011660 Walker A/P-loop; other site 395491011661 ATP binding site [chemical binding]; other site 395491011662 Q-loop/lid; other site 395491011663 ABC transporter signature motif; other site 395491011664 Walker B; other site 395491011665 D-loop; other site 395491011666 H-loop/switch region; other site 395491011667 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 395491011668 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395491011669 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395491011670 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395491011671 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395491011672 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491011673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491011674 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491011675 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395491011676 conserved cys residue [active] 395491011677 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 395491011678 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491011679 Helix-turn-helix domains; Region: HTH; cl00088 395491011680 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 395491011681 apolar tunnel; other site 395491011682 heme binding site [chemical binding]; other site 395491011683 dimerization interface [polypeptide binding]; other site 395491011684 Protein of unknown function (DUF423); Region: DUF423; cl01008 395491011685 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395491011686 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 395491011687 Gram-negative bacterial tonB protein; Region: TonB; cl10048 395491011688 Hemin uptake protein hemP; Region: hemP; cl10043 395491011689 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 395491011690 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 395491011691 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 395491011692 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 395491011693 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 395491011694 putative hemin binding site; other site 395491011695 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 395491011696 ABC-ATPase subunit interface; other site 395491011697 dimer interface [polypeptide binding]; other site 395491011698 putative PBP binding regions; other site 395491011699 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 395491011700 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395491011701 Walker A/P-loop; other site 395491011702 ATP binding site [chemical binding]; other site 395491011703 Q-loop/lid; other site 395491011704 ABC transporter signature motif; other site 395491011705 Walker B; other site 395491011706 D-loop; other site 395491011707 H-loop/switch region; other site 395491011708 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395491011709 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395491011710 RNA polymerase sigma factor; Provisional; Region: PRK12516 395491011711 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491011712 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 395491011713 DNA binding residues [nucleotide binding] 395491011714 two-component response regulator; Provisional; Region: PRK09191 395491011715 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491011716 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 395491011717 active site 395491011718 phosphorylation site [posttranslational modification] 395491011719 intermolecular recognition site; other site 395491011720 dimerization interface [polypeptide binding]; other site 395491011721 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491011722 Histidine kinase; Region: HisKA_2; cl06527 395491011723 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 395491011724 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395491011725 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 395491011726 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 395491011727 homodimer interface [polypeptide binding]; other site 395491011728 active site 395491011729 FMN binding site [chemical binding]; other site 395491011730 substrate binding site [chemical binding]; other site 395491011731 4Fe-4S binding domain; Region: Fer4; cl02805 395491011732 4Fe-4S binding domain; Region: Fer4; cl02805 395491011733 RF-1 domain; Region: RF-1; cl02875 395491011734 hypothetical protein; Reviewed; Region: PRK09588 395491011735 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; cl15780 395491011736 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 395491011737 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395491011738 conserved cys residue [active] 395491011739 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491011740 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 395491011741 active site residue [active] 395491011742 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 395491011743 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491011744 putative NAD(P) binding site [chemical binding]; other site 395491011745 transcriptional regulator; Provisional; Region: PRK10632 395491011746 Helix-turn-helix domains; Region: HTH; cl00088 395491011747 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_6; cd08475 395491011748 putative effector binding pocket; other site 395491011749 putative dimerization interface [polypeptide binding]; other site 395491011750 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 395491011751 heme binding pocket [chemical binding]; other site 395491011752 heme ligand [chemical binding]; other site 395491011753 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 395491011754 GAF domain; Region: GAF; cl15785 395491011755 Phytochrome region; Region: PHY; pfam00360 395491011756 Histidine kinase; Region: HisKA_2; cl06527 395491011757 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 395491011758 active site 395491011759 phosphorylation site [posttranslational modification] 395491011760 intermolecular recognition site; other site 395491011761 dimerization interface [polypeptide binding]; other site 395491011762 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 395491011763 Helix-turn-helix domains; Region: HTH; cl00088 395491011764 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 395491011765 allantoate amidohydrolase; Reviewed; Region: PRK12893 395491011766 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395491011767 active site 395491011768 metal binding site [ion binding]; metal-binding site 395491011769 dimer interface [polypeptide binding]; other site 395491011770 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 395491011771 RNAase interaction site [polypeptide binding]; other site 395491011772 phenylhydantoinase; Validated; Region: PRK08323 395491011773 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 395491011774 tetramer interface [polypeptide binding]; other site 395491011775 active site 395491011776 Cupin domain; Region: Cupin_2; cl09118 395491011777 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395491011778 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491011779 Walker A/P-loop; other site 395491011780 ATP binding site [chemical binding]; other site 395491011781 Q-loop/lid; other site 395491011782 ABC transporter signature motif; other site 395491011783 Walker B; other site 395491011784 D-loop; other site 395491011785 H-loop/switch region; other site 395491011786 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; cl00427 395491011787 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491011788 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; cl00427 395491011789 NMT1/THI5 like; Region: NMT1; pfam09084 395491011790 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; cl15306 395491011791 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491011792 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491011793 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395491011794 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395491011795 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491011796 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 395491011797 ligand binding site [chemical binding]; other site 395491011798 flexible hinge region; other site 395491011799 Helix-turn-helix domains; Region: HTH; cl00088 395491011800 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491011801 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 395491011802 UreF; Region: UreF; pfam01730 395491011803 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 395491011804 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cl03727 395491011805 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 395491011806 dimer interface [polypeptide binding]; other site 395491011807 catalytic residues [active] 395491011808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491011809 metal binding site [ion binding]; metal-binding site 395491011810 active site 395491011811 I-site; other site 395491011812 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 395491011813 urease subunit alpha; Reviewed; Region: ureC; PRK13207 395491011814 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 395491011815 subunit interactions [polypeptide binding]; other site 395491011816 active site 395491011817 flap region; other site 395491011818 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395491011819 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 395491011820 gamma-beta subunit interface [polypeptide binding]; other site 395491011821 alpha-beta subunit interface [polypeptide binding]; other site 395491011822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 395491011823 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 395491011824 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 395491011825 alpha-gamma subunit interface [polypeptide binding]; other site 395491011826 beta-gamma subunit interface [polypeptide binding]; other site 395491011827 UreD urease accessory protein; Region: UreD; cl00530 395491011828 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 395491011829 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395491011830 Walker A/P-loop; other site 395491011831 ATP binding site [chemical binding]; other site 395491011832 Q-loop/lid; other site 395491011833 ABC transporter signature motif; other site 395491011834 Walker B; other site 395491011835 D-loop; other site 395491011836 H-loop/switch region; other site 395491011837 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 395491011838 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395491011839 Walker A/P-loop; other site 395491011840 ATP binding site [chemical binding]; other site 395491011841 Q-loop/lid; other site 395491011842 ABC transporter signature motif; other site 395491011843 Walker B; other site 395491011844 D-loop; other site 395491011845 H-loop/switch region; other site 395491011846 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395491011847 TM-ABC transporter signature motif; other site 395491011848 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395491011849 TM-ABC transporter signature motif; other site 395491011850 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395491011851 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 395491011852 putative ligand binding site [chemical binding]; other site 395491011853 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 395491011854 active site 395491011855 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 395491011856 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 395491011857 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395491011858 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 395491011859 dimer interface [polypeptide binding]; other site 395491011860 phosphorylation site [posttranslational modification] 395491011861 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 395491011862 ATP binding site [chemical binding]; other site 395491011863 Mg2+ binding site [ion binding]; other site 395491011864 G-X-G motif; other site 395491011865 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491011866 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 395491011867 active site 395491011868 phosphorylation site [posttranslational modification] 395491011869 intermolecular recognition site; other site 395491011870 dimerization interface [polypeptide binding]; other site 395491011871 Response regulator receiver domain; Region: Response_reg; pfam00072 395491011872 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 395491011873 active site 395491011874 phosphorylation site [posttranslational modification] 395491011875 intermolecular recognition site; other site 395491011876 dimerization interface [polypeptide binding]; other site 395491011877 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 395491011878 DNA binding residues [nucleotide binding] 395491011879 dimerization interface [polypeptide binding]; other site 395491011880 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395491011881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491011882 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 395491011883 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395491011884 dimerization interface [polypeptide binding]; other site 395491011885 ligand binding site [chemical binding]; other site 395491011886 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395491011887 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395491011888 Walker A/P-loop; other site 395491011889 ATP binding site [chemical binding]; other site 395491011890 Q-loop/lid; other site 395491011891 ABC transporter signature motif; other site 395491011892 Walker B; other site 395491011893 D-loop; other site 395491011894 H-loop/switch region; other site 395491011895 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491011896 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395491011897 Walker A/P-loop; other site 395491011898 ATP binding site [chemical binding]; other site 395491011899 Q-loop/lid; other site 395491011900 ABC transporter signature motif; other site 395491011901 Walker B; other site 395491011902 D-loop; other site 395491011903 H-loop/switch region; other site 395491011904 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 395491011905 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 395491011906 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395491011907 TM-ABC transporter signature motif; other site 395491011908 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395491011909 TM-ABC transporter signature motif; other site 395491011910 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 cysteine...; Region: CysQ; cd01638 395491011911 active site 395491011912 Bacterial sugar transferase; Region: Bac_transf; cl00939 395491011913 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395491011914 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 395491011915 Paraquat-inducible protein A; Region: PqiA; pfam04403 395491011916 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491011917 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491011918 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 395491011919 active site 395491011920 phosphorylation site [posttranslational modification] 395491011921 intermolecular recognition site; other site 395491011922 dimerization interface [polypeptide binding]; other site 395491011923 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 395491011924 DNA binding site [nucleotide binding] 395491011925 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 395491011926 Response regulator receiver domain; Region: Response_reg; pfam00072 395491011927 active site 395491011928 phosphorylation site [posttranslational modification] 395491011929 intermolecular recognition site; other site 395491011930 dimerization interface [polypeptide binding]; other site 395491011931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 395491011932 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 395491011933 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395491011934 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395491011935 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395491011936 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 395491011937 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 395491011938 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 395491011939 RNA binding surface [nucleotide binding]; other site 395491011940 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395491011941 active site 395491011942 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 395491011943 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395491011944 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491011945 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 395491011946 DNA binding residues [nucleotide binding] 395491011947 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 395491011948 cytoskeletal protein RodZ; Provisional; Region: PRK10856 395491011949 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 395491011950 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 395491011951 GDP-binding site [chemical binding]; other site 395491011952 ACT binding site; other site 395491011953 IMP binding site; other site 395491011954 EamA-like transporter family; Region: EamA; cl01037 395491011955 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491011956 EamA-like transporter family; Region: EamA; cl01037 395491011957 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491011958 Coenzyme A binding pocket [chemical binding]; other site 395491011959 putative diguanylate cyclase; Provisional; Region: PRK09776 395491011960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491011961 metal binding site [ion binding]; metal-binding site 395491011962 active site 395491011963 I-site; other site 395491011964 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491011965 Dehydratase family; Region: ILVD_EDD; cl00340 395491011966 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395491011967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491011968 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 395491011969 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491011970 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491011971 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491011972 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395491011973 transcriptional regulator; Provisional; Region: PRK10632 395491011974 Helix-turn-helix domains; Region: HTH; cl00088 395491011975 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_3; cd08472 395491011976 putative effector binding pocket; other site 395491011977 putative dimerization interface [polypeptide binding]; other site 395491011978 short chain dehydrogenase; Provisional; Region: PRK12937 395491011979 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395491011980 NADP binding site [chemical binding]; other site 395491011981 active site 395491011982 steroid binding site; other site 395491011983 short chain dehydrogenase; Provisional; Region: PRK12937 395491011984 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 395491011985 NADP binding site [chemical binding]; other site 395491011986 homodimer interface [polypeptide binding]; other site 395491011987 active site 395491011988 substrate binding site [chemical binding]; other site 395491011989 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491011990 Helix-turn-helix domains; Region: HTH; cl00088 395491011991 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_3; cd08472 395491011992 putative effector binding pocket; other site 395491011993 putative dimerization interface [polypeptide binding]; other site 395491011994 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 395491011995 active site 395491011996 DNA binding site [nucleotide binding] 395491011997 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 395491011998 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395491011999 putative substrate translocation pore; other site 395491012000 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 395491012001 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395491012002 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491012003 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491012004 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491012005 Helix-turn-helix domains; Region: HTH; cl00088 395491012006 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 395491012007 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491012008 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491012009 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491012010 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 395491012011 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395491012012 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 395491012013 active site 395491012014 metal binding site [ion binding]; metal-binding site 395491012015 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 395491012016 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395491012017 active site 395491012018 Predicted transcriptional regulator [Transcription]; Region: COG1959 395491012019 Helix-turn-helix domains; Region: HTH; cl00088 395491012020 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395491012021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012022 NAD(P) binding site [chemical binding]; other site 395491012023 active site 395491012024 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 395491012025 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 395491012026 DNA interaction; other site 395491012027 Metal-binding active site; metal-binding site 395491012028 AP (apurinic/apyrimidinic) site pocket; other site 395491012029 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491012030 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491012031 DNA binding site [nucleotide binding] 395491012032 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491012033 ligand binding site [chemical binding]; other site 395491012034 dimerization interface [polypeptide binding]; other site 395491012035 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 395491012036 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491012037 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_4; cd08500 395491012038 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 395491012039 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395491012040 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491012041 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 395491012042 dimer interface [polypeptide binding]; other site 395491012043 conserved gate region; other site 395491012044 putative PBP binding loops; other site 395491012045 ABC-ATPase subunit interface; other site 395491012046 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395491012047 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 395491012048 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 395491012049 dimer interface [polypeptide binding]; other site 395491012050 conserved gate region; other site 395491012051 putative PBP binding loops; other site 395491012052 ABC-ATPase subunit interface; other site 395491012053 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395491012054 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491012055 Walker A/P-loop; other site 395491012056 ATP binding site [chemical binding]; other site 395491012057 Q-loop/lid; other site 395491012058 ABC transporter signature motif; other site 395491012059 Walker B; other site 395491012060 D-loop; other site 395491012061 H-loop/switch region; other site 395491012062 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491012063 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491012064 Walker A/P-loop; other site 395491012065 ATP binding site [chemical binding]; other site 395491012066 Q-loop/lid; other site 395491012067 ABC transporter signature motif; other site 395491012068 Walker B; other site 395491012069 D-loop; other site 395491012070 H-loop/switch region; other site 395491012071 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491012072 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 395491012073 tartronate semialdehyde reductase; Provisional; Region: PRK15059 395491012074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012075 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 395491012076 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 395491012077 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395491012078 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491012079 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491012080 Walker A/P-loop; other site 395491012081 ATP binding site [chemical binding]; other site 395491012082 Q-loop/lid; other site 395491012083 ABC transporter signature motif; other site 395491012084 Walker B; other site 395491012085 D-loop; other site 395491012086 H-loop/switch region; other site 395491012087 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491012088 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 395491012089 Walker A/P-loop; other site 395491012090 ATP binding site [chemical binding]; other site 395491012091 Q-loop/lid; other site 395491012092 ABC transporter signature motif; other site 395491012093 Walker B; other site 395491012094 D-loop; other site 395491012095 H-loop/switch region; other site 395491012096 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395491012097 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 395491012098 dimer interface [polypeptide binding]; other site 395491012099 conserved gate region; other site 395491012100 ABC-ATPase subunit interface; other site 395491012101 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491012102 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 395491012103 putative PBP binding loops; other site 395491012104 dimer interface [polypeptide binding]; other site 395491012105 ABC-ATPase subunit interface; other site 395491012106 Cupin domain; Region: Cupin_2; cl09118 395491012107 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491012108 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491012109 Walker A/P-loop; other site 395491012110 ATP binding site [chemical binding]; other site 395491012111 Q-loop/lid; other site 395491012112 ABC transporter signature motif; other site 395491012113 Walker B; other site 395491012114 D-loop; other site 395491012115 H-loop/switch region; other site 395491012116 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491012117 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 395491012118 dimer interface [polypeptide binding]; other site 395491012119 conserved gate region; other site 395491012120 putative PBP binding loops; other site 395491012121 ABC-ATPase subunit interface; other site 395491012122 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; cl00427 395491012123 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491012124 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 395491012125 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 395491012126 non-specific DNA interactions [nucleotide binding]; other site 395491012127 DNA binding site [nucleotide binding] 395491012128 sequence specific DNA binding site [nucleotide binding]; other site 395491012129 putative cAMP binding site [chemical binding]; other site 395491012130 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491012131 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491012132 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491012133 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491012134 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 395491012135 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; cl00427 395491012136 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 395491012137 dimer interface [polypeptide binding]; other site 395491012138 conserved gate region; other site 395491012139 putative PBP binding loops; other site 395491012140 ABC-ATPase subunit interface; other site 395491012141 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 395491012142 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 395491012143 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491012144 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 395491012145 substrate binding site [chemical binding]; other site 395491012146 ATP binding site [chemical binding]; other site 395491012147 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491012148 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491012149 Walker A/P-loop; other site 395491012150 ATP binding site [chemical binding]; other site 395491012151 Q-loop/lid; other site 395491012152 ABC transporter signature motif; other site 395491012153 Walker B; other site 395491012154 D-loop; other site 395491012155 H-loop/switch region; other site 395491012156 TOBE domain; Region: TOBE_2; cl01440 395491012157 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 395491012158 active site 395491012159 catalytic residues [active] 395491012160 colanic acid exporter; Provisional; Region: PRK10459 395491012161 MatE; Region: MatE; cl10513 395491012162 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 395491012163 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491012164 putative ADP-binding pocket [chemical binding]; other site 395491012165 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395491012166 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491012167 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 395491012168 ligand binding site [chemical binding]; other site 395491012169 flexible hinge region; other site 395491012170 Helix-turn-helix domains; Region: HTH; cl00088 395491012171 Bacterial sugar transferase; Region: Bac_transf; cl00939 395491012172 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395491012173 Chain length determinant protein; Region: Wzz; cl15801 395491012174 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 395491012175 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491012176 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395491012177 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 395491012178 active site 395491012179 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 395491012180 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395491012181 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 395491012182 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395491012183 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 395491012184 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 395491012185 active site 395491012186 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 395491012187 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 395491012188 ligand binding site [chemical binding]; other site 395491012189 flexible hinge region; other site 395491012190 Helix-turn-helix domains; Region: HTH; cl00088 395491012191 Bacterial sugar transferase; Region: Bac_transf; cl00939 395491012192 OpgC protein; Region: OpgC_C; cl00792 395491012193 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395491012194 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 395491012195 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 395491012196 Trp docking motif [polypeptide binding]; other site 395491012197 putative active site [active] 395491012198 cyclase homology domain; Region: CHD; cd07302 395491012199 nucleotidyl binding site; other site 395491012200 metal binding site [ion binding]; metal-binding site 395491012201 dimer interface [polypeptide binding]; other site 395491012202 TolB amino-terminal domain; Region: TolB_N; cl00639 395491012203 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 395491012204 TPR motif; other site 395491012205 binding surface 395491012206 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 395491012207 binding surface 395491012208 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395491012209 TPR motif; other site 395491012210 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395491012211 cyclase homology domain; Region: CHD; cd07302 395491012212 nucleotidyl binding site; other site 395491012213 metal binding site [ion binding]; metal-binding site 395491012214 dimer interface [polypeptide binding]; other site 395491012215 TolB amino-terminal domain; Region: TolB_N; cl00639 395491012216 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 395491012217 TPR motif; other site 395491012218 binding surface 395491012219 TPR repeat; Region: TPR_11; pfam13414 395491012220 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 395491012221 binding surface 395491012222 TPR motif; other site 395491012223 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395491012224 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 395491012225 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395491012226 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491012227 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491012228 DNA-binding site [nucleotide binding]; DNA binding site 395491012229 FCD domain; Region: FCD; cl11656 395491012230 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 395491012231 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491012232 ligand binding site [chemical binding]; other site 395491012233 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491012234 extended (e) SDRs; Region: SDR_e; cd08946 395491012235 NAD(P) binding site [chemical binding]; other site 395491012236 active site 395491012237 substrate binding site [chemical binding]; other site 395491012238 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491012239 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491012240 Walker A/P-loop; other site 395491012241 ATP binding site [chemical binding]; other site 395491012242 Q-loop/lid; other site 395491012243 ABC transporter signature motif; other site 395491012244 Walker B; other site 395491012245 D-loop; other site 395491012246 H-loop/switch region; other site 395491012247 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 395491012248 TM-ABC transporter signature motif; other site 395491012249 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491012250 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491012251 Walker A/P-loop; other site 395491012252 ATP binding site [chemical binding]; other site 395491012253 Q-loop/lid; other site 395491012254 ABC transporter signature motif; other site 395491012255 Walker B; other site 395491012256 D-loop; other site 395491012257 H-loop/switch region; other site 395491012258 TOBE domain; Region: TOBE_2; cl01440 395491012259 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491012260 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 395491012261 dimer interface [polypeptide binding]; other site 395491012262 conserved gate region; other site 395491012263 putative PBP binding loops; other site 395491012264 ABC-ATPase subunit interface; other site 395491012265 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 395491012266 dimer interface [polypeptide binding]; other site 395491012267 putative PBP binding loops; other site 395491012268 ABC-ATPase subunit interface; other site 395491012269 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491012270 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 395491012271 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491012272 classical (c) SDRs; Region: SDR_c; cd05233 395491012273 NAD(P) binding site [chemical binding]; other site 395491012274 active site 395491012275 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491012276 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491012277 DNA-binding site [nucleotide binding]; DNA binding site 395491012278 FCD domain; Region: FCD; cl11656 395491012279 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395491012280 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395491012281 active site pocket [active] 395491012282 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 395491012283 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491012284 classical (c) SDRs; Region: SDR_c; cd05233 395491012285 NAD(P) binding site [chemical binding]; other site 395491012286 active site 395491012287 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 395491012288 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395491012289 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 395491012290 RNA binding surface [nucleotide binding]; other site 395491012291 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 395491012292 active site 395491012293 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395491012294 active site 395491012295 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; cl15357 395491012296 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; cl15357 395491012297 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; cl15357 395491012298 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 395491012299 ATP binding site [chemical binding]; other site 395491012300 active site 395491012301 substrate binding site [chemical binding]; other site 395491012302 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491012303 Helix-turn-helix domains; Region: HTH; cl00088 395491012304 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 395491012305 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491012306 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491012307 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395491012308 Protein export membrane protein; Region: SecD_SecF; cl14618 395491012309 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395491012310 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491012311 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491012312 DNA binding site [nucleotide binding] 395491012313 domain linker motif; other site 395491012314 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491012315 dimerization interface [polypeptide binding]; other site 395491012316 ligand binding site [chemical binding]; other site 395491012317 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 395491012318 active site 395491012319 tetramer interface [polypeptide binding]; other site 395491012320 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 395491012321 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 395491012322 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 395491012323 active site 395491012324 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 395491012325 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 395491012326 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 395491012327 metal binding site [ion binding]; metal-binding site 395491012328 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 395491012329 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 395491012330 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 395491012331 ABC-ATPase subunit interface; other site 395491012332 dimer interface [polypeptide binding]; other site 395491012333 putative PBP binding regions; other site 395491012334 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 395491012335 ABC-ATPase subunit interface; other site 395491012336 dimer interface [polypeptide binding]; other site 395491012337 putative PBP binding regions; other site 395491012338 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395491012339 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395491012340 metal binding site [ion binding]; metal-binding site 395491012341 putative dimer interface [polypeptide binding]; other site 395491012342 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 395491012343 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 395491012344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 395491012345 NMT1-like family; Region: NMT1_2; cl15260 395491012346 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395491012347 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 395491012348 active site 395491012349 phosphorylation site [posttranslational modification] 395491012350 intermolecular recognition site; other site 395491012351 dimerization interface [polypeptide binding]; other site 395491012352 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 395491012353 Walker A motif; other site 395491012354 ATP binding site [chemical binding]; other site 395491012355 Walker B motif; other site 395491012356 arginine finger; other site 395491012357 Helix-turn-helix domains; Region: HTH; cl00088 395491012358 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395491012359 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 395491012360 dimer interface [polypeptide binding]; other site 395491012361 phosphorylation site [posttranslational modification] 395491012362 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 395491012363 ATP binding site [chemical binding]; other site 395491012364 Mg2+ binding site [ion binding]; other site 395491012365 G-X-G motif; other site 395491012366 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 395491012367 Moco binding site; other site 395491012368 metal coordination site [ion binding]; other site 395491012369 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 395491012370 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 395491012371 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 395491012372 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491012373 metal binding site [ion binding]; metal-binding site 395491012374 active site 395491012375 I-site; other site 395491012376 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491012377 Phosphate transporter family; Region: PHO4; cl00396 395491012378 Phosphate transporter family; Region: PHO4; cl00396 395491012379 Acetokinase family; Region: Acetate_kinase; cl01029 395491012380 acetate kinase; Region: ackA; TIGR00016 395491012381 putative phosphoketolase; Provisional; Region: PRK05261 395491012382 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 395491012383 TPP-binding site; other site 395491012384 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 395491012385 XFP C-terminal domain; Region: XFP_C; pfam09363 395491012386 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 395491012387 Cupin domain; Region: Cupin_2; cl09118 395491012388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491012389 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 395491012390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012391 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395491012392 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395491012393 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395491012394 TM-ABC transporter signature motif; other site 395491012395 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395491012396 TM-ABC transporter signature motif; other site 395491012397 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491012398 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395491012399 Walker A/P-loop; other site 395491012400 ATP binding site [chemical binding]; other site 395491012401 Q-loop/lid; other site 395491012402 ABC transporter signature motif; other site 395491012403 Walker B; other site 395491012404 D-loop; other site 395491012405 H-loop/switch region; other site 395491012406 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395491012407 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395491012408 Walker A/P-loop; other site 395491012409 ATP binding site [chemical binding]; other site 395491012410 Q-loop/lid; other site 395491012411 ABC transporter signature motif; other site 395491012412 Walker B; other site 395491012413 D-loop; other site 395491012414 H-loop/switch region; other site 395491012415 VCBS repeat; Region: VCBS_repeat; TIGR01965 395491012416 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 395491012417 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 395491012418 Ligand Binding Site [chemical binding]; other site 395491012419 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491012420 PAS domain; Region: PAS_9; pfam13426 395491012421 PAS fold; Region: PAS_4; pfam08448 395491012422 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491012423 putative active site [active] 395491012424 heme pocket [chemical binding]; other site 395491012425 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491012426 metal binding site [ion binding]; metal-binding site 395491012427 active site 395491012428 I-site; other site 395491012429 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491012430 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 395491012431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012432 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 395491012433 putative L-serine binding site [chemical binding]; other site 395491012434 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; cd01494 395491012435 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491012436 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 395491012437 catalytic residue [active] 395491012438 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; cl01155 395491012439 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 395491012440 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 395491012441 active site 395491012442 substrate binding site [chemical binding]; other site 395491012443 metal binding site [ion binding]; metal-binding site 395491012444 FtsH Extracellular; Region: FtsH_ext; pfam06480 395491012445 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 395491012446 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 395491012447 Walker A motif; other site 395491012448 ATP binding site [chemical binding]; other site 395491012449 Walker B motif; other site 395491012450 arginine finger; other site 395491012451 Peptidase family M41; Region: Peptidase_M41; pfam01434 395491012452 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 395491012453 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 395491012454 Tetratricopeptide repeat; Region: TPR_6; pfam13174 395491012455 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395491012456 ligand binding site [chemical binding]; other site 395491012457 translocation protein TolB; Provisional; Region: tolB; PRK05137 395491012458 TolB amino-terminal domain; Region: TolB_N; cl00639 395491012459 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395491012460 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395491012461 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395491012462 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395491012463 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 395491012464 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395491012465 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 395491012466 active site 395491012467 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 395491012468 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491012469 NAD binding site [chemical binding]; other site 395491012470 substrate binding site [chemical binding]; other site 395491012471 active site 395491012472 Glycogenin belongs the GT 8 family and initiates the biosynthesis of glycogen; Region: GT8_Glycogenin; cd02537 395491012473 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 395491012474 substrate binding site; other site 395491012475 Manganese binding site; other site 395491012476 dimer interface; other site 395491012477 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491012478 extended (e) SDRs; Region: SDR_e; cd08946 395491012479 NAD(P) binding site [chemical binding]; other site 395491012480 active site 395491012481 substrate binding site [chemical binding]; other site 395491012482 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 395491012483 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 395491012484 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395491012485 putative active site [active] 395491012486 metal binding site [ion binding]; metal-binding site 395491012487 homodimer binding site [polypeptide binding]; other site 395491012488 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491012489 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 395491012490 Transcriptional regulator; Region: Transcrip_reg; cl00361 395491012491 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395491012492 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 395491012493 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 395491012494 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; cl01054 395491012495 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 395491012496 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491012497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491012498 dimer interface [polypeptide binding]; other site 395491012499 putative CheW interface [polypeptide binding]; other site 395491012500 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 includes...; Region: RuvC_resolvase; cd00529 395491012501 active site 395491012502 putative DNA-binding cleft [nucleotide binding]; other site 395491012503 dimer interface [polypeptide binding]; other site 395491012504 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 395491012505 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-like; cd09875 395491012506 putative active site [active] 395491012507 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 395491012508 RuvA N terminal domain; Region: RuvA_N; pfam01330 395491012509 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 395491012510 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 395491012511 Walker A motif; other site 395491012512 ATP binding site [chemical binding]; other site 395491012513 Walker B motif; other site 395491012514 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 395491012515 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 395491012516 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 395491012517 putative active site [active] 395491012518 putative metal binding site [ion binding]; other site 395491012519 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_29; cd04688 395491012520 nudix motif; other site 395491012521 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 395491012522 DinB superfamily; Region: DinB_2; pfam12867 395491012523 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 395491012524 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 395491012525 Predicted integral membrane protein [Function unknown]; Region: COG0392 395491012526 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 395491012527 Uncharacterized conserved protein [Function unknown]; Region: COG2898 395491012528 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 395491012529 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 395491012530 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395491012531 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 395491012532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012533 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395491012534 hydrophobic ligand binding site; other site 395491012535 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 395491012536 dimerization interface [polypeptide binding]; other site 395491012537 putative DNA binding site [nucleotide binding]; other site 395491012538 putative Zn2+ binding site [ion binding]; other site 395491012539 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 395491012540 non-specific DNA binding site [nucleotide binding]; other site 395491012541 salt bridge; other site 395491012542 sequence-specific DNA binding site [nucleotide binding]; other site 395491012543 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491012544 extended (e) SDRs; Region: SDR_e; cd08946 395491012545 NAD(P) binding site [chemical binding]; other site 395491012546 active site 395491012547 substrate binding site [chemical binding]; other site 395491012548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 395491012550 Cell division protein ZapA; Region: ZapA; cl01146 395491012551 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 395491012552 transketolase; Reviewed; Region: PRK05899 395491012553 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 395491012554 TPP-binding site [chemical binding]; other site 395491012555 dimer interface [polypeptide binding]; other site 395491012556 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 395491012557 PYR/PP interface [polypeptide binding]; other site 395491012558 dimer interface [polypeptide binding]; other site 395491012559 TPP binding site [chemical binding]; other site 395491012560 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395491012561 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012562 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 395491012563 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 395491012564 potassium/proton antiporter; Reviewed; Region: PRK05326 395491012565 Transporter associated domain; Region: CorC_HlyC; cl08393 395491012566 Phosphoglycerate kinase; Region: PGK; pfam00162 395491012567 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 395491012568 substrate binding site [chemical binding]; other site 395491012569 hinge regions; other site 395491012570 ADP binding site [chemical binding]; other site 395491012571 catalytic site [active] 395491012572 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 395491012573 active site 395491012574 intersubunit interface [polypeptide binding]; other site 395491012575 catalytic residue [active] 395491012576 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 395491012577 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 395491012578 putative MFS family transporter protein; Provisional; Region: PRK03633 395491012579 putative substrate translocation pore; other site 395491012580 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 395491012581 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 395491012582 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 395491012583 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 395491012584 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491012585 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 395491012586 Walker A/P-loop; other site 395491012587 ATP binding site [chemical binding]; other site 395491012588 Q-loop/lid; other site 395491012589 ABC transporter signature motif; other site 395491012590 Walker B; other site 395491012591 D-loop; other site 395491012592 H-loop/switch region; other site 395491012593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 395491012594 NMT1-like family; Region: NMT1_2; cl15260 395491012595 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 395491012596 YCII-related domain; Region: YCII; cl00999 395491012597 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 395491012598 hypothetical protein; Validated; Region: PRK09039 395491012599 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395491012600 ligand binding site [chemical binding]; other site 395491012601 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 395491012602 active site 395491012603 dimerization interface [polypeptide binding]; other site 395491012604 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491012605 Helix-turn-helix domains; Region: HTH; cl00088 395491012606 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491012607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012608 NAD(P) binding site [chemical binding]; other site 395491012609 active site 395491012610 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395491012611 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 395491012612 active site 395491012613 phosphorylation site [posttranslational modification] 395491012614 intermolecular recognition site; other site 395491012615 CheB methylesterase; Region: CheB_methylest; pfam01339 395491012616 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395491012617 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 395491012618 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; cl16911 395491012619 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395491012620 putative CheA interaction surface; other site 395491012621 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 395491012622 dimerization interface [polypeptide binding]; other site 395491012623 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491012624 dimer interface [polypeptide binding]; other site 395491012625 putative CheW interface [polypeptide binding]; other site 395491012626 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395491012627 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 395491012628 dimerization interface [polypeptide binding]; other site 395491012629 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491012630 dimer interface [polypeptide binding]; other site 395491012631 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395491012632 putative CheW interface [polypeptide binding]; other site 395491012633 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395491012634 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 395491012635 dimerization interface [polypeptide binding]; other site 395491012636 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491012637 dimer interface [polypeptide binding]; other site 395491012638 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395491012639 putative CheW interface [polypeptide binding]; other site 395491012640 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395491012641 putative CheA interaction surface; other site 395491012642 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; cd00088 395491012643 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395491012644 putative binding surface; other site 395491012645 active site 395491012646 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395491012647 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 395491012648 ATP binding site [chemical binding]; other site 395491012649 Mg2+ binding site [ion binding]; other site 395491012650 G-X-G motif; other site 395491012651 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 395491012652 Response regulator receiver domain; Region: Response_reg; pfam00072 395491012653 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 395491012654 active site 395491012655 phosphorylation site [posttranslational modification] 395491012656 intermolecular recognition site; other site 395491012657 dimerization interface [polypeptide binding]; other site 395491012658 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 395491012659 methyl-accepting protein IV; Provisional; Region: PRK09793 395491012660 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395491012661 Sel1 repeat; Region: Sel1; cl02723 395491012662 Sel1 repeat; Region: Sel1; cl02723 395491012663 Sel1 repeat; Region: Sel1; cl02723 395491012664 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 395491012665 thiamine phosphate binding site [chemical binding]; other site 395491012666 active site 395491012667 pyrophosphate binding site [ion binding]; other site 395491012668 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395491012669 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395491012670 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 395491012671 dimerization interface [polypeptide binding]; other site 395491012672 putative DNA binding site [nucleotide binding]; other site 395491012673 putative Zn2+ binding site [ion binding]; other site 395491012674 Protein of unknown function (DUF465); Region: DUF465; cl01070 395491012675 Protein of unknown function (DUF465); Region: DUF465; cl01070 395491012676 AIR carboxylase; Region: AIRC; cl00310 395491012677 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 395491012678 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491012679 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 395491012680 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 395491012681 binding surface 395491012682 TPR repeat; Region: TPR_11; pfam13414 395491012683 TPR motif; other site 395491012684 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491012685 short chain dehydrogenase; Provisional; Region: PRK07041 395491012686 classical (c) SDRs; Region: SDR_c; cd05233 395491012687 NAD(P) binding site [chemical binding]; other site 395491012688 active site 395491012689 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491012690 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 395491012691 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395491012692 hypothetical protein; Provisional; Region: PRK06815 395491012693 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 395491012694 tetramer interface [polypeptide binding]; other site 395491012695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491012696 catalytic residue [active] 395491012697 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395491012698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012699 NAD(P) binding site [chemical binding]; other site 395491012700 active site 395491012701 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491012702 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395491012703 conserved cys residue [active] 395491012704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491012705 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395491012706 Helix-turn-helix domains; Region: HTH; cl00088 395491012707 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 395491012708 dimerization interface [polypeptide binding]; other site 395491012709 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 395491012710 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 395491012711 Cupin domain; Region: Cupin_2; cl09118 395491012712 LysE type translocator; Region: LysE; cl00565 395491012713 pyruvate kinase; Provisional; Region: PRK06247 395491012714 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; cl09155 395491012715 domain interfaces; other site 395491012716 active site 395491012717 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 395491012718 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395491012719 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 395491012720 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 395491012721 Peptidase M15; Region: Peptidase_M15_3; cl01194 395491012722 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395491012723 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 395491012724 active site 395491012725 phosphorylation site [posttranslational modification] 395491012726 intermolecular recognition site; other site 395491012727 dimerization interface [polypeptide binding]; other site 395491012728 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 395491012729 Walker A motif; other site 395491012730 ATP binding site [chemical binding]; other site 395491012731 Walker B motif; other site 395491012732 arginine finger; other site 395491012733 Helix-turn-helix domains; Region: HTH; cl00088 395491012734 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 395491012735 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 395491012736 active site 395491012737 Zn binding site [ion binding]; other site 395491012738 aminodeoxychorismate synthase; Provisional; Region: PRK07508 395491012739 chorismate binding enzyme; Region: Chorismate_bind; cl10555 395491012740 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 395491012741 homodimer interface [polypeptide binding]; other site 395491012742 substrate-cofactor binding pocket; other site 395491012743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491012744 catalytic residue [active] 395491012745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 395491012746 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 395491012747 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 395491012748 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 395491012749 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 395491012750 active site 395491012751 metal binding site [ion binding]; metal-binding site 395491012752 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 395491012753 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 395491012754 ferrochelatase; Reviewed; Region: hemH; PRK00035 395491012755 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 395491012756 C-terminal domain interface [polypeptide binding]; other site 395491012757 active site 395491012758 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 395491012759 active site 395491012760 N-terminal domain interface [polypeptide binding]; other site 395491012761 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 395491012762 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 395491012763 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 395491012764 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 395491012765 putative active site [active] 395491012766 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 395491012767 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; cl01155 395491012768 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 395491012769 active site 395491012770 tetramer interface; other site 395491012771 Transglycosylase SLT domain; Region: SLT_2; pfam13406 395491012772 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 395491012773 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491012774 SGNH_peri2; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri2; cd01829 395491012775 active site 395491012776 catalytic triad [active] 395491012777 oxyanion hole [active] 395491012778 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 395491012779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012780 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 395491012781 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 395491012782 active site 395491012783 dimer interface [polypeptide binding]; other site 395491012784 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 395491012785 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 395491012786 active site 395491012787 FMN binding site [chemical binding]; other site 395491012788 substrate binding site [chemical binding]; other site 395491012789 3Fe-4S cluster binding site [ion binding]; other site 395491012790 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 395491012791 domain interface; other site 395491012792 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 395491012793 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 395491012794 tetramer interface [polypeptide binding]; other site 395491012795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491012796 catalytic residue [active] 395491012797 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491012798 Helix-turn-helix domains; Region: HTH; cl00088 395491012799 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 395491012800 dimerization interface [polypeptide binding]; other site 395491012801 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 395491012802 Membrane transport protein; Region: Mem_trans; cl09117 395491012803 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395491012804 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 395491012805 putative dimer interface [polypeptide binding]; other site 395491012806 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 395491012807 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491012808 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491012809 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491012810 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 395491012811 active site 395491012812 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395491012813 Response regulator receiver domain; Region: Response_reg; pfam00072 395491012814 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 395491012815 active site 395491012816 phosphorylation site [posttranslational modification] 395491012817 intermolecular recognition site; other site 395491012818 dimerization interface [polypeptide binding]; other site 395491012819 MgtC family; Region: MgtC; pfam02308 395491012820 Integral membrane protein TerC family; Region: TerC; cl10468 395491012821 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 395491012822 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 395491012823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 395491012824 NMT1-like family; Region: NMT1_2; cl15260 395491012825 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 395491012826 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491012827 Ornithine carbamoyltransferase [Amino acid transport and metabolism]; Region: ArgF; COG0078 395491012828 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395491012829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012830 cyclase homology domain; Region: CHD; cd07302 395491012831 nucleotidyl binding site; other site 395491012832 metal binding site [ion binding]; metal-binding site 395491012833 dimer interface [polypeptide binding]; other site 395491012834 TolB amino-terminal domain; Region: TolB_N; cl00639 395491012835 TPR repeat; Region: TPR_11; pfam13414 395491012836 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 395491012837 TPR motif; other site 395491012838 binding surface 395491012839 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 395491012840 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 395491012841 active site 395491012842 phosphorylation site [posttranslational modification] 395491012843 intermolecular recognition site; other site 395491012844 dimerization interface [polypeptide binding]; other site 395491012845 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 395491012846 DNA binding site [nucleotide binding] 395491012847 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395491012848 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395491012849 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 395491012850 dimer interface [polypeptide binding]; other site 395491012851 phosphorylation site [posttranslational modification] 395491012852 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 395491012853 ATP binding site [chemical binding]; other site 395491012854 Mg2+ binding site [ion binding]; other site 395491012855 G-X-G motif; other site 395491012856 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395491012857 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395491012858 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491012859 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 395491012860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 395491012861 Uncharacterized conserved protein [Function unknown]; Region: COG2308 395491012862 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 395491012863 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 395491012864 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395491012865 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491012866 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395491012867 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395491012868 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 395491012869 homodimer interface [polypeptide binding]; other site 395491012870 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 395491012871 active site pocket [active] 395491012872 glycogen branching enzyme; Provisional; Region: PRK05402 395491012873 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 395491012874 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 395491012875 active site 395491012876 catalytic site [active] 395491012877 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 395491012878 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 395491012879 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 395491012880 ligand binding site; other site 395491012881 oligomer interface; other site 395491012882 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 395491012883 dimer interface [polypeptide binding]; other site 395491012884 N-terminal domain interface [polypeptide binding]; other site 395491012885 sulfate 1 binding site; other site 395491012886 glycogen synthase; Provisional; Region: glgA; PRK00654 395491012887 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 395491012888 ADP-binding pocket [chemical binding]; other site 395491012889 homodimer interface [polypeptide binding]; other site 395491012890 phosphoglucomutase; Region: PLN02307 395491012891 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 395491012892 substrate binding site [chemical binding]; other site 395491012893 dimer interface [polypeptide binding]; other site 395491012894 active site 395491012895 metal binding site [ion binding]; metal-binding site 395491012896 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 395491012897 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 395491012898 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 395491012899 active site 395491012900 catalytic site [active] 395491012901 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 395491012902 putative active site [active] 395491012903 putative catalytic site [active] 395491012904 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_19; cd07262 395491012905 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491012906 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 395491012907 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 395491012908 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; cl00159 395491012909 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395491012910 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 395491012911 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 395491012912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 395491012913 FecR protein; Region: FecR; pfam04773 395491012914 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 395491012915 CHASE2 domain; Region: CHASE2; cl01732 395491012916 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395491012917 cyclase homology domain; Region: CHD; cd07302 395491012918 nucleotidyl binding site; other site 395491012919 metal binding site [ion binding]; metal-binding site 395491012920 dimer interface [polypeptide binding]; other site 395491012921 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 395491012922 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 395491012923 TPR motif; other site 395491012924 TPR repeat; Region: TPR_11; pfam13414 395491012925 binding surface 395491012926 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 395491012927 binding surface 395491012928 TPR motif; other site 395491012929 TPR repeat; Region: TPR_11; pfam13414 395491012930 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 395491012931 binding surface 395491012932 TPR motif; other site 395491012933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491012934 Histidine kinase; Region: HisKA_2; cl06527 395491012935 Protein of unknown function (DUF992); Region: DUF992; pfam06186 395491012936 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 395491012937 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 395491012938 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 395491012939 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 395491012940 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 395491012941 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395491012942 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 395491012943 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491012944 PAS fold; Region: PAS_7; pfam12860 395491012945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491012946 metal binding site [ion binding]; metal-binding site 395491012947 active site 395491012948 I-site; other site 395491012949 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491012950 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 395491012951 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395491012952 DctM-like transporters; Region: DctM; pfam06808 395491012953 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 395491012954 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395491012955 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 395491012956 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 395491012957 catalytic triad [active] 395491012958 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395491012959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491012960 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491012961 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491012962 DNA binding site [nucleotide binding] 395491012963 domain linker motif; other site 395491012964 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 395491012965 putative dimerization interface [polypeptide binding]; other site 395491012966 putative ligand binding site [chemical binding]; other site 395491012967 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491012968 Helix-turn-helix domains; Region: HTH; cl00088 395491012969 Creatinine amidohydrolase; Region: Creatininase; cl00618 395491012970 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395491012971 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 395491012972 P-loop, Walker A motif; other site 395491012973 Base recognition motif; other site 395491012974 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395491012975 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 395491012976 structural tetrad; other site 395491012977 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395491012978 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491012979 serine acetyltransferase; Provisional; Region: cysE; PRK11132 395491012980 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 395491012981 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 395491012982 trimer interface [polypeptide binding]; other site 395491012983 active site 395491012984 substrate binding site [chemical binding]; other site 395491012985 CoA binding site [chemical binding]; other site 395491012986 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491012987 metal binding site [ion binding]; metal-binding site 395491012988 active site 395491012989 I-site; other site 395491012990 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491012991 Predicted acetyltransferase [General function prediction only]; Region: COG3153 395491012992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491012993 Coenzyme A binding pocket [chemical binding]; other site 395491012994 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 395491012995 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 395491012996 active site 395491012997 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395491012998 dimer interface [polypeptide binding]; other site 395491012999 catalytic residues [active] 395491013000 substrate binding site [chemical binding]; other site 395491013001 Helix-turn-helix domains; Region: HTH; cl00088 395491013002 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491013003 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 395491013004 putative effector binding pocket; other site 395491013005 dimerization interface [polypeptide binding]; other site 395491013006 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 395491013007 High-affinity nickel-transport protein; Region: NicO; cl00964 395491013008 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395491013009 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491013010 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 395491013011 putative metal binding site [ion binding]; other site 395491013012 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 395491013013 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 395491013014 active site 395491013015 intersubunit interface [polypeptide binding]; other site 395491013016 catalytic residue [active] 395491013017 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 395491013018 putative active site [active] 395491013019 putative metal binding residues [ion binding]; other site 395491013020 signature motif; other site 395491013021 putative dimer interface [polypeptide binding]; other site 395491013022 putative phosphate binding site [ion binding]; other site 395491013023 CHAD domain; Region: CHAD; cl10506 395491013024 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 395491013025 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 395491013026 active site residue [active] 395491013027 CHASE4 domain; Region: CHASE4; cl01308 395491013028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491013029 metal binding site [ion binding]; metal-binding site 395491013030 active site 395491013031 I-site; other site 395491013032 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491013033 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 395491013034 DoxX; Region: DoxX; cl00976 395491013035 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491013036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013037 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491013038 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491013039 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 395491013040 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395491013041 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 395491013042 putative ligand binding site [chemical binding]; other site 395491013043 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 395491013044 TM-ABC transporter signature motif; other site 395491013045 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491013046 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491013047 Walker A/P-loop; other site 395491013048 ATP binding site [chemical binding]; other site 395491013049 Q-loop/lid; other site 395491013050 ABC transporter signature motif; other site 395491013051 Walker B; other site 395491013052 D-loop; other site 395491013053 H-loop/switch region; other site 395491013054 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491013055 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491013056 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491013057 DNA binding site [nucleotide binding] 395491013058 domain linker motif; other site 395491013059 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 395491013060 dimerization interface [polypeptide binding]; other site 395491013061 ligand binding site [chemical binding]; other site 395491013062 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 395491013063 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 395491013064 N- and C-terminal domain interface [polypeptide binding]; other site 395491013065 D-xylulose kinase; Region: XylB; TIGR01312 395491013066 active site 395491013067 catalytic site [active] 395491013068 metal binding site [ion binding]; metal-binding site 395491013069 xylulose binding site [chemical binding]; other site 395491013070 putative ATP binding site [chemical binding]; other site 395491013071 homodimer interface [polypeptide binding]; other site 395491013072 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491013073 DNA binding site [nucleotide binding] 395491013074 domain linker motif; other site 395491013075 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 395491013076 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491013077 putative ligand binding site [chemical binding]; other site 395491013078 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395491013079 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 395491013080 putative substrate translocation pore; other site 395491013081 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 395491013082 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395491013083 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491013084 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491013085 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491013086 Helix-turn-helix domains; Region: HTH; cl00088 395491013087 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395491013088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491013089 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491013090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491013091 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 395491013092 Integral membrane protein TerC family; Region: TerC; cl10468 395491013093 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 395491013094 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395491013095 HIGH motif; other site 395491013096 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395491013097 active site 395491013098 KMSKS motif; other site 395491013099 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 395491013100 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 395491013101 dimer interface [polypeptide binding]; other site 395491013102 putative anticodon binding site; other site 395491013103 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 395491013104 motif 1; other site 395491013105 active site 395491013106 motif 2; other site 395491013107 motif 3; other site 395491013108 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491013109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013110 NAD(P) binding site [chemical binding]; other site 395491013111 active site 395491013112 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395491013113 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491013114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491013115 Helix-turn-helix domains; Region: HTH; cl00088 395491013116 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 395491013117 putative substrate binding pocket [chemical binding]; other site 395491013118 dimerization interface [polypeptide binding]; other site 395491013119 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491013120 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 395491013121 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491013122 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491013123 Walker A/P-loop; other site 395491013124 ATP binding site [chemical binding]; other site 395491013125 Q-loop/lid; other site 395491013126 ABC transporter signature motif; other site 395491013127 Walker B; other site 395491013128 D-loop; other site 395491013129 H-loop/switch region; other site 395491013130 TOBE domain; Region: TOBE_2; cl01440 395491013131 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 395491013132 dimer interface [polypeptide binding]; other site 395491013133 conserved gate region; other site 395491013134 putative PBP binding loops; other site 395491013135 ABC-ATPase subunit interface; other site 395491013136 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 395491013137 dimer interface [polypeptide binding]; other site 395491013138 conserved gate region; other site 395491013139 putative PBP binding loops; other site 395491013140 ABC-ATPase subunit interface; other site 395491013141 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491013142 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 395491013143 tetrameric interface [polypeptide binding]; other site 395491013144 NAD binding site [chemical binding]; other site 395491013145 catalytic residues [active] 395491013146 substrate binding site [chemical binding]; other site 395491013147 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 395491013148 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 395491013149 dimerization interface [polypeptide binding]; other site 395491013150 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 395491013151 dimer interface [polypeptide binding]; other site 395491013152 phosphorylation site [posttranslational modification] 395491013153 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 395491013154 ATP binding site [chemical binding]; other site 395491013155 Mg2+ binding site [ion binding]; other site 395491013156 G-X-G motif; other site 395491013157 osmolarity response regulator; Provisional; Region: ompR; PRK09468 395491013158 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 395491013159 active site 395491013160 phosphorylation site [posttranslational modification] 395491013161 intermolecular recognition site; other site 395491013162 dimerization interface [polypeptide binding]; other site 395491013163 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 395491013164 DNA binding site [nucleotide binding] 395491013165 DoxX; Region: DoxX; cl00976 395491013166 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 395491013167 transaldolase-like protein; Provisional; Region: PTZ00411 395491013168 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 395491013169 active site 395491013170 dimer interface [polypeptide binding]; other site 395491013171 catalytic residue [active] 395491013172 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395491013173 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491013174 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395491013175 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395491013176 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395491013177 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 395491013178 DNA binding site [nucleotide binding] 395491013179 active site 395491013180 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 395491013181 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 395491013182 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395491013183 minor groove reading motif; other site 395491013184 helix-hairpin-helix signature motif; other site 395491013185 substrate binding pocket [chemical binding]; other site 395491013186 active site 395491013187 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 395491013188 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491013189 Helix-turn-helix domains; Region: HTH; cl00088 395491013190 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_22; cd08359 395491013191 putative dimer interface [polypeptide binding]; other site 395491013192 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491013193 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 395491013194 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395491013195 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395491013196 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 395491013197 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 395491013198 N- and C-terminal domain interface [polypeptide binding]; other site 395491013199 putative active site [active] 395491013200 putative MgATP binding site [chemical binding]; other site 395491013201 catalytic site [active] 395491013202 metal binding site [ion binding]; metal-binding site 395491013203 carbohydrate binding site [chemical binding]; other site 395491013204 putative homodimer interface [polypeptide binding]; other site 395491013205 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395491013206 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 395491013207 motif II; other site 395491013208 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491013209 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 395491013210 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 395491013211 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 395491013212 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491013213 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491013214 Walker A/P-loop; other site 395491013215 ATP binding site [chemical binding]; other site 395491013216 Q-loop/lid; other site 395491013217 ABC transporter signature motif; other site 395491013218 Walker B; other site 395491013219 D-loop; other site 395491013220 H-loop/switch region; other site 395491013221 TOBE domain; Region: TOBE_2; cl01440 395491013222 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491013223 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 395491013224 dimer interface [polypeptide binding]; other site 395491013225 conserved gate region; other site 395491013226 putative PBP binding loops; other site 395491013227 ABC-ATPase subunit interface; other site 395491013228 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 395491013229 dimer interface [polypeptide binding]; other site 395491013230 conserved gate region; other site 395491013231 putative PBP binding loops; other site 395491013232 ABC-ATPase subunit interface; other site 395491013233 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 395491013234 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491013235 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395491013236 Helix-turn-helix domains; Region: HTH; cl00088 395491013237 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395491013238 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 395491013239 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491013240 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491013241 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 395491013242 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 395491013243 active site 395491013244 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395491013245 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491013246 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491013247 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491013248 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491013249 Helix-turn-helix domains; Region: HTH; cl00088 395491013250 OsmC-like protein; Region: OsmC; cl00767 395491013251 short chain dehydrogenase; Provisional; Region: PRK07063 395491013252 classical (c) SDRs; Region: SDR_c; cd05233 395491013253 NAD(P) binding site [chemical binding]; other site 395491013254 active site 395491013255 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 395491013256 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 395491013257 active site 395491013258 catalytic residues [active] 395491013259 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 395491013260 TM-ABC transporter signature motif; other site 395491013261 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 395491013262 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491013263 Walker A/P-loop; other site 395491013264 ATP binding site [chemical binding]; other site 395491013265 Q-loop/lid; other site 395491013266 ABC transporter signature motif; other site 395491013267 Walker B; other site 395491013268 D-loop; other site 395491013269 H-loop/switch region; other site 395491013270 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491013271 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 395491013272 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 395491013273 ligand binding site [chemical binding]; other site 395491013274 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491013275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491013276 DNA-binding site [nucleotide binding]; DNA binding site 395491013277 FCD domain; Region: FCD; cl11656 395491013278 galactonate dehydratase; Provisional; Region: PRK14017 395491013279 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 395491013280 putative active site pocket [active] 395491013281 putative metal binding site [ion binding]; other site 395491013282 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491013283 classical (c) SDRs; Region: SDR_c; cd05233 395491013284 NAD(P) binding site [chemical binding]; other site 395491013285 active site 395491013286 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395491013287 cyclase homology domain; Region: CHD; cd07302 395491013288 nucleotidyl binding site; other site 395491013289 metal binding site [ion binding]; metal-binding site 395491013290 dimer interface [polypeptide binding]; other site 395491013291 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491013292 DNA binding site [nucleotide binding] 395491013293 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395491013294 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395491013295 short chain dehydrogenase; Provisional; Region: PRK06198 395491013296 classical (c) SDRs; Region: SDR_c; cd05233 395491013297 NAD(P) binding site [chemical binding]; other site 395491013298 active site 395491013299 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 395491013300 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395491013301 conserved cys residue [active] 395491013302 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491013303 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491013304 Walker A/P-loop; other site 395491013305 ATP binding site [chemical binding]; other site 395491013306 Q-loop/lid; other site 395491013307 ABC transporter signature motif; other site 395491013308 Walker B; other site 395491013309 D-loop; other site 395491013310 H-loop/switch region; other site 395491013311 TOBE domain; Region: TOBE_2; cl01440 395491013312 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491013313 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 395491013314 dimer interface [polypeptide binding]; other site 395491013315 conserved gate region; other site 395491013316 putative PBP binding loops; other site 395491013317 ABC-ATPase subunit interface; other site 395491013318 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 395491013319 dimer interface [polypeptide binding]; other site 395491013320 conserved gate region; other site 395491013321 putative PBP binding loops; other site 395491013322 ABC-ATPase subunit interface; other site 395491013323 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491013324 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 395491013325 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491013326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013327 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491013328 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491013329 DNA binding site [nucleotide binding] 395491013330 domain linker motif; other site 395491013331 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395491013332 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 395491013333 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 395491013334 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 395491013335 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 395491013336 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491013337 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491013338 Walker A/P-loop; other site 395491013339 ATP binding site [chemical binding]; other site 395491013340 Q-loop/lid; other site 395491013341 ABC transporter signature motif; other site 395491013342 Walker B; other site 395491013343 D-loop; other site 395491013344 H-loop/switch region; other site 395491013345 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491013346 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 395491013347 dimer interface [polypeptide binding]; other site 395491013348 conserved gate region; other site 395491013349 putative PBP binding loops; other site 395491013350 ABC-ATPase subunit interface; other site 395491013351 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395491013352 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 395491013353 dimer interface [polypeptide binding]; other site 395491013354 putative PBP binding loops; other site 395491013355 ABC-ATPase subunit interface; other site 395491013356 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491013357 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 395491013358 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491013359 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491013360 DNA binding site [nucleotide binding] 395491013361 domain linker motif; other site 395491013362 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395491013363 ligand binding site [chemical binding]; other site 395491013364 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 395491013365 Ligand Binding Site [chemical binding]; other site 395491013366 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395491013367 active site 395491013368 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 395491013369 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395491013370 cyclase homology domain; Region: CHD; cd07302 395491013371 nucleotidyl binding site; other site 395491013372 metal binding site [ion binding]; metal-binding site 395491013373 dimer interface [polypeptide binding]; other site 395491013374 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 395491013375 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 395491013376 dimer interface [polypeptide binding]; other site 395491013377 putative radical transfer pathway; other site 395491013378 diiron center [ion binding]; other site 395491013379 tyrosyl radical; other site 395491013380 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 395491013381 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 395491013382 Class I ribonucleotide reductase; Region: RNR_I; cd01679 395491013383 active site 395491013384 dimer interface [polypeptide binding]; other site 395491013385 catalytic residues [active] 395491013386 effector binding site; other site 395491013387 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 395491013388 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491013389 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 395491013390 catalytic residues [active] 395491013391 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 395491013392 metal-binding site [ion binding] 395491013393 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 395491013394 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395491013395 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 395491013396 DNA binding residues [nucleotide binding] 395491013397 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 395491013398 dimer interface [polypeptide binding]; other site 395491013399 putative metal binding site [ion binding]; other site 395491013400 Predicted flavoproteins [General function prediction only]; Region: COG2081 395491013401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013402 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 395491013403 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 395491013404 GAF domain; Region: GAF; cl15785 395491013405 Helix-turn-helix domains; Region: HTH; cl00088 395491013406 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 395491013407 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491013408 NAD(P) binding site [chemical binding]; other site 395491013409 catalytic residues [active] 395491013410 Protein of unknown function (DUF779); Region: DUF779; cl01432 395491013411 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 395491013412 intracellular protease, PfpI family; Region: PfpI; TIGR01382 395491013413 conserved cys residue [active] 395491013414 Ribbon-helix-helix domain; Region: RHH_4; cl01775 395491013415 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 395491013416 classical (c) SDRs; Region: SDR_c; cd05233 395491013417 NAD(P) binding site [chemical binding]; other site 395491013418 active site 395491013419 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 395491013420 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 395491013421 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491013422 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491013423 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395491013424 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; cl01054 395491013425 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491013426 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491013427 dimer interface [polypeptide binding]; other site 395491013428 putative CheW interface [polypeptide binding]; other site 395491013429 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 395491013430 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 395491013431 Clp amino terminal domain; Region: Clp_N; pfam02861 395491013432 Clp amino terminal domain; Region: Clp_N; pfam02861 395491013433 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 395491013434 Walker A motif; other site 395491013435 ATP binding site [chemical binding]; other site 395491013436 Walker B motif; other site 395491013437 arginine finger; other site 395491013438 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 395491013439 Walker A motif; other site 395491013440 ATP binding site [chemical binding]; other site 395491013441 Walker B motif; other site 395491013442 arginine finger; other site 395491013443 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395491013444 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 395491013445 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 395491013446 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 395491013447 S-adenosylmethionine binding site [chemical binding]; other site 395491013448 peptide chain release factor 1; Validated; Region: prfA; PRK00591 395491013449 RF-1 domain; Region: RF-1; cl02875 395491013450 RF-1 domain; Region: RF-1; cl02875 395491013451 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 395491013452 GAF domain; Region: GAF; cl15785 395491013453 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 395491013454 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 395491013455 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; cl09155 395491013456 aspartate kinase; Reviewed; Region: PRK06635 395491013457 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 395491013458 putative nucleotide binding site [chemical binding]; other site 395491013459 putative catalytic residues [active] 395491013460 putative Mg ion binding site [ion binding]; other site 395491013461 putative aspartate binding site [chemical binding]; other site 395491013462 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 395491013463 putative allosteric regulatory site; other site 395491013464 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 395491013465 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 395491013466 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 395491013467 S-adenosylmethionine binding site [chemical binding]; other site 395491013468 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 395491013469 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395491013470 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 395491013471 putative active site [active] 395491013472 catalytic triad [active] 395491013473 dimer interface [polypeptide binding]; other site 395491013474 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 395491013475 GSH binding site [chemical binding]; other site 395491013476 catalytic residues [active] 395491013477 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 395491013478 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395491013479 active site 395491013480 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; cl16911 395491013481 Flp/Fap pilin component; Region: Flp_Fap; cl01585 395491013482 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 395491013483 active site 395491013484 8-oxo-dGMP binding site [chemical binding]; other site 395491013485 nudix motif; other site 395491013486 metal binding site [ion binding]; metal-binding site 395491013487 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491013488 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 395491013489 heterotetramer interface [polypeptide binding]; other site 395491013490 active site pocket [active] 395491013491 cleavage site 395491013492 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 395491013493 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395491013494 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 395491013495 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491013496 ATP binding site [chemical binding]; other site 395491013497 putative Mg++ binding site [ion binding]; other site 395491013498 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 395491013499 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 395491013500 nucleotide binding region [chemical binding]; other site 395491013501 ATP-binding site [chemical binding]; other site 395491013502 hypothetical protein; Provisional; Region: PRK05590 395491013503 SEC-C motif; Region: SEC-C; pfam02810 395491013504 MatE; Region: MatE; cl10513 395491013505 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491013506 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 395491013507 AMP-binding enzyme; Region: AMP-binding; cl15778 395491013508 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491013509 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491013510 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 395491013511 active site 395491013512 catalytic tetrad [active] 395491013513 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491013514 Helix-turn-helix domains; Region: HTH; cl00088 395491013515 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 395491013516 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491013517 putative substrate translocation pore; other site 395491013518 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 395491013519 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491013520 Helix-turn-helix domains; Region: HTH; cl00088 395491013521 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 395491013522 dimerization interface [polypeptide binding]; other site 395491013523 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395491013524 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 395491013525 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 395491013526 ligand binding site [chemical binding]; other site 395491013527 flexible hinge region; other site 395491013528 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395491013529 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 395491013530 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 395491013531 active site 395491013532 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395491013533 endonuclease III; Region: ENDO3c; smart00478 395491013534 minor groove reading motif; other site 395491013535 helix-hairpin-helix signature motif; other site 395491013536 substrate binding pocket [chemical binding]; other site 395491013537 active site 395491013538 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395491013539 active site 395491013540 HIGH motif; other site 395491013541 nucleotide binding site [chemical binding]; other site 395491013542 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395491013543 active site 395491013544 KMSKS motif; other site 395491013545 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 395491013546 short chain dehydrogenase; Validated; Region: PRK06182 395491013547 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395491013548 NADP binding site [chemical binding]; other site 395491013549 active site 395491013550 steroid binding site; other site 395491013551 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 395491013552 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 395491013553 Rhomboid family; Region: Rhomboid; cl11446 395491013554 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 395491013555 Ligand binding site [chemical binding]; other site 395491013556 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395491013557 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 395491013558 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 395491013559 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395491013560 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 395491013561 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013562 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395491013563 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 395491013564 catalytic residues [active] 395491013565 argininosuccinate lyase; Provisional; Region: PRK00855 395491013566 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 395491013567 active sites [active] 395491013568 tetramer interface [polypeptide binding]; other site 395491013569 diaminopimelate decarboxylase; Region: lysA; TIGR01048 395491013570 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 395491013571 active site 395491013572 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395491013573 substrate binding site [chemical binding]; other site 395491013574 catalytic residues [active] 395491013575 dimer interface [polypeptide binding]; other site 395491013576 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 395491013577 Response regulator receiver domain; Region: Response_reg; pfam00072 395491013578 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 395491013579 active site 395491013580 phosphorylation site [posttranslational modification] 395491013581 intermolecular recognition site; other site 395491013582 dimerization interface [polypeptide binding]; other site 395491013583 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395491013584 active site 395491013585 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 395491013586 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 395491013587 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395491013588 Walker A/P-loop; other site 395491013589 ATP binding site [chemical binding]; other site 395491013590 Q-loop/lid; other site 395491013591 ABC transporter signature motif; other site 395491013592 Walker B; other site 395491013593 D-loop; other site 395491013594 H-loop/switch region; other site 395491013595 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 395491013596 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 395491013597 putative active site [active] 395491013598 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 395491013599 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395491013600 putative acyl-acceptor binding pocket; other site 395491013601 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 395491013602 putative active site pocket [active] 395491013603 dimerization interface [polypeptide binding]; other site 395491013604 putative catalytic residue [active] 395491013605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 395491013606 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 395491013607 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491013608 Coenzyme A binding pocket [chemical binding]; other site 395491013609 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 395491013610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013611 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 395491013612 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 395491013613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491013614 homodimer interface [polypeptide binding]; other site 395491013615 catalytic residue [active] 395491013616 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; cl16911 395491013617 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395491013618 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491013619 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 395491013620 aromatic amino acid exporter; Provisional; Region: PRK11689 395491013621 EamA-like transporter family; Region: EamA; cl01037 395491013622 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 395491013623 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 395491013624 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 395491013625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491013626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 395491013627 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 395491013628 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 395491013629 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 395491013630 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 395491013631 metal ion-dependent adhesion site (MIDAS); other site 395491013632 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 395491013633 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 395491013634 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491013635 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 395491013636 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 395491013637 HSP70 interaction site [polypeptide binding]; other site 395491013638 BolA-like protein; Region: BolA; cl00386 395491013639 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 395491013640 Domain of unknown function DUF21; Region: DUF21; pfam01595 395491013641 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 395491013642 Transporter associated domain; Region: CorC_HlyC; cl08393 395491013643 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 395491013644 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395491013645 active site 395491013646 dimer interface [polypeptide binding]; other site 395491013647 metal binding site [ion binding]; metal-binding site 395491013648 shikimate kinase; Provisional; Region: PRK13946 395491013649 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 395491013650 ADP binding site [chemical binding]; other site 395491013651 magnesium binding site [ion binding]; other site 395491013652 putative shikimate binding site; other site 395491013653 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 395491013654 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 395491013655 active site 395491013656 DNA binding site [nucleotide binding] 395491013657 Int/Topo IB signature motif; other site 395491013658 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395491013659 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 395491013660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 395491013661 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 395491013662 CPxP motif; other site 395491013663 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395491013664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491013665 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395491013666 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 395491013667 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491013668 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395491013669 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395491013670 metal binding site [ion binding]; metal-binding site 395491013671 putative dimer interface [polypeptide binding]; other site 395491013672 OpgC protein; Region: OpgC_C; cl00792 395491013673 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 395491013674 BON domain; Region: BON; cl02771 395491013675 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 395491013676 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 395491013677 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 395491013678 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 395491013679 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 395491013680 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491013681 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491013682 Walker A/P-loop; other site 395491013683 ATP binding site [chemical binding]; other site 395491013684 Q-loop/lid; other site 395491013685 ABC transporter signature motif; other site 395491013686 Walker B; other site 395491013687 D-loop; other site 395491013688 H-loop/switch region; other site 395491013689 TOBE domain; Region: TOBE_2; cl01440 395491013690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 395491013691 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 395491013692 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491013693 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 395491013694 dimer interface [polypeptide binding]; other site 395491013695 conserved gate region; other site 395491013696 putative PBP binding loops; other site 395491013697 ABC-ATPase subunit interface; other site 395491013698 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; cl00427 395491013699 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 395491013700 putative PBP binding loops; other site 395491013701 ABC-ATPase subunit interface; other site 395491013702 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491013703 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 395491013704 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491013705 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491013706 DNA binding site [nucleotide binding] 395491013707 domain linker motif; other site 395491013708 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491013709 dimerization interface [polypeptide binding]; other site 395491013710 ligand binding site [chemical binding]; other site 395491013711 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 395491013712 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 395491013713 substrate-cofactor binding pocket; other site 395491013714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491013715 catalytic residue [active] 395491013716 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 395491013717 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395491013718 Surface antigen; Region: Bac_surface_Ag; cl03097 395491013719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 395491013720 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 395491013721 Family of unknown function (DUF490); Region: DUF490; pfam04357 395491013722 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491013723 Helix-turn-helix domains; Region: HTH; cl00088 395491013724 AsnC family; Region: AsnC_trans_reg; pfam01037 395491013725 Arginase family; Region: Arginase; cl00306 395491013726 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 395491013727 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 395491013728 inhibitor-cofactor binding pocket; inhibition site 395491013729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491013730 catalytic residue [active] 395491013731 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395491013732 putative CheA interaction surface; other site 395491013733 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491013734 PAS domain; Region: PAS_9; pfam13426 395491013735 putative active site [active] 395491013736 heme pocket [chemical binding]; other site 395491013737 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491013738 PAS domain; Region: PAS_9; pfam13426 395491013739 putative active site [active] 395491013740 heme pocket [chemical binding]; other site 395491013741 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491013742 dimer interface [polypeptide binding]; other site 395491013743 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395491013744 putative CheW interface [polypeptide binding]; other site 395491013745 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 395491013746 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 395491013747 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 395491013748 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 395491013749 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; cl00159 395491013750 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 395491013751 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 395491013752 [4Fe-4S] binding site [ion binding]; other site 395491013753 molybdopterin cofactor binding site; other site 395491013754 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 395491013755 molybdopterin cofactor binding site; other site 395491013756 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 395491013757 putative dimer interface [polypeptide binding]; other site 395491013758 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 395491013759 SLBB domain; Region: SLBB; pfam10531 395491013760 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 395491013761 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 395491013762 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 395491013763 putative dimer interface [polypeptide binding]; other site 395491013764 [2Fe-2S] cluster binding site [ion binding]; other site 395491013765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491013766 Helix-turn-helix domains; Region: HTH; cl00088 395491013767 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 395491013768 dimerization interface [polypeptide binding]; other site 395491013769 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 395491013770 dimerization interface [polypeptide binding]; other site 395491013771 putative DNA binding site [nucleotide binding]; other site 395491013772 putative Zn2+ binding site [ion binding]; other site 395491013773 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395491013774 classical (c) SDRs; Region: SDR_c; cd05233 395491013775 NAD(P) binding site [chemical binding]; other site 395491013776 active site 395491013777 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 395491013778 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 395491013779 DNA binding residues [nucleotide binding] 395491013780 dimer interface [polypeptide binding]; other site 395491013781 [2Fe-2S] cluster binding site [ion binding]; other site 395491013782 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491013783 YKOF-related Family; Region: Ykof; pfam07615 395491013784 YKOF-related Family; Region: Ykof; pfam07615 395491013785 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491013786 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; cl00427 395491013787 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395491013788 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491013789 Walker A/P-loop; other site 395491013790 ATP binding site [chemical binding]; other site 395491013791 Q-loop/lid; other site 395491013792 ABC transporter signature motif; other site 395491013793 Walker B; other site 395491013794 D-loop; other site 395491013795 H-loop/switch region; other site 395491013796 NMT1-like family; Region: NMT1_2; cl15260 395491013797 NMT1/THI5 like; Region: NMT1; pfam09084 395491013798 OpgC protein; Region: OpgC_C; cl00792 395491013799 Bacterial sugar transferase; Region: Bac_transf; cl00939 395491013800 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 395491013801 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 395491013802 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 395491013803 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 395491013804 alpha subunit interaction interface [polypeptide binding]; other site 395491013805 Walker A motif; other site 395491013806 ATP binding site [chemical binding]; other site 395491013807 Walker B motif; other site 395491013808 inhibitor binding site; inhibition site 395491013809 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395491013810 ATP synthase; Region: ATP-synt; cl00365 395491013811 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 395491013812 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 395491013813 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 395491013814 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 395491013815 beta subunit interaction interface [polypeptide binding]; other site 395491013816 Walker A motif; other site 395491013817 ATP binding site [chemical binding]; other site 395491013818 Walker B motif; other site 395491013819 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395491013820 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 395491013821 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 395491013822 primosome assembly protein PriA; Validated; Region: PRK05580 395491013823 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 395491013824 ATP binding site [chemical binding]; other site 395491013825 putative Mg++ binding site [ion binding]; other site 395491013826 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491013827 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491013828 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491013829 Walker A/P-loop; other site 395491013830 ATP binding site [chemical binding]; other site 395491013831 Q-loop/lid; other site 395491013832 ABC transporter signature motif; other site 395491013833 Walker B; other site 395491013834 D-loop; other site 395491013835 H-loop/switch region; other site 395491013836 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491013837 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395491013838 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491013839 Walker A/P-loop; other site 395491013840 ATP binding site [chemical binding]; other site 395491013841 Q-loop/lid; other site 395491013842 ABC transporter signature motif; other site 395491013843 Walker B; other site 395491013844 D-loop; other site 395491013845 H-loop/switch region; other site 395491013846 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491013847 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 395491013848 dimer interface [polypeptide binding]; other site 395491013849 conserved gate region; other site 395491013850 putative PBP binding loops; other site 395491013851 ABC-ATPase subunit interface; other site 395491013852 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491013853 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 395491013854 dimer interface [polypeptide binding]; other site 395491013855 conserved gate region; other site 395491013856 putative PBP binding loops; other site 395491013857 ABC-ATPase subunit interface; other site 395491013858 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 395491013859 substrate binding site [chemical binding]; other site 395491013860 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491013861 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 395491013862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491013863 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 395491013864 DNA-binding site [nucleotide binding]; DNA binding site 395491013865 FCD domain; Region: FCD; cl11656 395491013866 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491013867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013868 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491013869 Dehydratase family; Region: ILVD_EDD; cl00340 395491013870 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395491013871 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 395491013872 active site 395491013873 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491013874 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491013875 inhibitor site; inhibition site 395491013876 active site 395491013877 dimer interface [polypeptide binding]; other site 395491013878 catalytic residue [active] 395491013879 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395491013880 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491013881 Coenzyme A binding pocket [chemical binding]; other site 395491013882 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491013883 putative acyl-acceptor binding pocket; other site 395491013884 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 395491013885 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 395491013886 active site 395491013887 DNA binding site [nucleotide binding] 395491013888 Int/Topo IB signature motif; other site 395491013889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 395491013890 TraB family; Region: TraB; cl12050 395491013891 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 395491013892 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 395491013893 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013894 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491013895 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395491013896 classical (c) SDRs; Region: SDR_c; cd05233 395491013897 NAD(P) binding site [chemical binding]; other site 395491013898 active site 395491013899 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 395491013900 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 395491013901 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 395491013902 E3 interaction surface; other site 395491013903 lipoyl attachment site [posttranslational modification]; other site 395491013904 e3 binding domain; Region: E3_binding; pfam02817 395491013905 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 395491013906 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 395491013907 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 395491013908 TPP-binding site [chemical binding]; other site 395491013909 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 395491013910 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 395491013911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013912 CoA-ligase; Region: Ligase_CoA; cl02894 395491013913 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 395491013914 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491013915 CoA-ligase; Region: Ligase_CoA; cl02894 395491013916 malate dehydrogenase; Reviewed; Region: PRK06223 395491013917 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 395491013918 NAD(P) binding site [chemical binding]; other site 395491013919 dimer interface [polypeptide binding]; other site 395491013920 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395491013921 substrate binding site [chemical binding]; other site 395491013922 Predicted ATPase [General function prediction only]; Region: COG1485 395491013923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491013924 Walker A/P-loop; other site 395491013925 ATP binding site [chemical binding]; other site 395491013926 ABC transporter signature motif; other site 395491013927 Walker B; other site 395491013928 D-loop; other site 395491013929 H-loop/switch region; other site 395491013930 Protease inhibitor Inh; Region: Inh; pfam02974 395491013931 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 395491013932 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; cl00159 395491013933 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 395491013934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013935 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395491013936 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 395491013937 putative SdhC subunit interface [polypeptide binding]; other site 395491013938 putative proximal heme binding site [chemical binding]; other site 395491013939 putative Iron-sulfur protein interface [polypeptide binding]; other site 395491013940 putative proximal quinone binding site; other site 395491013941 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 395491013942 Iron-sulfur protein interface; other site 395491013943 proximal quinone binding site [chemical binding]; other site 395491013944 SdhD (CybS) interface [polypeptide binding]; other site 395491013945 proximal heme binding site [chemical binding]; other site 395491013946 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 395491013947 homotrimer interaction site [polypeptide binding]; other site 395491013948 putative active site [active] 395491013949 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491013950 Helix-turn-helix domains; Region: HTH; cl00088 395491013951 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 395491013952 dimerization interface [polypeptide binding]; other site 395491013953 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491013954 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491013955 Walker A/P-loop; other site 395491013956 ATP binding site [chemical binding]; other site 395491013957 Q-loop/lid; other site 395491013958 ABC transporter signature motif; other site 395491013959 Walker B; other site 395491013960 D-loop; other site 395491013961 H-loop/switch region; other site 395491013962 TOBE domain; Region: TOBE_2; cl01440 395491013963 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 395491013964 dimer interface [polypeptide binding]; other site 395491013965 conserved gate region; other site 395491013966 putative PBP binding loops; other site 395491013967 ABC-ATPase subunit interface; other site 395491013968 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 395491013969 dimer interface [polypeptide binding]; other site 395491013970 conserved gate region; other site 395491013971 putative PBP binding loops; other site 395491013972 ABC-ATPase subunit interface; other site 395491013973 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395491013974 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 395491013975 Arginase family; Region: Arginase; cl00306 395491013976 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 395491013977 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491013978 substrate binding pocket [chemical binding]; other site 395491013979 membrane-bound complex binding site; other site 395491013980 hinge residues; other site 395491013981 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491013982 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 395491013983 dimer interface [polypeptide binding]; other site 395491013984 conserved gate region; other site 395491013985 putative PBP binding loops; other site 395491013986 ABC-ATPase subunit interface; other site 395491013987 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; cl00427 395491013988 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491013989 ornithine cyclodeaminase; Validated; Region: PRK06141 395491013990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491013991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491013992 Helix-turn-helix domains; Region: HTH; cl00088 395491013993 Helix-turn-helix domains; Region: HTH; cl00088 395491013994 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 395491013995 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 395491013996 dimerization interface [polypeptide binding]; other site 395491013997 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 395491013998 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 395491013999 Flavoprotein; Region: Flavoprotein; cl08021 395491014000 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 395491014001 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491014002 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395491014003 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 395491014004 tetramer interface [polypeptide binding]; other site 395491014005 active site 395491014006 Mg2+/Mn2+ binding site [ion binding]; other site 395491014007 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491014008 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 395491014009 dimer interface [polypeptide binding]; other site 395491014010 conserved gate region; other site 395491014011 putative PBP binding loops; other site 395491014012 ABC-ATPase subunit interface; other site 395491014013 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395491014014 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 395491014015 dimer interface [polypeptide binding]; other site 395491014016 conserved gate region; other site 395491014017 putative PBP binding loops; other site 395491014018 ABC-ATPase subunit interface; other site 395491014019 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395491014020 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491014021 Walker A/P-loop; other site 395491014022 ATP binding site [chemical binding]; other site 395491014023 Q-loop/lid; other site 395491014024 ABC transporter signature motif; other site 395491014025 Walker B; other site 395491014026 D-loop; other site 395491014027 H-loop/switch region; other site 395491014028 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491014029 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395491014030 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491014031 Walker A/P-loop; other site 395491014032 ATP binding site [chemical binding]; other site 395491014033 Q-loop/lid; other site 395491014034 ABC transporter signature motif; other site 395491014035 Walker B; other site 395491014036 D-loop; other site 395491014037 H-loop/switch region; other site 395491014038 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491014039 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 395491014040 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 395491014041 active sites [active] 395491014042 tetramer interface [polypeptide binding]; other site 395491014043 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 395491014044 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 395491014045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491014046 homodimer interface [polypeptide binding]; other site 395491014047 catalytic residue [active] 395491014048 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 395491014049 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 395491014050 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 395491014051 active site 395491014052 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 395491014053 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395491014054 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395491014055 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 395491014056 DctM-like transporters; Region: DctM; pfam06808 395491014057 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395491014058 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 395491014059 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 395491014060 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491014061 catalytic residue [active] 395491014062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491014063 Helix-turn-helix domains; Region: HTH; cl00088 395491014064 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 395491014065 dimerization interface [polypeptide binding]; other site 395491014066 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 395491014067 Predicted methyltransferase [General function prediction only]; Region: COG3897 395491014068 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; cl16911 395491014069 EVE domain; Region: EVE; cl00728 395491014070 YCII-related domain; Region: YCII; cl00999 395491014071 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 395491014072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491014073 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 395491014074 UGMP family protein; Validated; Region: PRK09604 395491014075 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 395491014076 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 395491014077 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; cl03189 395491014078 domain interfaces; other site 395491014079 active site 395491014080 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 395491014081 active site 395491014082 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 395491014083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 395491014084 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 395491014085 HemY protein N-terminus; Region: HemY_N; pfam07219 395491014086 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 395491014087 putative metal binding site [ion binding]; other site 395491014088 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 395491014089 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 395491014090 catalytic triad [active] 395491014091 H+ Antiporter protein; Region: 2A0121; TIGR00900 395491014092 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 395491014093 putative substrate translocation pore; other site 395491014094 YGGT family; Region: YGGT; cl00508 395491014095 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 395491014096 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 395491014097 dimer interface [polypeptide binding]; other site 395491014098 substrate binding site [chemical binding]; other site 395491014099 metal binding sites [ion binding]; metal-binding site 395491014100 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395491014101 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491014102 Coenzyme A binding pocket [chemical binding]; other site 395491014103 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 395491014104 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 395491014105 G1 box; other site 395491014106 putative GEF interaction site [polypeptide binding]; other site 395491014107 GTP/Mg2+ binding site [chemical binding]; other site 395491014108 Switch I region; other site 395491014109 G2 box; other site 395491014110 G3 box; other site 395491014111 Switch II region; other site 395491014112 G4 box; other site 395491014113 G5 box; other site 395491014114 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 395491014115 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 395491014116 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 395491014117 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 395491014118 active site 395491014119 Zn binding site [ion binding]; other site 395491014120 LysE type translocator; Region: LysE; cl00565 395491014121 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 395491014122 DNA binding site [nucleotide binding] 395491014123 Predicted ATPase [General function prediction only]; Region: COG3903 395491014124 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 395491014125 OsmC-like protein; Region: OsmC; cl00767 395491014126 Epoxide hydrolase N terminus; Region: EHN; pfam06441 395491014127 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395491014128 OsmC-like protein; Region: OsmC; cl00767 395491014129 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 395491014130 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 395491014131 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 395491014132 ANP binding site [chemical binding]; other site 395491014133 Substrate Binding Site II [chemical binding]; other site 395491014134 Substrate Binding Site I [chemical binding]; other site 395491014135 hypothetical protein; Provisional; Region: PRK06194 395491014136 classical (c) SDRs; Region: SDR_c; cd05233 395491014137 NAD(P) binding site [chemical binding]; other site 395491014138 active site 395491014139 LysE type translocator; Region: LysE; cl00565 395491014140 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 395491014141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491014142 Walker A/P-loop; other site 395491014143 ATP binding site [chemical binding]; other site 395491014144 Q-loop/lid; other site 395491014145 ABC transporter signature motif; other site 395491014146 Walker B; other site 395491014147 D-loop; other site 395491014148 H-loop/switch region; other site 395491014149 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 395491014150 TM-ABC transporter signature motif; other site 395491014151 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 395491014152 zinc binding site [ion binding]; other site 395491014153 putative ligand binding site [chemical binding]; other site 395491014154 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 395491014155 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 395491014156 FeS/SAM binding site; other site 395491014157 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 395491014158 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491014159 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 395491014160 DNA binding residues [nucleotide binding] 395491014161 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 395491014162 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 395491014163 aromatic arch; other site 395491014164 DCoH dimer interaction site [polypeptide binding]; other site 395491014165 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 395491014166 DCoH tetramer interaction site [polypeptide binding]; other site 395491014167 substrate binding site [chemical binding]; other site 395491014168 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395491014169 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 395491014170 active site 395491014171 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 395491014172 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395491014173 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395491014174 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 395491014175 active site 395491014176 catalytic triad [active] 395491014177 oxyanion hole [active] 395491014178 switch loop; other site 395491014179 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 395491014180 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395491014181 Walker A/P-loop; other site 395491014182 ATP binding site [chemical binding]; other site 395491014183 Q-loop/lid; other site 395491014184 ABC transporter signature motif; other site 395491014185 Walker B; other site 395491014186 D-loop; other site 395491014187 H-loop/switch region; other site 395491014188 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 395491014189 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395491014190 FtsX-like permease family; Region: FtsX; cl15850 395491014191 FtsX-like permease family; Region: FtsX; cl15850 395491014192 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 395491014193 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395491014194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491014195 Coenzyme A binding pocket [chemical binding]; other site 395491014196 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 395491014197 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 395491014198 aconitate hydratase; Validated; Region: PRK09277 395491014199 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 395491014200 substrate binding site [chemical binding]; other site 395491014201 ligand binding site [chemical binding]; other site 395491014202 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 395491014203 substrate binding site [chemical binding]; other site 395491014204 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 395491014205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491014206 Walker A/P-loop; other site 395491014207 ATP binding site [chemical binding]; other site 395491014208 Q-loop/lid; other site 395491014209 ABC transporter signature motif; other site 395491014210 Walker B; other site 395491014211 D-loop; other site 395491014212 H-loop/switch region; other site 395491014213 CcmB protein; Region: CcmB; cl01016 395491014214 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 395491014215 Heme exporter protein D (CcmD); Region: CcmD; cl11475 395491014216 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 395491014217 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 395491014218 catalytic residues [active] 395491014219 central insert; other site 395491014220 Protein of unknown function (DUF2585); Region: DUF2585; cl07906 395491014221 Intracellular septation protein A; Region: IspA; cl01098 395491014222 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 395491014223 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 395491014224 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491014225 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395491014226 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 395491014227 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 395491014228 FeS/SAM binding site; other site 395491014229 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 395491014230 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395491014231 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395491014232 signal recognition particle protein; Provisional; Region: PRK10867 395491014233 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 395491014234 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 395491014235 P loop; other site 395491014236 GTP binding site [chemical binding]; other site 395491014237 Signal peptide binding domain; Region: SRP_SPB; pfam02978 395491014238 Chorismate mutase type II; Region: CM_2; cl00693 395491014239 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 395491014240 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 395491014241 RimM N-terminal domain; Region: RimM; pfam01782 395491014242 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 395491014243 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 395491014244 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 395491014245 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491014246 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 395491014247 substrate binding pocket [chemical binding]; other site 395491014248 membrane-bound complex binding site; other site 395491014249 hinge residues; other site 395491014250 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 395491014251 dimer interface [polypeptide binding]; other site 395491014252 conserved gate region; other site 395491014253 putative PBP binding loops; other site 395491014254 ABC-ATPase subunit interface; other site 395491014255 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 395491014256 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 395491014257 substrate binding site [chemical binding]; other site 395491014258 ligand binding site [chemical binding]; other site 395491014259 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 395491014260 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395491014261 active site 395491014262 catalytic tetrad [active] 395491014263 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491014264 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491014265 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 395491014266 active site 395491014267 phosphorylation site [posttranslational modification] 395491014268 intermolecular recognition site; other site 395491014269 dimerization interface [polypeptide binding]; other site 395491014270 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 395491014271 DNA binding site [nucleotide binding] 395491014272 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 395491014273 ligand binding site [chemical binding]; other site 395491014274 flexible hinge region; other site 395491014275 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 395491014276 putative catalytic site [active] 395491014277 putative phosphate binding site [ion binding]; other site 395491014278 active site 395491014279 metal binding site A [ion binding]; metal-binding site 395491014280 DNA binding site [nucleotide binding] 395491014281 putative AP binding site [nucleotide binding]; other site 395491014282 putative metal binding site B [ion binding]; other site 395491014283 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 395491014284 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 395491014285 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 395491014286 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491014287 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 395491014288 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 395491014289 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395491014290 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395491014291 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 395491014292 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 395491014293 active site 395491014294 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 395491014295 catalytic triad [active] 395491014296 dimer interface [polypeptide binding]; other site 395491014297 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 395491014298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491014299 Trm112p-like protein; Region: Trm112p; cl01066 395491014300 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 395491014301 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 395491014302 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 395491014303 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 395491014304 TPR motif; other site 395491014305 binding surface 395491014306 Uncharacterized conserved protein [Function unknown]; Region: COG3760 395491014307 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 395491014308 putative deacylase active site [active] 395491014309 Uncharacterized conserved protein [Function unknown]; Region: COG5476 395491014310 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 395491014311 MlrC C-terminus; Region: MlrC_C; pfam07171 395491014312 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491014313 DNA-binding site [nucleotide binding]; DNA binding site 395491014314 FCD domain; Region: FCD; cl11656 395491014315 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_5; cd08511 395491014316 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491014317 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491014318 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 395491014319 dimer interface [polypeptide binding]; other site 395491014320 conserved gate region; other site 395491014321 putative PBP binding loops; other site 395491014322 ABC-ATPase subunit interface; other site 395491014323 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395491014324 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 395491014325 dimer interface [polypeptide binding]; other site 395491014326 conserved gate region; other site 395491014327 putative PBP binding loops; other site 395491014328 ABC-ATPase subunit interface; other site 395491014329 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 395491014330 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395491014331 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 395491014332 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 395491014333 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491014334 Walker A/P-loop; other site 395491014335 ATP binding site [chemical binding]; other site 395491014336 Q-loop/lid; other site 395491014337 ABC transporter signature motif; other site 395491014338 Walker B; other site 395491014339 D-loop; other site 395491014340 H-loop/switch region; other site 395491014341 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491014342 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491014343 Walker A/P-loop; other site 395491014344 ATP binding site [chemical binding]; other site 395491014345 Q-loop/lid; other site 395491014346 ABC transporter signature motif; other site 395491014347 Walker B; other site 395491014348 D-loop; other site 395491014349 H-loop/switch region; other site 395491014350 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491014351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 395491014352 Putative glucoamylase; Region: Glycoamylase; pfam10091 395491014353 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491014354 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 395491014355 Walker A/P-loop; other site 395491014356 ATP binding site [chemical binding]; other site 395491014357 Q-loop/lid; other site 395491014358 ABC transporter signature motif; other site 395491014359 Walker B; other site 395491014360 D-loop; other site 395491014361 H-loop/switch region; other site 395491014362 TOBE domain; Region: TOBE_2; cl01440 395491014363 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395491014364 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 395491014365 dimer interface [polypeptide binding]; other site 395491014366 conserved gate region; other site 395491014367 putative PBP binding loops; other site 395491014368 ABC-ATPase subunit interface; other site 395491014369 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; cl00427 395491014370 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 395491014371 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395491014372 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 395491014373 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491014374 tetrameric interface [polypeptide binding]; other site 395491014375 NAD binding site [chemical binding]; other site 395491014376 catalytic residues [active] 395491014377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491014378 FAD dependent oxidoreductase; Region: DAO; pfam01266 395491014379 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 395491014380 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 395491014381 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491014382 Helix-turn-helix domains; Region: HTH; cl00088 395491014383 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 395491014384 dimerization interface [polypeptide binding]; other site 395491014385 substrate binding pocket [chemical binding]; other site 395491014386 AsnC family; Region: AsnC_trans_reg; pfam01037 395491014387 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491014388 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395491014389 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395491014390 MatE; Region: MatE; cl10513 395491014391 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 395491014392 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 395491014393 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 395491014394 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 395491014395 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 395491014396 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 395491014397 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 395491014398 dimer interface [polypeptide binding]; other site 395491014399 motif 1; other site 395491014400 active site 395491014401 motif 2; other site 395491014402 motif 3; other site 395491014403 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395491014404 active site 395491014405 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395491014406 active site 395491014407 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395491014408 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 395491014409 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 395491014410 FeS/SAM binding site; other site 395491014411 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 attaches...; Region: class_II_aaRS-like_core; cl00268 395491014412 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 395491014413 motif 1; other site 395491014414 dimer interface [polypeptide binding]; other site 395491014415 active site 395491014416 motif 2; other site 395491014417 motif 3; other site 395491014418 elongation factor P; Validated; Region: PRK00529 395491014419 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 395491014420 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 395491014421 RNA binding site [nucleotide binding]; other site 395491014422 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 395491014423 RNA binding site [nucleotide binding]; other site 395491014424 hypothetical protein; Provisional; Region: PRK02947 395491014425 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 395491014426 putative active site [active] 395491014427 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 395491014428 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 395491014429 active site 395491014430 dimer interface [polypeptide binding]; other site 395491014431 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 395491014432 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 395491014433 dimer interface [polypeptide binding]; other site 395491014434 active site 395491014435 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 395491014436 dimer interface [polypeptide binding]; other site 395491014437 active site 395491014438 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395491014439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491014440 DNA-binding site [nucleotide binding]; DNA binding site 395491014441 UTRA domain; Region: UTRA; cl01230 395491014442 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 395491014443 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 395491014444 active site 395491014445 catalytic residues [active] 395491014446 homoserine O-succinyltransferase; Provisional; Region: PRK05368 395491014447 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 395491014448 proposed active site lysine [active] 395491014449 conserved cys residue [active] 395491014450 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 395491014451 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491014452 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 395491014453 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491014454 ABC transporter ATPase component; Reviewed; Region: PRK11147 395491014455 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491014456 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 395491014457 Thiamine pyrophosphokinase; Region: TPK; cd07995 395491014458 active site 395491014459 dimerization interface [polypeptide binding]; other site 395491014460 thiamine binding site [chemical binding]; other site 395491014461 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491014462 Helix-turn-helix domains; Region: HTH; cl00088 395491014463 Helix-turn-helix domains; Region: HTH; cl00088 395491014464 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 395491014465 putative substrate translocation pore; other site 395491014466 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 395491014467 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 395491014468 Peptidase family M48; Region: Peptidase_M48; cl12018 395491014469 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 395491014470 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491014471 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 395491014472 DNA binding residues [nucleotide binding] 395491014473 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 395491014474 Ferredoxin [Energy production and conversion]; Region: COG1146 395491014475 4Fe-4S binding domain; Region: Fer4; cl02805 395491014476 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 395491014477 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 395491014478 RNA binding surface [nucleotide binding]; other site 395491014479 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491014480 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 395491014481 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 395491014482 nucleotide binding region [chemical binding]; other site 395491014483 ATP-binding site [chemical binding]; other site 395491014484 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 395491014485 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 395491014486 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395491014487 NAD(P) binding site [chemical binding]; other site 395491014488 homotetramer interface [polypeptide binding]; other site 395491014489 homodimer interface [polypeptide binding]; other site 395491014490 active site 395491014491 putative acyltransferase; Provisional; Region: PRK05790 395491014492 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395491014493 dimer interface [polypeptide binding]; other site 395491014494 active site 395491014495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 395491014496 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 395491014497 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 395491014498 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 395491014499 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 395491014500 putative C-terminal domain interface [polypeptide binding]; other site 395491014501 putative GSH binding site (G-site) [chemical binding]; other site 395491014502 putative dimer interface [polypeptide binding]; other site 395491014503 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 395491014504 putative N-terminal domain interface [polypeptide binding]; other site 395491014505 putative dimer interface [polypeptide binding]; other site 395491014506 putative substrate binding pocket (H-site) [chemical binding]; other site 395491014507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 395491014508 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 395491014509 Transglycosylase; Region: Transgly; cl07896 395491014510 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395491014511 substrate binding pocket [chemical binding]; other site 395491014512 chain length determination region; other site 395491014513 substrate-Mg2+ binding site; other site 395491014514 catalytic residues [active] 395491014515 aspartate-rich region 1; other site 395491014516 active site lid residues [active] 395491014517 aspartate-rich region 2; other site 395491014518 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 395491014519 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 395491014520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491014521 homodimer interface [polypeptide binding]; other site 395491014522 catalytic residue [active] 395491014523 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 395491014524 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395491014525 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395491014526 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 395491014527 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491014528 putative substrate translocation pore; other site 395491014529 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395491014530 Helix-turn-helix domains; Region: HTH; cl00088 395491014531 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491014532 Predicted permeases [General function prediction only]; Region: RarD; COG2962 395491014533 EamA-like transporter family; Region: EamA; cl01037 395491014534 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491014535 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 395491014536 substrate binding pocket [chemical binding]; other site 395491014537 membrane-bound complex binding site; other site 395491014538 hinge residues; other site 395491014539 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491014540 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 395491014541 dimer interface [polypeptide binding]; other site 395491014542 conserved gate region; other site 395491014543 putative PBP binding loops; other site 395491014544 ABC-ATPase subunit interface; other site 395491014545 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491014546 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491014547 Walker A/P-loop; other site 395491014548 ATP binding site [chemical binding]; other site 395491014549 Q-loop/lid; other site 395491014550 ABC transporter signature motif; other site 395491014551 Walker B; other site 395491014552 D-loop; other site 395491014553 H-loop/switch region; other site 395491014554 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491014555 pyruvate carboxylase; Reviewed; Region: PRK12999 395491014556 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395491014557 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491014558 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395491014559 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 395491014560 active site 395491014561 catalytic residues [active] 395491014562 metal binding site [ion binding]; metal-binding site 395491014563 homodimer binding site [polypeptide binding]; other site 395491014564 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 395491014565 carboxyltransferase (CT) interaction site; other site 395491014566 biotinylation site [posttranslational modification]; other site 395491014567 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 395491014568 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395491014569 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 395491014570 DNA binding residues [nucleotide binding] 395491014571 dimerization interface [polypeptide binding]; other site 395491014572 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 395491014573 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491014574 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 395491014575 Walker A/P-loop; other site 395491014576 ATP binding site [chemical binding]; other site 395491014577 Q-loop/lid; other site 395491014578 ABC transporter signature motif; other site 395491014579 Walker B; other site 395491014580 D-loop; other site 395491014581 H-loop/switch region; other site 395491014582 DDE superfamily endonuclease; Region: DDE_4; cl15789 395491014583 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_5; cd07238 395491014584 dimer interface [polypeptide binding]; other site 395491014585 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491014586 OpgC protein; Region: OpgC_C; cl00792 395491014587 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395491014588 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 395491014589 Putative glucoamylase; Region: Glycoamylase; pfam10091 395491014590 Putative carbohydrate binding domain; Region: CBM_X; cl05621 395491014591 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 395491014592 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 395491014593 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 395491014594 Putative carbohydrate binding domain; Region: CBM_X; cl05621 395491014595 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 395491014596 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 395491014597 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395491014598 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491014599 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491014600 Walker A/P-loop; other site 395491014601 ATP binding site [chemical binding]; other site 395491014602 Q-loop/lid; other site 395491014603 ABC transporter signature motif; other site 395491014604 Walker B; other site 395491014605 D-loop; other site 395491014606 H-loop/switch region; other site 395491014607 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491014608 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491014609 Walker A/P-loop; other site 395491014610 ATP binding site [chemical binding]; other site 395491014611 Q-loop/lid; other site 395491014612 ABC transporter signature motif; other site 395491014613 Walker B; other site 395491014614 D-loop; other site 395491014615 H-loop/switch region; other site 395491014616 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491014617 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395491014618 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 395491014619 dimer interface [polypeptide binding]; other site 395491014620 conserved gate region; other site 395491014621 putative PBP binding loops; other site 395491014622 ABC-ATPase subunit interface; other site 395491014623 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491014624 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 395491014625 putative PBP binding loops; other site 395491014626 ABC-ATPase subunit interface; other site 395491014627 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_7; cd08512 395491014628 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491014629 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 395491014630 active site 395491014631 dimer interface [polypeptide binding]; other site 395491014632 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 395491014633 TM-ABC transporter signature motif; other site 395491014634 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491014635 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491014636 Walker A/P-loop; other site 395491014637 ATP binding site [chemical binding]; other site 395491014638 Q-loop/lid; other site 395491014639 ABC transporter signature motif; other site 395491014640 Walker B; other site 395491014641 D-loop; other site 395491014642 H-loop/switch region; other site 395491014643 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491014644 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395491014645 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 395491014646 putative ligand binding site [chemical binding]; other site 395491014647 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 395491014648 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395491014649 Sulfatase; Region: Sulfatase; cl10460 395491014650 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395491014651 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395491014652 NAD binding site [chemical binding]; other site 395491014653 homodimer interface [polypeptide binding]; other site 395491014654 active site 395491014655 substrate binding site [chemical binding]; other site 395491014656 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395491014657 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491014658 Coenzyme A binding pocket [chemical binding]; other site 395491014659 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491014660 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 395491014661 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 395491014662 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395491014663 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491014664 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395491014665 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491014666 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395491014667 putative catalytic site [active] 395491014668 putative metal binding site [ion binding]; other site 395491014669 putative phosphate binding site [ion binding]; other site 395491014670 GTPase CgtA; Reviewed; Region: obgE; PRK12299 395491014671 GTP1/OBG; Region: GTP1_OBG; pfam01018 395491014672 Obg GTPase; Region: Obg; cd01898 395491014673 G1 box; other site 395491014674 GTP/Mg2+ binding site [chemical binding]; other site 395491014675 Switch I region; other site 395491014676 G2 box; other site 395491014677 G3 box; other site 395491014678 Switch II region; other site 395491014679 G4 box; other site 395491014680 G5 box; other site 395491014681 gamma-glutamyl kinase; Provisional; Region: PRK05429 395491014682 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 395491014683 nucleotide binding site [chemical binding]; other site 395491014684 homotetrameric interface [polypeptide binding]; other site 395491014685 putative phosphate binding site [ion binding]; other site 395491014686 putative allosteric binding site; other site 395491014687 PUA domain; Region: PUA; cl00607 395491014688 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 395491014689 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 395491014690 putative catalytic cysteine [active] 395491014691 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 395491014692 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 395491014693 active site 395491014694 (T/H)XGH motif; other site 395491014695 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 395491014696 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; cl00427 395491014697 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491014698 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 395491014699 Walker A/P-loop; other site 395491014700 ATP binding site [chemical binding]; other site 395491014701 Q-loop/lid; other site 395491014702 ABC transporter signature motif; other site 395491014703 Walker B; other site 395491014704 D-loop; other site 395491014705 H-loop/switch region; other site 395491014706 TOBE domain; Region: TOBE_2; cl01440 395491014707 Helix-turn-helix domains; Region: HTH; cl00088 395491014708 Oligomerisation domain; Region: Oligomerisation; cl00519 395491014709 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 395491014710 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 395491014711 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 395491014712 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 395491014713 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 395491014714 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 395491014715 protein binding site [polypeptide binding]; other site 395491014716 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395491014717 Catalytic dyad [active] 395491014718 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 395491014719 NodB motif; other site 395491014720 putative active site [active] 395491014721 putative catalytic site [active] 395491014722 Zn binding site [ion binding]; other site 395491014723 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 395491014724 putative active site [active] 395491014725 Ap4A binding site [chemical binding]; other site 395491014726 nudix motif; other site 395491014727 putative metal binding site [ion binding]; other site 395491014728 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 395491014729 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 395491014730 heme binding site [chemical binding]; other site 395491014731 ferroxidase pore; other site 395491014732 ferroxidase diiron center [ion binding]; other site 395491014733 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395491014734 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 395491014735 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 395491014736 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 395491014737 generic binding surface II; other site 395491014738 generic binding surface I; other site 395491014739 Cell division inhibitor SulA; Region: SulA; cl01880 395491014740 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 395491014741 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 395491014742 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; cl09155 395491014743 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_8; cd07246 395491014744 putative dimer interface [polypeptide binding]; other site 395491014745 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491014746 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 395491014747 substrate binding site [chemical binding]; other site 395491014748 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 395491014749 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 395491014750 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491014751 catalytic residue [active] 395491014752 tartrate dehydrogenase; Provisional; Region: PRK08194 395491014753 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 395491014754 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 395491014755 active site 395491014756 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 395491014757 putative substrate translocation pore; other site 395491014758 metabolite-proton symporter; Region: 2A0106; TIGR00883 395491014759 FtsX-like permease family; Region: FtsX; cl15850 395491014760 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395491014761 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395491014762 Walker A/P-loop; other site 395491014763 ATP binding site [chemical binding]; other site 395491014764 Q-loop/lid; other site 395491014765 ABC transporter signature motif; other site 395491014766 Walker B; other site 395491014767 D-loop; other site 395491014768 H-loop/switch region; other site 395491014769 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 395491014770 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 395491014771 dimer interface [polypeptide binding]; other site 395491014772 active site 395491014773 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 395491014774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491014775 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 395491014776 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 395491014777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491014778 metal binding site [ion binding]; metal-binding site 395491014779 active site 395491014780 I-site; other site 395491014781 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_cladeB; cd00884 395491014782 active site clefts [active] 395491014783 zinc binding site [ion binding]; other site 395491014784 dimer interface [polypeptide binding]; other site 395491014785 pyridoxamine kinase; Validated; Region: PRK05756 395491014786 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 395491014787 pyridoxal binding site [chemical binding]; other site 395491014788 dimer interface [polypeptide binding]; other site 395491014789 ATP binding site [chemical binding]; other site 395491014790 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 395491014791 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 395491014792 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 395491014793 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 395491014794 purine monophosphate binding site [chemical binding]; other site 395491014795 dimer interface [polypeptide binding]; other site 395491014796 putative catalytic residues [active] 395491014797 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 395491014798 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 395491014799 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 395491014800 16S rRNA methyltransferase B; Provisional; Region: PRK10901 395491014801 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 395491014802 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; cl16911 395491014803 Peptidase family M48; Region: Peptidase_M48; cl12018 395491014804 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 395491014805 acetyl-CoA synthetase; Provisional; Region: PRK00174 395491014806 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 395491014807 AMP-binding enzyme; Region: AMP-binding; cl15778 395491014808 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491014809 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 395491014810 flagellin; Reviewed; Region: PRK12687 395491014811 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395491014812 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395491014813 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 395491014814 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 395491014815 AMP-binding enzyme; Region: AMP-binding; cl15778 395491014816 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491014817 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 395491014818 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395491014819 catalytic residue [active] 395491014820 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 395491014821 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 395491014822 HIGH motif; other site 395491014823 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395491014824 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395491014825 active site 395491014826 KMSKS motif; other site 395491014827 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 395491014828 tRNA binding surface [nucleotide binding]; other site 395491014829 Lipopolysaccharide-assembly; Region: LptE; cl01125 395491014830 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 395491014831 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 395491014832 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 395491014833 ParB-like nuclease domain; Region: ParBc; cl02129 395491014834 KorB domain; Region: KorB; pfam08535 395491014835 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395491014836 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 395491014837 P-loop; other site 395491014838 Magnesium ion binding site [ion binding]; other site 395491014839 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 395491014840 Magnesium ion binding site [ion binding]; other site 395491014841 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; cl16911 395491014842 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 395491014843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491014844 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 395491014845 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 395491014846 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 395491014847 trmE is a tRNA modification GTPase; Region: trmE; cd04164 395491014848 G1 box; other site 395491014849 GTP/Mg2+ binding site [chemical binding]; other site 395491014850 Switch I region; other site 395491014851 G2 box; other site 395491014852 Switch II region; other site 395491014853 G3 box; other site 395491014854 G4 box; other site 395491014855 G5 box; other site 395491014856 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 395491014857 transcription termination factor Rho; Provisional; Region: rho; PRK09376 395491014858 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 395491014859 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 395491014860 RNA binding site [nucleotide binding]; other site 395491014861 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 395491014862 multimer interface [polypeptide binding]; other site 395491014863 Walker A motif; other site 395491014864 ATP binding site [chemical binding]; other site 395491014865 Walker B motif; other site 395491014866 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 395491014867 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 395491014868 substrate binding site [chemical binding]; other site 395491014869 active site 395491014870 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 395491014871 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 395491014872 active site 395491014873 dimer interface [polypeptide binding]; other site 395491014874 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 395491014875 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395491014876 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395491014877 shikimate binding site; other site 395491014878 NAD(P) binding site [chemical binding]; other site 395491014879 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 395491014880 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 395491014881 CoA-binding site [chemical binding]; other site 395491014882 ATP-binding [chemical binding]; other site 395491014883 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 395491014884 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 395491014885 active site 395491014886 catalytic site [active] 395491014887 substrate binding site [chemical binding]; other site 395491014888 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; cl00251 395491014889 SecA binding site; other site 395491014890 Preprotein binding site; other site 395491014891 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 395491014892 Tim44-like domain; Region: Tim44; cl09208 395491014893 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 395491014894 MltA specific insert domain; Region: MltA; cl08398 395491014895 3D domain; Region: 3D; cl01439 395491014896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 395491014897 Smr domain; Region: Smr; cl02619 395491014898 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395491014899 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 395491014900 non-specific DNA binding site [nucleotide binding]; other site 395491014901 salt bridge; other site 395491014902 sequence-specific DNA binding site [nucleotide binding]; other site 395491014903 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 395491014904 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 395491014905 Mg2+ binding site [ion binding]; other site 395491014906 G-X-G motif; other site 395491014907 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 395491014908 anchoring element; other site 395491014909 dimer interface [polypeptide binding]; other site 395491014910 ATP binding site [chemical binding]; other site 395491014911 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 395491014912 active site 395491014913 putative metal-binding site [ion binding]; other site 395491014914 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395491014915 Nitroreductase-like family 2. 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_2; cd02138 395491014916 putative FMN binding site [chemical binding]; other site 395491014917 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 395491014918 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 395491014919 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491014920 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 395491014921 putative dimer interface [polypeptide binding]; other site 395491014922 N-terminal domain interface [polypeptide binding]; other site 395491014923 putative substrate binding pocket (H-site) [chemical binding]; other site 395491014924 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 395491014925 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395491014926 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 395491014927 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 395491014928 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 395491014929 Protein of unknown function DUF45; Region: DUF45; cl00636 395491014930 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 monomeric; Region: PRAI; cd00405 395491014931 active site 395491014932 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 395491014933 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 395491014934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491014935 catalytic residue [active] 395491014936 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 395491014937 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 395491014938 substrate binding site [chemical binding]; other site 395491014939 active site 395491014940 catalytic residues [active] 395491014941 heterodimer interface [polypeptide binding]; other site 395491014942 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 395491014943 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395491014944 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 395491014945 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 395491014946 catalytic residues [active] 395491014947 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 395491014948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491014949 Family description; Region: UvrD_C_2; cl15862 395491014950 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 395491014951 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 395491014952 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 395491014953 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 395491014954 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 395491014955 Substrate binding site; other site 395491014956 metal-binding site 395491014957 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 395491014958 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491014959 Phosphotransferase enzyme family; Region: APH; pfam01636 395491014960 PAS fold; Region: PAS_7; pfam12860 395491014961 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395491014962 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 395491014963 dimer interface [polypeptide binding]; other site 395491014964 phosphorylation site [posttranslational modification] 395491014965 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 395491014966 ATP binding site [chemical binding]; other site 395491014967 Mg2+ binding site [ion binding]; other site 395491014968 G-X-G motif; other site 395491014969 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 395491014970 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 395491014971 oligomerization interface [polypeptide binding]; other site 395491014972 active site 395491014973 NAD+ binding site [chemical binding]; other site 395491014974 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 395491014975 dimerization domain swap beta strand [polypeptide binding]; other site 395491014976 regulatory protein interface [polypeptide binding]; other site 395491014977 active site 395491014978 regulatory phosphorylation site [posttranslational modification]; other site 395491014979 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 395491014980 active pocket/dimerization site; other site 395491014981 active site 395491014982 phosphorylation site [posttranslational modification] 395491014983 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 395491014984 Hpr binding site; other site 395491014985 active site 395491014986 homohexamer subunit interaction site [polypeptide binding]; other site 395491014987 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 395491014988 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 395491014989 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; cl01054 395491014990 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 395491014991 dimer interface [polypeptide binding]; other site 395491014992 phosphorylation site [posttranslational modification] 395491014993 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 395491014994 ATP binding site [chemical binding]; other site 395491014995 Mg2+ binding site [ion binding]; other site 395491014996 G-X-G motif; other site 395491014997 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 395491014998 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 395491014999 active site 395491015000 phosphorylation site [posttranslational modification] 395491015001 intermolecular recognition site; other site 395491015002 dimerization interface [polypeptide binding]; other site 395491015003 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 395491015004 DNA binding site [nucleotide binding] 395491015005 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 395491015006 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 395491015007 active site 395491015008 substrate-binding site [chemical binding]; other site 395491015009 metal-binding site [ion binding] 395491015010 ATP binding site [chemical binding]; other site 395491015011 RF-1 domain; Region: RF-1; cl02875 395491015012 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395491015013 pantothenate kinase; Provisional; Region: PRK05439 395491015014 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 in...; Region: PanK; cd02025 395491015015 ATP-binding site [chemical binding]; other site 395491015016 CoA-binding site [chemical binding]; other site 395491015017 Mg2+-binding site [ion binding]; other site 395491015018 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 395491015019 metal binding site [ion binding]; metal-binding site 395491015020 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 395491015021 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 395491015022 substrate binding site [chemical binding]; other site 395491015023 glutamase interaction surface [polypeptide binding]; other site 395491015024 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 395491015025 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 395491015026 catalytic residues [active] 395491015027 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 395491015028 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 395491015029 putative active site [active] 395491015030 oxyanion strand; other site 395491015031 catalytic triad [active] 395491015032 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 395491015033 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 395491015034 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 395491015035 putative active site pocket [active] 395491015036 4-fold oligomerization interface [polypeptide binding]; other site 395491015037 metal binding residues [ion binding]; metal-binding site 395491015038 3-fold/trimer interface [polypeptide binding]; other site 395491015039 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 395491015040 active site 395491015041 HslU subunit interaction site [polypeptide binding]; other site 395491015042 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 395491015043 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 395491015044 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491015045 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 395491015046 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 395491015047 Walker A motif; other site 395491015048 ATP binding site [chemical binding]; other site 395491015049 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491015050 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395491015051 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 395491015052 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 395491015053 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 395491015054 active site 395491015055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395491015056 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491015057 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 395491015058 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 395491015059 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 395491015060 active site 395491015061 phosphorylation site [posttranslational modification] 395491015062 intermolecular recognition site; other site 395491015063 dimerization interface [polypeptide binding]; other site 395491015064 Helix-turn-helix domains; Region: HTH; cl00088 395491015065 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395491015066 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 395491015067 dimer interface [polypeptide binding]; other site 395491015068 phosphorylation site [posttranslational modification] 395491015069 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 395491015070 ATP binding site [chemical binding]; other site 395491015071 Mg2+ binding site [ion binding]; other site 395491015072 G-X-G motif; other site 395491015073 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 395491015074 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 395491015075 ATP binding site [chemical binding]; other site 395491015076 putative Mg++ binding site [ion binding]; other site 395491015077 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 395491015078 nucleotide binding region [chemical binding]; other site 395491015079 ATP-binding site [chemical binding]; other site 395491015080 Helicase associated domain (HA2); Region: HA2; cl04503 395491015081 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 395491015082 ornithine cyclodeaminase; Validated; Region: PRK06141 395491015083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015084 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491015085 Walker A motif; other site 395491015086 ATP binding site [chemical binding]; other site 395491015087 Walker B motif; other site 395491015088 arginine finger; other site 395491015089 Family description; Region: UvrD_C_2; cl15862 395491015090 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491015091 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 395491015092 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395491015093 binding surface 395491015094 TPR motif; other site 395491015095 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 395491015096 binding surface 395491015097 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395491015098 TPR motif; other site 395491015099 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395491015100 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395491015101 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491015102 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491015103 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 395491015104 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491015105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491015106 Walker A/P-loop; other site 395491015107 ATP binding site [chemical binding]; other site 395491015108 Q-loop/lid; other site 395491015109 ABC transporter signature motif; other site 395491015110 Walker B; other site 395491015111 D-loop; other site 395491015112 H-loop/switch region; other site 395491015113 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395491015114 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 395491015115 DNA binding residues [nucleotide binding] 395491015116 dimerization interface [polypeptide binding]; other site 395491015117 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 395491015118 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491015119 NAD binding site [chemical binding]; other site 395491015120 putative substrate binding site 2 [chemical binding]; other site 395491015121 putative substrate binding site 1 [chemical binding]; other site 395491015122 active site 395491015123 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395491015124 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395491015125 NAD binding site [chemical binding]; other site 395491015126 homodimer interface [polypeptide binding]; other site 395491015127 active site 395491015128 substrate binding site [chemical binding]; other site 395491015129 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 395491015130 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 395491015131 active site 395491015132 Protein of unknown function (DUF995); Region: DUF995; pfam06191 395491015133 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 395491015134 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491015135 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 395491015136 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491015137 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491015138 DNA binding site [nucleotide binding] 395491015139 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491015140 ligand binding site [chemical binding]; other site 395491015141 dimerization interface [polypeptide binding]; other site 395491015142 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 395491015143 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 395491015144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015145 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491015146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015147 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491015148 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491015149 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; cl00230 395491015150 Protein of unknown function (DUF993); Region: DUF993; pfam06187 395491015151 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491015152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015153 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 395491015154 Helix-turn-helix domains; Region: HTH; cl00088 395491015155 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491015156 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 395491015157 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 395491015158 dimer interface [polypeptide binding]; other site 395491015159 conserved gate region; other site 395491015160 putative PBP binding loops; other site 395491015161 ABC-ATPase subunit interface; other site 395491015162 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 395491015163 dimer interface [polypeptide binding]; other site 395491015164 conserved gate region; other site 395491015165 putative PBP binding loops; other site 395491015166 ABC-ATPase subunit interface; other site 395491015167 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491015168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015169 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491015170 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491015171 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491015172 Walker A/P-loop; other site 395491015173 ATP binding site [chemical binding]; other site 395491015174 Q-loop/lid; other site 395491015175 ABC transporter signature motif; other site 395491015176 Walker B; other site 395491015177 D-loop; other site 395491015178 H-loop/switch region; other site 395491015179 TOBE domain; Region: TOBE_2; cl01440 395491015180 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 395491015181 Phosphotransferase enzyme family; Region: APH; pfam01636 395491015182 active site 395491015183 ATP binding site [chemical binding]; other site 395491015184 substrate binding site [chemical binding]; other site 395491015185 dimer interface [polypeptide binding]; other site 395491015186 FAD dependent oxidoreductase; Region: DAO; pfam01266 395491015187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015188 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395491015189 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 395491015190 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395491015191 Helix-turn-helix domains; Region: HTH; cl00088 395491015192 Winged helix-turn helix; Region: HTH_29; pfam13551 395491015193 Helix-turn-helix domains; Region: HTH; cl00088 395491015194 Integrase core domain; Region: rve; cl01316 395491015195 Integrase core domain; Region: rve_3; cl15866 395491015196 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 395491015197 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 395491015198 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 395491015199 Glucuronate isomerase; Region: UxaC; cl00829 395491015200 SlyX; Region: SlyX; cl01090 395491015201 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491015202 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395491015203 tetramerization interface [polypeptide binding]; other site 395491015204 NAD(P) binding site [chemical binding]; other site 395491015205 catalytic residues [active] 395491015206 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 395491015207 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 395491015208 inhibitor-cofactor binding pocket; inhibition site 395491015209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491015210 catalytic residue [active] 395491015211 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 395491015212 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395491015213 DNA binding residues [nucleotide binding] 395491015214 dimer interface [polypeptide binding]; other site 395491015215 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 395491015216 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491015217 Cupin domain; Region: Cupin_2; cl09118 395491015218 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 395491015219 catalytic site [active] 395491015220 putative active site [active] 395491015221 putative substrate binding site [chemical binding]; other site 395491015222 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 395491015223 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 395491015224 RNA binding site [nucleotide binding]; other site 395491015225 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 395491015226 RNA binding site [nucleotide binding]; other site 395491015227 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 395491015228 RNA binding site [nucleotide binding]; other site 395491015229 S1_RPS1_repeat_ec4: 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 395491015230 RNA binding site [nucleotide binding]; other site 395491015231 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 395491015232 RNA binding site [nucleotide binding]; other site 395491015233 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 395491015234 RNA binding site [nucleotide binding]; other site 395491015235 cytidylate kinase; Provisional; Region: cmk; PRK00023 395491015236 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 395491015237 CMP-binding site; other site 395491015238 The sites determining sugar specificity; other site 395491015239 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 395491015240 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 395491015241 hinge; other site 395491015242 active site 395491015243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 395491015244 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 395491015245 GIY-YIG motif/motif A; other site 395491015246 putative active site [active] 395491015247 putative metal binding site [ion binding]; other site 395491015248 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 395491015249 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 395491015250 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 395491015251 Prostaglandin dehydrogenases; Region: PGDH; cd05288 395491015252 NAD(P) binding site [chemical binding]; other site 395491015253 substrate binding site [chemical binding]; other site 395491015254 dimer interface [polypeptide binding]; other site 395491015255 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395491015256 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 395491015257 substrate binding pocket [chemical binding]; other site 395491015258 membrane-bound complex binding site; other site 395491015259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 395491015260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015261 serine acetyltransferase; Provisional; Region: cysE; PRK11132 395491015262 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 395491015263 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 395491015264 trimer interface [polypeptide binding]; other site 395491015265 active site 395491015266 substrate binding site [chemical binding]; other site 395491015267 CoA binding site [chemical binding]; other site 395491015268 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 395491015269 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 395491015270 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 395491015271 putative active site [active] 395491015272 Predicted membrane protein [Function unknown]; Region: COG2860 395491015273 UPF0126 domain; Region: UPF0126; pfam03458 395491015274 UPF0126 domain; Region: UPF0126; pfam03458 395491015275 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395491015276 metal binding site 2 [ion binding]; metal-binding site 395491015277 putative DNA binding helix; other site 395491015278 metal binding site 1 [ion binding]; metal-binding site 395491015279 dimer interface [polypeptide binding]; other site 395491015280 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 395491015281 active site 1 [active] 395491015282 dimer interface [polypeptide binding]; other site 395491015283 active site 2 [active] 395491015284 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 395491015285 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 395491015286 dimer interface [polypeptide binding]; other site 395491015287 active site 395491015288 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 395491015289 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395491015290 NAD binding site [chemical binding]; other site 395491015291 homotetramer interface [polypeptide binding]; other site 395491015292 homodimer interface [polypeptide binding]; other site 395491015293 substrate binding site [chemical binding]; other site 395491015294 active site 395491015295 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 395491015296 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; cl16911 395491015297 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 395491015298 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 395491015299 RNase E interface [polypeptide binding]; other site 395491015300 trimer interface [polypeptide binding]; other site 395491015301 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 395491015302 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 395491015303 RNase E interface [polypeptide binding]; other site 395491015304 trimer interface [polypeptide binding]; other site 395491015305 active site 395491015306 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 395491015307 putative nucleic acid binding region [nucleotide binding]; other site 395491015308 G-X-X-G motif; other site 395491015309 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 395491015310 RNA binding site [nucleotide binding]; other site 395491015311 domain interface; other site 395491015312 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 395491015313 16S/18S rRNA binding site [nucleotide binding]; other site 395491015314 S13e-L30e interaction site [polypeptide binding]; other site 395491015315 25S rRNA binding site [nucleotide binding]; other site 395491015316 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491015317 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 395491015318 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 395491015319 RNA binding site [nucleotide binding]; other site 395491015320 active site 395491015321 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 395491015322 Ribosome-binding factor A; Region: RBFA; cl00542 395491015323 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 395491015324 translation initiation factor IF-2; Region: IF-2; TIGR00487 395491015325 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 395491015326 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 395491015327 G1 box; other site 395491015328 putative GEF interaction site [polypeptide binding]; other site 395491015329 GTP/Mg2+ binding site [chemical binding]; other site 395491015330 Switch I region; other site 395491015331 G2 box; other site 395491015332 G3 box; other site 395491015333 Switch II region; other site 395491015334 G4 box; other site 395491015335 G5 box; other site 395491015336 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 395491015337 Translation-initiation factor 2; Region: IF-2; pfam11987 395491015338 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 395491015339 hypothetical protein; Provisional; Region: PRK09190 395491015340 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 395491015341 putative RNA binding cleft [nucleotide binding]; other site 395491015342 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 395491015343 NusA N-terminal domain; Region: NusA_N; pfam08529 395491015344 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 395491015345 RNA binding site [nucleotide binding]; other site 395491015346 homodimer interface [polypeptide binding]; other site 395491015347 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 395491015348 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 395491015349 G-X-X-G motif; other site 395491015350 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 395491015351 ribosome maturation protein RimP; Reviewed; Region: PRK00092 395491015352 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 395491015353 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 395491015354 Sm1 motif; other site 395491015355 D1 - D2 interaction site; other site 395491015356 D3 - B interaction site; other site 395491015357 Hfq - Hfq interaction site; other site 395491015358 RNA binding pocket [nucleotide binding]; other site 395491015359 Sm2 motif; other site 395491015360 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 395491015361 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491015362 Transglycosylase SLT domain; Region: SLT_2; pfam13406 395491015363 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 catalyze...; Region: LT_GEWL; cd00254 395491015364 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395491015365 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491015366 recombination protein RecR; Reviewed; Region: recR; PRK00076 395491015367 RecR protein; Region: RecR; pfam02132 395491015368 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 395491015369 putative active site [active] 395491015370 putative metal-binding site [ion binding]; other site 395491015371 tetramer interface [polypeptide binding]; other site 395491015372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 395491015373 MOSC domain; Region: MOSC; pfam03473 395491015374 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 395491015375 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 395491015376 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 395491015377 Walker A motif; other site 395491015378 ATP binding site [chemical binding]; other site 395491015379 Walker B motif; other site 395491015380 arginine finger; other site 395491015381 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 395491015382 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 395491015383 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 395491015384 nucleotide binding site/active site [active] 395491015385 HIT family signature motif; other site 395491015386 catalytic residue [active] 395491015387 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 395491015388 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 395491015389 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 395491015390 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 395491015391 putative NADH binding site [chemical binding]; other site 395491015392 putative active site [active] 395491015393 nudix motif; other site 395491015394 putative metal binding site [ion binding]; other site 395491015395 Helix-turn-helix domains; Region: HTH; cl00088 395491015396 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 395491015397 WYL domain; Region: WYL; cl14852 395491015398 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_11; cd07261 395491015399 putative dimer interface [polypeptide binding]; other site 395491015400 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491015401 prephenate dehydratase; Provisional; Region: PRK11899 395491015402 Prephenate dehydratase; Region: PDT; pfam00800 395491015403 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 395491015404 putative L-Phe binding site [chemical binding]; other site 395491015405 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 395491015406 Ligand binding site; other site 395491015407 oligomer interface; other site 395491015408 Cytochrome c; Region: Cytochrom_C; cl11414 395491015409 Membrane transport protein; Region: Mem_trans; cl09117 395491015410 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 395491015411 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491015412 substrate binding site [chemical binding]; other site 395491015413 ATP binding site [chemical binding]; other site 395491015414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 395491015415 Bacterial SH3 domain; Region: SH3_3; cl02551 395491015416 Bacterial SH3 domain; Region: SH3_3; cl02551 395491015417 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395491015418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491015420 Coenzyme A binding pocket [chemical binding]; other site 395491015421 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 395491015422 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 395491015423 ATP binding site [chemical binding]; other site 395491015424 substrate interface [chemical binding]; other site 395491015425 recombination protein F; Reviewed; Region: recF; PRK00064 395491015426 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 395491015427 Walker A/P-loop; other site 395491015428 ATP binding site [chemical binding]; other site 395491015429 Q-loop/lid; other site 395491015430 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491015431 ABC transporter signature motif; other site 395491015432 Walker B; other site 395491015433 D-loop; other site 395491015434 H-loop/switch region; other site 395491015435 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 395491015436 non-specific DNA binding site [nucleotide binding]; other site 395491015437 salt bridge; other site 395491015438 sequence-specific DNA binding site [nucleotide binding]; other site 395491015439 chaperone protein DnaJ; Provisional; Region: PRK10767 395491015440 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 395491015441 HSP70 interaction site [polypeptide binding]; other site 395491015442 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 395491015443 substrate binding site [polypeptide binding]; other site 395491015444 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 395491015445 Zn binding sites [ion binding]; other site 395491015446 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395491015447 dimer interface [polypeptide binding]; other site 395491015448 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 395491015449 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 395491015450 Transglycosylase; Region: Transgly; cl07896 395491015451 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395491015452 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491015453 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 395491015454 Bacterial SH3 domain; Region: SH3_3; cl02551 395491015455 hypothetical protein; Validated; Region: PRK09104 395491015456 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 395491015457 metal binding site [ion binding]; metal-binding site 395491015458 putative dimer interface [polypeptide binding]; other site 395491015459 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395491015460 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395491015461 PAS domain S-box; Region: sensory_box; TIGR00229 395491015462 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491015463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491015464 metal binding site [ion binding]; metal-binding site 395491015465 active site 395491015466 I-site; other site 395491015467 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491015468 Helix-turn-helix domains; Region: HTH; cl00088 395491015469 transcriptional regulator SlyA; Provisional; Region: PRK03573 395491015470 5'-3' exonuclease; Region: 53EXOc; smart00475 395491015471 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 395491015472 active site 395491015473 metal binding site 1 [ion binding]; metal-binding site 395491015474 putative 5' ssDNA interaction site; other site 395491015475 metal binding site 3; metal-binding site 395491015476 metal binding site 2 [ion binding]; metal-binding site 395491015477 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 395491015478 putative DNA binding site [nucleotide binding]; other site 395491015479 putative metal binding site [ion binding]; other site 395491015480 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 395491015481 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 395491015482 active site 395491015483 catalytic site [active] 395491015484 substrate binding site [chemical binding]; other site 395491015485 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 395491015486 active site 395491015487 DNA binding site [nucleotide binding] 395491015488 catalytic site [active] 395491015489 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491015490 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 395491015491 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 395491015492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491015493 active site 395491015494 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491015495 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 395491015496 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 395491015497 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 395491015498 active site 395491015499 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 395491015500 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 395491015501 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 395491015502 dimer interface [polypeptide binding]; other site 395491015503 conserved gate region; other site 395491015504 ABC-ATPase subunit interface; other site 395491015505 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395491015506 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 395491015507 dimer interface [polypeptide binding]; other site 395491015508 conserved gate region; other site 395491015509 ABC-ATPase subunit interface; other site 395491015510 NMT1-like family; Region: NMT1_2; cl15260 395491015511 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395491015512 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 395491015513 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 395491015514 Walker A/P-loop; other site 395491015515 ATP binding site [chemical binding]; other site 395491015516 Q-loop/lid; other site 395491015517 ABC transporter signature motif; other site 395491015518 Walker B; other site 395491015519 D-loop; other site 395491015520 H-loop/switch region; other site 395491015521 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 395491015522 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 395491015523 trimer interface [polypeptide binding]; other site 395491015524 active site 395491015525 substrate binding site [chemical binding]; other site 395491015526 CoA binding site [chemical binding]; other site 395491015527 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 395491015528 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491015529 Walker A/P-loop; other site 395491015530 ATP binding site [chemical binding]; other site 395491015531 Q-loop/lid; other site 395491015532 ABC transporter signature motif; other site 395491015533 Walker B; other site 395491015534 D-loop; other site 395491015535 H-loop/switch region; other site 395491015536 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 395491015537 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491015538 Walker A/P-loop; other site 395491015539 ATP binding site [chemical binding]; other site 395491015540 Q-loop/lid; other site 395491015541 ABC transporter signature motif; other site 395491015542 Walker B; other site 395491015543 D-loop; other site 395491015544 H-loop/switch region; other site 395491015545 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491015546 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 395491015547 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 395491015548 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 395491015549 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 395491015550 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 395491015551 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491015552 DNA-binding site [nucleotide binding]; DNA binding site 395491015553 UTRA domain; Region: UTRA; cl01230 395491015554 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 395491015555 catalytic core [active] 395491015556 dihydrodipicolinate reductase; Provisional; Region: PRK00048 395491015557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015558 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395491015559 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 395491015560 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491015561 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 395491015562 Walker A/P-loop; other site 395491015563 ATP binding site [chemical binding]; other site 395491015564 Q-loop/lid; other site 395491015565 ABC transporter signature motif; other site 395491015566 Walker B; other site 395491015567 D-loop; other site 395491015568 H-loop/switch region; other site 395491015569 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491015570 glucokinase, proteobacterial type; Region: glk; TIGR00749 395491015571 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 395491015572 active site 395491015573 dimer interfaces [polypeptide binding]; other site 395491015574 catalytic residues [active] 395491015575 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 395491015576 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 395491015577 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 395491015578 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_14; cd08497 395491015579 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 395491015580 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 395491015581 dimer interface [polypeptide binding]; other site 395491015582 conserved gate region; other site 395491015583 putative PBP binding loops; other site 395491015584 ABC-ATPase subunit interface; other site 395491015585 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 395491015586 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 395491015587 dimer interface [polypeptide binding]; other site 395491015588 conserved gate region; other site 395491015589 putative PBP binding loops; other site 395491015590 ABC-ATPase subunit interface; other site 395491015591 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 395491015592 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491015593 Walker A/P-loop; other site 395491015594 ATP binding site [chemical binding]; other site 395491015595 Q-loop/lid; other site 395491015596 ABC transporter signature motif; other site 395491015597 Walker B; other site 395491015598 D-loop; other site 395491015599 H-loop/switch region; other site 395491015600 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491015601 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491015602 Walker A/P-loop; other site 395491015603 ATP binding site [chemical binding]; other site 395491015604 Q-loop/lid; other site 395491015605 ABC transporter signature motif; other site 395491015606 Walker B; other site 395491015607 D-loop; other site 395491015608 H-loop/switch region; other site 395491015609 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491015610 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395491015611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015612 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 395491015613 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; cl09108 395491015614 active site 395491015615 KTSC domain; Region: KTSC; pfam13619 395491015616 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491015617 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 395491015618 putative DNA binding site [nucleotide binding]; other site 395491015619 dimerization interface [polypeptide binding]; other site 395491015620 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 395491015621 putative Zn2+ binding site [ion binding]; other site 395491015622 AsnC family; Region: AsnC_trans_reg; pfam01037 395491015623 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 395491015624 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 395491015625 ligand binding site [chemical binding]; other site 395491015626 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395491015627 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491015628 Walker A/P-loop; other site 395491015629 ATP binding site [chemical binding]; other site 395491015630 Q-loop/lid; other site 395491015631 ABC transporter signature motif; other site 395491015632 Walker B; other site 395491015633 D-loop; other site 395491015634 H-loop/switch region; other site 395491015635 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491015636 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491015637 TM-ABC transporter signature motif; other site 395491015638 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491015639 TM-ABC transporter signature motif; other site 395491015640 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 395491015641 active site 395491015642 catalytic motif [active] 395491015643 Zn binding site [ion binding]; other site 395491015644 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395491015645 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 395491015646 intersubunit interface [polypeptide binding]; other site 395491015647 active site 395491015648 catalytic residue [active] 395491015649 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 395491015650 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395491015651 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 395491015652 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 395491015653 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 395491015654 catalytic motif [active] 395491015655 Catalytic residue [active] 395491015656 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395491015657 active site 395491015658 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 395491015659 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 395491015660 active site 395491015661 purine riboside binding site [chemical binding]; other site 395491015662 Sulfatase; Region: Sulfatase; cl10460 395491015663 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 395491015664 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395491015665 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395491015666 TadE-like protein; Region: TadE; cl10688 395491015667 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 395491015668 Flp/Fap pilin component; Region: Flp_Fap; cl01585 395491015669 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 395491015670 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 395491015671 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 395491015672 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 395491015673 BON domain; Region: BON; cl02771 395491015674 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395491015675 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 395491015676 Type IV pili component [Cell motility and secretion]; Region: COG5461; cl02279 395491015677 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 395491015678 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 395491015679 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 395491015680 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 395491015681 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 395491015682 ATP binding site [chemical binding]; other site 395491015683 Walker A motif; other site 395491015684 hexamer interface [polypeptide binding]; other site 395491015685 Walker B motif; other site 395491015686 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 395491015687 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395491015688 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395491015689 LysE type translocator; Region: LysE; cl00565 395491015690 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 395491015691 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 395491015692 TPR motif; other site 395491015693 binding surface 395491015694 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 395491015695 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 395491015696 interface (dimer of trimers) [polypeptide binding]; other site 395491015697 Substrate-binding/catalytic site; other site 395491015698 Zn-binding sites [ion binding]; other site 395491015699 Helix-turn-helix domains; Region: HTH; cl00088 395491015700 NlpC/P60 family; Region: NLPC_P60; cl11438 395491015701 amidase; Provisional; Region: PRK07042 395491015702 Amidase; Region: Amidase; cl11426 395491015703 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395491015704 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 395491015705 dimer interface [polypeptide binding]; other site 395491015706 conserved gate region; other site 395491015707 putative PBP binding loops; other site 395491015708 ABC-ATPase subunit interface; other site 395491015709 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491015710 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 395491015711 dimer interface [polypeptide binding]; other site 395491015712 conserved gate region; other site 395491015713 putative PBP binding loops; other site 395491015714 ABC-ATPase subunit interface; other site 395491015715 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_6; cd08494 395491015716 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491015717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491015718 Helix-turn-helix domains; Region: HTH; cl00088 395491015719 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 395491015720 dimerization interface [polypeptide binding]; other site 395491015721 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 395491015722 putative active site pocket [active] 395491015723 cleavage site 395491015724 hypothetical protein; Provisional; Region: PRK06149 395491015725 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491015726 active site 395491015727 substrate binding site [chemical binding]; other site 395491015728 ATP binding site [chemical binding]; other site 395491015729 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 395491015730 inhibitor-cofactor binding pocket; inhibition site 395491015731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491015732 catalytic residue [active] 395491015733 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 395491015734 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395491015735 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395491015736 putative active site [active] 395491015737 putative substrate binding site [chemical binding]; other site 395491015738 putative cosubstrate binding site; other site 395491015739 catalytic site [active] 395491015740 OpgC protein; Region: OpgC_C; cl00792 395491015741 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395491015742 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 395491015743 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395491015744 Chain length determinant protein; Region: Wzz; cl15801 395491015745 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; cl16911 395491015746 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 395491015747 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 395491015748 inhibitor-cofactor binding pocket; inhibition site 395491015749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491015750 catalytic residue [active] 395491015751 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; cl16911 395491015752 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 395491015753 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 395491015754 trimer interface [polypeptide binding]; other site 395491015755 active site 395491015756 substrate binding site [chemical binding]; other site 395491015757 CoA binding site [chemical binding]; other site 395491015758 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 395491015759 active site 395491015760 Cupin domain; Region: Cupin_2; cl09118 395491015761 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 395491015762 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; cl16911 395491015763 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 395491015764 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 395491015765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015766 NAD(P) binding site [chemical binding]; other site 395491015767 active site 395491015768 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 395491015769 substrate binding site; other site 395491015770 BA14K-like protein; Region: BA14K; pfam07886 395491015771 Rdx family; Region: Rdx; cl01407 395491015772 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 395491015773 catalytic triad [active] 395491015774 maltose O-acetyltransferase; Provisional; Region: PRK10092 395491015775 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 395491015776 active site 395491015777 substrate binding site [chemical binding]; other site 395491015778 trimer interface [polypeptide binding]; other site 395491015779 CoA binding site [chemical binding]; other site 395491015780 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491015781 CcdB protein; Region: CcdB; cl03380 395491015782 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 395491015783 GTP-binding protein LepA; Provisional; Region: PRK05433 395491015784 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 395491015785 G1 box; other site 395491015786 putative GEF interaction site [polypeptide binding]; other site 395491015787 GTP/Mg2+ binding site [chemical binding]; other site 395491015788 Switch I region; other site 395491015789 G2 box; other site 395491015790 G3 box; other site 395491015791 Switch II region; other site 395491015792 G4 box; other site 395491015793 G5 box; other site 395491015794 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 395491015795 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 395491015796 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 395491015797 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 395491015798 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395491015799 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 395491015800 non-specific DNA binding site [nucleotide binding]; other site 395491015801 salt bridge; other site 395491015802 sequence-specific DNA binding site [nucleotide binding]; other site 395491015803 Cupin domain; Region: Cupin_2; cl09118 395491015804 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491015805 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 395491015806 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 395491015807 motif II; other site 395491015808 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 395491015809 RecX family; Region: RecX; cl00936 395491015810 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 395491015811 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 395491015812 apolar tunnel; other site 395491015813 heme binding site [chemical binding]; other site 395491015814 dimerization interface [polypeptide binding]; other site 395491015815 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 395491015816 diiron binding motif [ion binding]; other site 395491015817 Uncharacterized conserved protein [Function unknown]; Region: COG1633 395491015818 CCC1-related protein family; Region: CCC1_like_1; cd02437 395491015819 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395491015820 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491015821 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 395491015822 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 395491015823 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 395491015824 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 395491015825 ribosomal protein L20; Region: rpl20; CHL00068 395491015826 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 395491015827 23S rRNA binding site [nucleotide binding]; other site 395491015828 L21 binding site [polypeptide binding]; other site 395491015829 L13 binding site [polypeptide binding]; other site 395491015830 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 395491015831 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 395491015832 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 395491015833 dimer interface [polypeptide binding]; other site 395491015834 motif 1; other site 395491015835 active site 395491015836 motif 2; other site 395491015837 motif 3; other site 395491015838 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 395491015839 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 395491015840 putative tRNA-binding site [nucleotide binding]; other site 395491015841 B3/4 domain; Region: B3_4; cl11458 395491015842 tRNA synthetase B5 domain; Region: B5; cl08394 395491015843 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 395491015844 dimer interface [polypeptide binding]; other site 395491015845 motif 1; other site 395491015846 motif 3; other site 395491015847 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 395491015848 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491015849 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491015850 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 395491015851 active site 395491015852 catalytic tetrad [active] 395491015853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491015854 Helix-turn-helix domains; Region: HTH; cl00088 395491015855 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 395491015856 putative effector binding pocket; other site 395491015857 putative dimerization interface [polypeptide binding]; other site 395491015858 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 395491015859 dimerization interface [polypeptide binding]; other site 395491015860 metal binding site [ion binding]; metal-binding site 395491015861 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395491015862 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491015863 Coenzyme A binding pocket [chemical binding]; other site 395491015864 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491015865 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 395491015866 active site 395491015867 catalytic tetrad [active] 395491015868 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491015869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015870 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491015871 GtrA-like protein; Region: GtrA; cl00971 395491015872 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 395491015873 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 395491015874 Ligand binding site; other site 395491015875 Putative Catalytic site; other site 395491015876 DXD motif; other site 395491015877 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 395491015878 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 395491015879 generic binding surface II; other site 395491015880 generic binding surface I; other site 395491015881 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491015882 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 395491015883 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491015884 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491015885 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 395491015886 N-terminal domain interface [polypeptide binding]; other site 395491015887 dimer interface [polypeptide binding]; other site 395491015888 substrate binding pocket (H-site) [chemical binding]; other site 395491015889 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 395491015890 putative deacylase active site [active] 395491015891 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 395491015892 ArsC family; Region: ArsC; pfam03960 395491015893 putative catalytic residues [active] 395491015894 Predicted deacylase [General function prediction only]; Region: COG3608 395491015895 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 395491015896 active site 395491015897 Zn binding site [ion binding]; other site 395491015898 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 395491015899 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395491015900 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 395491015901 DNA binding site [nucleotide binding] 395491015902 active site 395491015903 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395491015904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015905 NAD(P) binding site [chemical binding]; other site 395491015906 active site 395491015907 short chain dehydrogenase; Provisional; Region: PRK06180 395491015908 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395491015909 NADP binding site [chemical binding]; other site 395491015910 active site 395491015911 steroid binding site; other site 395491015912 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 395491015913 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491015914 Helix-turn-helix domains; Region: HTH; cl00088 395491015915 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 395491015916 putative effector binding pocket; other site 395491015917 putative dimerization interface [polypeptide binding]; other site 395491015918 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491015919 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491015920 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 395491015921 substrate binding site [chemical binding]; other site 395491015922 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491015923 Helix-turn-helix domain; Region: HTH_18; pfam12833 395491015924 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491015925 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 395491015926 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; cl00161 395491015927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491015928 Helix-turn-helix domains; Region: HTH; cl00088 395491015929 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 395491015930 dimerization interface [polypeptide binding]; other site 395491015931 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 395491015932 classical (c) SDRs; Region: SDR_c; cd05233 395491015933 NAD(P) binding site [chemical binding]; other site 395491015934 active site 395491015935 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 395491015936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491015937 GMP synthase; Reviewed; Region: guaA; PRK00074 395491015938 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 395491015939 AMP/PPi binding site [chemical binding]; other site 395491015940 candidate oxyanion hole; other site 395491015941 catalytic triad [active] 395491015942 potential glutamine specificity residues [chemical binding]; other site 395491015943 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 395491015944 ATP Binding subdomain [chemical binding]; other site 395491015945 Ligand Binding sites [chemical binding]; other site 395491015946 Dimerization subdomain; other site 395491015947 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395491015948 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 395491015949 CoenzymeA binding site [chemical binding]; other site 395491015950 subunit interaction site [polypeptide binding]; other site 395491015951 PHB binding site; other site 395491015952 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 395491015953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 395491015954 Imelysin; Region: Peptidase_M75; cl09159 395491015955 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 395491015956 Imelysin; Region: Peptidase_M75; cl09159 395491015957 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 395491015958 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; cl16911 395491015959 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 395491015960 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491015961 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 395491015962 putative NAD(P) binding site [chemical binding]; other site 395491015963 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 395491015964 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 395491015965 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491015966 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 395491015967 C-terminal domain interface [polypeptide binding]; other site 395491015968 GSH binding site (G-site) [chemical binding]; other site 395491015969 dimer interface [polypeptide binding]; other site 395491015970 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395491015971 N-terminal domain interface [polypeptide binding]; other site 395491015972 dimer interface [polypeptide binding]; other site 395491015973 substrate binding pocket (H-site) [chemical binding]; other site 395491015974 Bacitracin resistance protein BacA; Region: BacA; cl00858 395491015975 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395491015976 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 395491015977 putative NAD(P) binding site [chemical binding]; other site 395491015978 active site 395491015979 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 395491015980 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 contains two...; Region: OMP_decarboxylase_like; cd04725 395491015981 active site 395491015982 dimer interface [polypeptide binding]; other site 395491015983 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; cd07040 395491015984 catalytic core [active] 395491015985 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 395491015986 S-adenosylmethionine binding site [chemical binding]; other site 395491015987 Protein of unknown function DUF72; Region: DUF72; cl00777 395491015988 DNA polymerase III subunit beta; Validated; Region: PRK05643 395491015989 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 395491015990 putative DNA binding surface [nucleotide binding]; other site 395491015991 dimer interface [polypeptide binding]; other site 395491015992 beta-clamp/clamp loader binding surface; other site 395491015993 beta-clamp/translesion DNA polymerase binding surface; other site 395491015994 Predicted methyltransferases [General function prediction only]; Region: COG0313 395491015995 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395491015996 Restriction endonuclease; Region: Mrr_cat; cl00516 395491015997 Cupin domain; Region: Cupin_2; cl09118 395491015998 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491015999 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491016000 DNA binding site [nucleotide binding] 395491016001 domain linker motif; other site 395491016002 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491016003 dimerization interface [polypeptide binding]; other site 395491016004 ligand binding site [chemical binding]; other site 395491016005 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 395491016006 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491016007 ligand binding site [chemical binding]; other site 395491016008 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491016009 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491016010 Walker A/P-loop; other site 395491016011 ATP binding site [chemical binding]; other site 395491016012 Q-loop/lid; other site 395491016013 ABC transporter signature motif; other site 395491016014 Walker B; other site 395491016015 D-loop; other site 395491016016 H-loop/switch region; other site 395491016017 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491016018 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 395491016019 TM-ABC transporter signature motif; other site 395491016020 glutathione synthetase; Provisional; Region: PRK05246 395491016021 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 395491016022 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491016023 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 395491016024 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395491016025 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 395491016026 Walker A motif; other site 395491016027 ATP binding site [chemical binding]; other site 395491016028 Walker B motif; other site 395491016029 arginine finger; other site 395491016030 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 395491016031 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395491016032 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 395491016033 dimer interface [polypeptide binding]; other site 395491016034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491016035 catalytic residue [active] 395491016036 LysE type translocator; Region: LysE; cl00565 395491016037 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395491016038 Ferritin-like domain; Region: Ferritin; pfam00210 395491016039 dimerization interface [polypeptide binding]; other site 395491016040 DPS ferroxidase diiron center [ion binding]; other site 395491016041 ion pore; other site 395491016042 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491016043 EamA-like transporter family; Region: EamA; cl01037 395491016044 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 395491016045 Helix-turn-helix domains; Region: HTH; cl00088 395491016046 AsnC family; Region: AsnC_trans_reg; pfam01037 395491016047 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491016048 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395491016049 trimer interface [polypeptide binding]; other site 395491016050 active site 395491016051 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 395491016052 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 395491016053 G1 box; other site 395491016054 putative GEF interaction site [polypeptide binding]; other site 395491016055 GTP/Mg2+ binding site [chemical binding]; other site 395491016056 Switch I region; other site 395491016057 G2 box; other site 395491016058 G3 box; other site 395491016059 Switch II region; other site 395491016060 G4 box; other site 395491016061 G5 box; other site 395491016062 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 395491016063 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491016064 Helix-turn-helix domains; Region: HTH; cl00088 395491016065 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 395491016066 putative effector binding pocket; other site 395491016067 dimerization interface [polypeptide binding]; other site 395491016068 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491016069 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 395491016070 C-terminal domain interface [polypeptide binding]; other site 395491016071 GSH binding site (G-site) [chemical binding]; other site 395491016072 dimer interface [polypeptide binding]; other site 395491016073 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395491016074 N-terminal domain interface [polypeptide binding]; other site 395491016075 dimer interface [polypeptide binding]; other site 395491016076 substrate binding pocket (H-site) [chemical binding]; other site 395491016077 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 395491016078 homotrimer interaction site [polypeptide binding]; other site 395491016079 putative active site [active] 395491016080 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491016081 Helix-turn-helix domains; Region: HTH; cl00088 395491016082 AsnC family; Region: AsnC_trans_reg; pfam01037 395491016083 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 395491016084 homodimer interaction site [polypeptide binding]; other site 395491016085 cofactor binding site; other site 395491016086 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491016087 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 395491016088 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 395491016089 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 395491016090 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 395491016091 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491016092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491016093 DNA-binding site [nucleotide binding]; DNA binding site 395491016094 FCD domain; Region: FCD; cl11656 395491016095 Pirin-related protein [General function prediction only]; Region: COG1741 395491016096 Cupin domain; Region: Cupin_2; cl09118 395491016097 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395491016098 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 395491016099 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 395491016100 putative active site [active] 395491016101 putative dimer interface [polypeptide binding]; other site 395491016102 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 395491016103 Flavoprotein; Region: Flavoprotein; cl08021 395491016104 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 395491016105 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491016106 classical (c) SDRs; Region: SDR_c; cd05233 395491016107 NAD(P) binding site [chemical binding]; other site 395491016108 active site 395491016109 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491016110 classical (c) SDRs; Region: SDR_c; cd05233 395491016111 NAD(P) binding site [chemical binding]; other site 395491016112 active site 395491016113 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491016114 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 395491016115 putative effector binding pocket; other site 395491016116 dimerization interface [polypeptide binding]; other site 395491016117 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395491016118 Helix-turn-helix domains; Region: HTH; cl00088 395491016119 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 395491016120 putative dimerization interface [polypeptide binding]; other site 395491016121 putative substrate binding pocket [chemical binding]; other site 395491016122 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 395491016123 putative substrate translocation pore; other site 395491016124 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491016125 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 395491016126 urocanate hydratase; Provisional; Region: PRK05414 395491016127 Protein of unknown function (DUF917); Region: DUF917; pfam06032 395491016128 allantoate amidohydrolase; Reviewed; Region: PRK12893 395491016129 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395491016130 active site 395491016131 metal binding site [ion binding]; metal-binding site 395491016132 dimer interface [polypeptide binding]; other site 395491016133 allantoinase; Region: allantoinase; TIGR03178 395491016134 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 395491016135 active site 395491016136 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 395491016137 active sites [active] 395491016138 tetramer interface [polypeptide binding]; other site 395491016139 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 395491016140 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491016141 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 395491016142 active site 395491016143 ATP binding site [chemical binding]; other site 395491016144 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395491016145 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 395491016146 S-adenosylmethionine binding site [chemical binding]; other site 395491016147 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 395491016148 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 395491016149 DNA binding site [nucleotide binding] 395491016150 catalytic residue [active] 395491016151 H2TH interface [polypeptide binding]; other site 395491016152 putative catalytic residues [active] 395491016153 turnover-facilitating residue; other site 395491016154 intercalation triad [nucleotide binding]; other site 395491016155 8OG recognition residue [nucleotide binding]; other site 395491016156 putative reading head residues; other site 395491016157 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 395491016158 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 395491016159 enoyl-CoA hydratase; Provisional; Region: PRK05862 395491016160 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 395491016161 substrate binding site [chemical binding]; other site 395491016162 oxyanion hole (OAH) forming residues; other site 395491016163 trimer interface [polypeptide binding]; other site 395491016164 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 395491016165 Methylthioribose-binding protein-like of 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_methylthioribose_binding_like; cd06305 395491016166 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491016167 putative ligand binding site [chemical binding]; other site 395491016168 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491016169 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491016170 Walker A/P-loop; other site 395491016171 ATP binding site [chemical binding]; other site 395491016172 Q-loop/lid; other site 395491016173 ABC transporter signature motif; other site 395491016174 Walker B; other site 395491016175 D-loop; other site 395491016176 H-loop/switch region; other site 395491016177 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491016178 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 395491016179 TM-ABC transporter signature motif; other site 395491016180 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 395491016181 TM-ABC transporter signature motif; other site 395491016182 glycerol kinase; Provisional; Region: glpK; PRK00047 395491016183 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 395491016184 N- and C-terminal domain interface [polypeptide binding]; other site 395491016185 active site 395491016186 MgATP binding site [chemical binding]; other site 395491016187 catalytic site [active] 395491016188 metal binding site [ion binding]; metal-binding site 395491016189 glycerol binding site [chemical binding]; other site 395491016190 homotetramer interface [polypeptide binding]; other site 395491016191 homodimer interface [polypeptide binding]; other site 395491016192 FBP binding site [chemical binding]; other site 395491016193 protein IIAGlc interface [polypeptide binding]; other site 395491016194 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491016195 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 395491016196 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 395491016197 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491016198 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 395491016199 dimer interface [polypeptide binding]; other site 395491016200 conserved gate region; other site 395491016201 putative PBP binding loops; other site 395491016202 ABC-ATPase subunit interface; other site 395491016203 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 395491016204 dimer interface [polypeptide binding]; other site 395491016205 conserved gate region; other site 395491016206 putative PBP binding loops; other site 395491016207 ABC-ATPase subunit interface; other site 395491016208 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395491016209 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 395491016210 Walker A/P-loop; other site 395491016211 ATP binding site [chemical binding]; other site 395491016212 Q-loop/lid; other site 395491016213 ABC transporter signature motif; other site 395491016214 Walker B; other site 395491016215 D-loop; other site 395491016216 H-loop/switch region; other site 395491016217 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395491016218 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 395491016219 Walker A/P-loop; other site 395491016220 ATP binding site [chemical binding]; other site 395491016221 Q-loop/lid; other site 395491016222 ABC transporter signature motif; other site 395491016223 Walker B; other site 395491016224 D-loop; other site 395491016225 H-loop/switch region; other site 395491016226 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 395491016227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016228 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 395491016229 Helix-turn-helix domains; Region: HTH; cl00088 395491016230 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491016231 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 395491016232 EamA-like transporter family; Region: EamA; cl01037 395491016233 EamA-like transporter family; Region: EamA; cl01037 395491016234 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491016235 Helix-turn-helix domains; Region: HTH; cl00088 395491016236 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 395491016237 dimerization interface [polypeptide binding]; other site 395491016238 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395491016239 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491016240 Coenzyme A binding pocket [chemical binding]; other site 395491016241 Protein of unknown function (DUF992); Region: DUF992; pfam06186 395491016242 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 395491016243 Ca2+ binding site [ion binding]; other site 395491016244 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491016245 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395491016246 active site 395491016247 metal binding site [ion binding]; metal-binding site 395491016248 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395491016249 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491016250 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491016251 Walker A/P-loop; other site 395491016252 ATP binding site [chemical binding]; other site 395491016253 Q-loop/lid; other site 395491016254 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491016255 ABC transporter signature motif; other site 395491016256 Walker B; other site 395491016257 D-loop; other site 395491016258 ABC transporter; Region: ABC_tran_2; pfam12848 395491016259 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395491016260 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 395491016261 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 395491016262 active site 395491016263 catalytic residues [active] 395491016264 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395491016265 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 395491016266 putative substrate translocation pore; other site 395491016267 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395491016268 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491016269 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491016270 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491016271 Helix-turn-helix domains; Region: HTH; cl00088 395491016272 mannonate dehydratase; Provisional; Region: PRK03906 395491016273 mannonate dehydratase; Region: uxuA; TIGR00695 395491016274 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491016275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491016276 DNA-binding site [nucleotide binding]; DNA binding site 395491016277 FCD domain; Region: FCD; cl11656 395491016278 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491016279 O-Antigen ligase; Region: Wzy_C; cl04850 395491016280 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 395491016281 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 395491016282 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 395491016283 NAD(P) binding site [chemical binding]; other site 395491016284 homodimer interface [polypeptide binding]; other site 395491016285 substrate binding site [chemical binding]; other site 395491016286 active site 395491016287 Bacterial sugar transferase; Region: Bac_transf; cl00939 395491016288 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395491016289 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395491016290 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 395491016291 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 395491016292 TM-ABC transporter signature motif; other site 395491016293 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491016294 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491016295 Walker A/P-loop; other site 395491016296 ATP binding site [chemical binding]; other site 395491016297 Q-loop/lid; other site 395491016298 ABC transporter signature motif; other site 395491016299 Walker B; other site 395491016300 D-loop; other site 395491016301 H-loop/switch region; other site 395491016302 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491016303 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 395491016304 TM-ABC transporter signature motif; other site 395491016305 Helix-turn-helix domains; Region: HTH; cl00088 395491016306 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491016307 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 395491016308 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 395491016309 HSP70 interaction site [polypeptide binding]; other site 395491016310 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 395491016311 FtsX-like permease family; Region: FtsX; cl15850 395491016312 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395491016313 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395491016314 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395491016315 Walker A/P-loop; other site 395491016316 ATP binding site [chemical binding]; other site 395491016317 Q-loop/lid; other site 395491016318 ABC transporter signature motif; other site 395491016319 Walker B; other site 395491016320 D-loop; other site 395491016321 H-loop/switch region; other site 395491016322 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 395491016323 dimer interface [polypeptide binding]; other site 395491016324 heat shock protein 90; Provisional; Region: PRK05218 395491016325 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; cl00075 395491016326 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 395491016327 Ligand binding site; other site 395491016328 metal-binding site 395491016329 XdhC Rossmann domain; Region: XdhC_C; pfam13478 395491016330 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 395491016331 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 395491016332 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 395491016333 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 395491016334 Fibronectin type III-like domain; Region: Fn3-like; cl15273 395491016335 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491016336 Helix-turn-helix domains; Region: HTH; cl00088 395491016337 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 395491016338 catalytic triad [active] 395491016339 conserved cis-peptide bond; other site 395491016340 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491016341 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491016342 Walker A/P-loop; other site 395491016343 ATP binding site [chemical binding]; other site 395491016344 Q-loop/lid; other site 395491016345 ABC transporter signature motif; other site 395491016346 Walker B; other site 395491016347 D-loop; other site 395491016348 H-loop/switch region; other site 395491016349 TOBE domain; Region: TOBE_2; cl01440 395491016350 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395491016351 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 395491016352 dimer interface [polypeptide binding]; other site 395491016353 conserved gate region; other site 395491016354 putative PBP binding loops; other site 395491016355 ABC-ATPase subunit interface; other site 395491016356 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491016357 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; cl00427 395491016358 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395491016359 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 395491016360 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395491016361 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395491016362 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395491016363 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 395491016364 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395491016365 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395491016366 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395491016367 Cytochrome c; Region: Cytochrom_C; cl11414 395491016368 Cytochrome c; Region: Cytochrom_C; cl11414 395491016369 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; cl00159 395491016370 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395491016371 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395491016372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016373 salicylate hydroxylase; Provisional; Region: PRK06475 395491016374 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491016375 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395491016376 Isochorismatase family; Region: Isochorismatase; pfam00857 395491016377 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 395491016378 catalytic triad [active] 395491016379 substrate binding site [chemical binding]; other site 395491016380 domain interfaces; other site 395491016381 conserved cis-peptide bond; other site 395491016382 Helix-turn-helix domains; Region: HTH; cl00088 395491016383 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491016384 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491016385 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 395491016386 putative substrate translocation pore; other site 395491016387 calcium/proton exchanger; Region: caca2; TIGR00846 395491016388 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 395491016389 replication initiation protein RepC; Provisional; Region: PRK13824 395491016390 Helix-turn-helix domains; Region: HTH; cl00088 395491016391 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395491016392 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395491016393 ParB-like nuclease domain; Region: ParBc; cl02129 395491016394 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395491016395 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395491016396 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 395491016397 P-loop; other site 395491016398 Magnesium ion binding site [ion binding]; other site 395491016399 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 395491016400 Magnesium ion binding site [ion binding]; other site 395491016401 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 395491016402 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395491016403 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 395491016404 dimer interface [polypeptide binding]; other site 395491016405 phosphorylation site [posttranslational modification] 395491016406 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 395491016407 ATP binding site [chemical binding]; other site 395491016408 Mg2+ binding site [ion binding]; other site 395491016409 G-X-G motif; other site 395491016410 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491016411 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 395491016412 active site 395491016413 phosphorylation site [posttranslational modification] 395491016414 intermolecular recognition site; other site 395491016415 dimerization interface [polypeptide binding]; other site 395491016416 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 395491016417 DNA binding site [nucleotide binding] 395491016418 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491016419 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 395491016420 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 395491016421 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 395491016422 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395491016423 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 395491016424 dimer interface [polypeptide binding]; other site 395491016425 conserved gate region; other site 395491016426 putative PBP binding loops; other site 395491016427 ABC-ATPase subunit interface; other site 395491016428 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 395491016429 dimer interface [polypeptide binding]; other site 395491016430 conserved gate region; other site 395491016431 putative PBP binding loops; other site 395491016432 ABC-ATPase subunit interface; other site 395491016433 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491016434 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491016435 Walker A/P-loop; other site 395491016436 ATP binding site [chemical binding]; other site 395491016437 Q-loop/lid; other site 395491016438 ABC transporter signature motif; other site 395491016439 Walker B; other site 395491016440 D-loop; other site 395491016441 H-loop/switch region; other site 395491016442 TOBE domain; Region: TOBE_2; cl01440 395491016443 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395491016444 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 395491016445 motif II; other site 395491016446 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491016447 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491016448 DNA binding site [nucleotide binding] 395491016449 domain linker motif; other site 395491016450 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 395491016451 putative dimerization interface [polypeptide binding]; other site 395491016452 putative ligand binding site [chemical binding]; other site 395491016453 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_9; cd04666 395491016454 nudix motif; other site 395491016455 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 395491016456 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 395491016457 dimer interface [polypeptide binding]; other site 395491016458 ADP-ribose binding site [chemical binding]; other site 395491016459 active site 395491016460 nudix motif; other site 395491016461 metal binding site [ion binding]; metal-binding site 395491016462 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 395491016463 phosphate binding site [ion binding]; other site 395491016464 putative substrate binding pocket [chemical binding]; other site 395491016465 dimer interface [polypeptide binding]; other site 395491016466 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 395491016467 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 395491016468 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 395491016469 active site 395491016470 dimerization interface [polypeptide binding]; other site 395491016471 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 395491016472 active site 395491016473 catalytic residues [active] 395491016474 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 395491016475 HSP70 interaction site [polypeptide binding]; other site 395491016476 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491016477 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 395491016478 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491016479 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 395491016480 active site 395491016481 DNA polymerase IV; Validated; Region: PRK02406 395491016482 DNA binding site [nucleotide binding] 395491016483 Cell division inhibitor SulA; Region: SulA; cl01880 395491016484 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_7; cd08353 395491016485 putative dimer interface [polypeptide binding]; other site 395491016486 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491016487 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 395491016488 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 395491016489 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395491016490 Cupin domain; Region: Cupin_2; cl09118 395491016491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491016492 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491016493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491016494 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 395491016495 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491016496 ligand binding site [chemical binding]; other site 395491016497 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491016498 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491016499 Walker A/P-loop; other site 395491016500 ATP binding site [chemical binding]; other site 395491016501 Q-loop/lid; other site 395491016502 ABC transporter signature motif; other site 395491016503 Walker B; other site 395491016504 D-loop; other site 395491016505 H-loop/switch region; other site 395491016506 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491016507 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 395491016508 TM-ABC transporter signature motif; other site 395491016509 L-arabinose isomerase [Carbohydrate transport and metabolism]; Region: AraA; COG2160 395491016510 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; cd00578 395491016511 hexamer (dimer of trimers) interface [polypeptide binding]; other site 395491016512 substrate binding site [chemical binding]; other site 395491016513 trimer interface [polypeptide binding]; other site 395491016514 Mn binding site [ion binding]; other site 395491016515 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395491016516 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 395491016517 non-specific DNA binding site [nucleotide binding]; other site 395491016518 salt bridge; other site 395491016519 sequence-specific DNA binding site [nucleotide binding]; other site 395491016520 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 395491016521 putative substrate translocation pore; other site 395491016522 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491016523 NMT1-like family; Region: NMT1_2; cl15260 395491016524 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 395491016525 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 395491016526 Walker A/P-loop; other site 395491016527 ATP binding site [chemical binding]; other site 395491016528 Q-loop/lid; other site 395491016529 ABC transporter signature motif; other site 395491016530 Walker B; other site 395491016531 D-loop; other site 395491016532 H-loop/switch region; other site 395491016533 NIL domain; Region: NIL; cl09633 395491016534 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 395491016535 dimer interface [polypeptide binding]; other site 395491016536 conserved gate region; other site 395491016537 ABC-ATPase subunit interface; other site 395491016538 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395491016539 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395491016540 active site 395491016541 non-prolyl cis peptide bond; other site 395491016542 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 395491016543 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 395491016544 active site 395491016545 substrate binding site [chemical binding]; other site 395491016546 coenzyme B12 binding site [chemical binding]; other site 395491016547 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 395491016548 B12 binding site [chemical binding]; other site 395491016549 cobalt ligand [ion binding]; other site 395491016550 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 395491016551 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395491016552 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491016553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016554 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491016555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016556 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395491016557 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491016558 active site 395491016559 metal binding site [ion binding]; metal-binding site 395491016560 allophanate hydrolase; Provisional; Region: PRK08186 395491016561 Amidase; Region: Amidase; cl11426 395491016562 urea carboxylase; Region: urea_carbox; TIGR02712 395491016563 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395491016564 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491016565 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395491016566 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 395491016567 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 395491016568 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 395491016569 carboxyltransferase (CT) interaction site; other site 395491016570 biotinylation site [posttranslational modification]; other site 395491016571 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395491016572 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395491016573 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395491016574 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395491016575 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491016576 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395491016577 Walker A/P-loop; other site 395491016578 ATP binding site [chemical binding]; other site 395491016579 Q-loop/lid; other site 395491016580 ABC transporter signature motif; other site 395491016581 Walker B; other site 395491016582 D-loop; other site 395491016583 H-loop/switch region; other site 395491016584 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491016585 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; cl00427 395491016586 NMT1-like family; Region: NMT1_2; cl15260 395491016587 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395491016588 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 395491016589 Cupin domain; Region: Cupin_2; cl09118 395491016590 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491016591 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491016592 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 395491016593 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; cl00427 395491016594 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491016595 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491016596 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 395491016597 dimer interface [polypeptide binding]; other site 395491016598 conserved gate region; other site 395491016599 putative PBP binding loops; other site 395491016600 ABC-ATPase subunit interface; other site 395491016601 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491016602 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491016603 Walker A/P-loop; other site 395491016604 ATP binding site [chemical binding]; other site 395491016605 Q-loop/lid; other site 395491016606 ABC transporter signature motif; other site 395491016607 Walker B; other site 395491016608 D-loop; other site 395491016609 H-loop/switch region; other site 395491016610 TOBE domain; Region: TOBE_2; cl01440 395491016611 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491016612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016613 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491016614 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395491016615 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 395491016616 active site 395491016617 catalytic tetrad [active] 395491016618 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 395491016619 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395491016620 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395491016621 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 395491016622 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 395491016623 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 395491016624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491016625 Walker A/P-loop; other site 395491016626 ATP binding site [chemical binding]; other site 395491016627 Q-loop/lid; other site 395491016628 ABC transporter signature motif; other site 395491016629 Walker B; other site 395491016630 D-loop; other site 395491016631 H-loop/switch region; other site 395491016632 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 395491016633 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491016634 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 395491016635 Walker A/P-loop; other site 395491016636 ATP binding site [chemical binding]; other site 395491016637 Q-loop/lid; other site 395491016638 ABC transporter signature motif; other site 395491016639 Walker B; other site 395491016640 D-loop; other site 395491016641 H-loop/switch region; other site 395491016642 Predicted transcriptional regulators [Transcription]; Region: COG1510 395491016643 Helix-turn-helix domains; Region: HTH; cl00088 395491016644 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 395491016645 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395491016646 HupE / UreJ protein; Region: HupE_UreJ; cl01011 395491016647 HupE / UreJ protein; Region: HupE_UreJ; cl01011 395491016648 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395491016649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016650 Tim44-like domain; Region: Tim44; cl09208 395491016651 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 395491016652 putative deacylase active site [active] 395491016653 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 395491016654 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 395491016655 dimer interface [polypeptide binding]; other site 395491016656 conserved gate region; other site 395491016657 putative PBP binding loops; other site 395491016658 ABC-ATPase subunit interface; other site 395491016659 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 395491016660 dimer interface [polypeptide binding]; other site 395491016661 conserved gate region; other site 395491016662 putative PBP binding loops; other site 395491016663 ABC-ATPase subunit interface; other site 395491016664 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395491016665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491016666 Walker A/P-loop; other site 395491016667 ATP binding site [chemical binding]; other site 395491016668 Q-loop/lid; other site 395491016669 ABC transporter signature motif; other site 395491016670 Walker B; other site 395491016671 D-loop; other site 395491016672 H-loop/switch region; other site 395491016673 TOBE domain; Region: TOBE_2; cl01440 395491016674 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395491016675 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 395491016676 active site 395491016677 catalytic site [active] 395491016678 metal binding site [ion binding]; metal-binding site 395491016679 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491016680 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491016681 domain linker motif; other site 395491016682 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 395491016683 putative dimerization interface [polypeptide binding]; other site 395491016684 putative ligand binding site [chemical binding]; other site 395491016685 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 395491016686 active site 395491016687 dimerization interface [polypeptide binding]; other site 395491016688 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 395491016689 binding surface 395491016690 TPR motif; other site 395491016691 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395491016692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491016693 metal binding site [ion binding]; metal-binding site 395491016694 active site 395491016695 I-site; other site 395491016696 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 395491016697 active site 395491016698 catalytic site [active] 395491016699 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 395491016700 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491016701 catalytic residue [active] 395491016702 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491016703 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491016704 Walker A/P-loop; other site 395491016705 ATP binding site [chemical binding]; other site 395491016706 Q-loop/lid; other site 395491016707 ABC transporter signature motif; other site 395491016708 Walker B; other site 395491016709 D-loop; other site 395491016710 H-loop/switch region; other site 395491016711 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491016712 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491016713 Walker A/P-loop; other site 395491016714 ATP binding site [chemical binding]; other site 395491016715 Q-loop/lid; other site 395491016716 ABC transporter signature motif; other site 395491016717 Walker B; other site 395491016718 D-loop; other site 395491016719 H-loop/switch region; other site 395491016720 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 395491016721 dimer interface [polypeptide binding]; other site 395491016722 conserved gate region; other site 395491016723 putative PBP binding loops; other site 395491016724 ABC-ATPase subunit interface; other site 395491016725 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 395491016726 dimer interface [polypeptide binding]; other site 395491016727 conserved gate region; other site 395491016728 putative PBP binding loops; other site 395491016729 ABC-ATPase subunit interface; other site 395491016730 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_13; cd08517 395491016731 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491016732 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395491016733 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395491016734 active site 395491016735 non-prolyl cis peptide bond; other site 395491016736 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 395491016737 TM-ABC transporter signature motif; other site 395491016738 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491016739 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491016740 Walker A/P-loop; other site 395491016741 ATP binding site [chemical binding]; other site 395491016742 Q-loop/lid; other site 395491016743 ABC transporter signature motif; other site 395491016744 Walker B; other site 395491016745 D-loop; other site 395491016746 H-loop/switch region; other site 395491016747 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491016748 Methylthioribose-binding protein-like of 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_methylthioribose_binding_like; cd06305 395491016749 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491016750 putative ligand binding site [chemical binding]; other site 395491016751 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395491016752 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 395491016753 active site 395491016754 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 395491016755 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 395491016756 Flavin binding site [chemical binding]; other site 395491016757 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395491016758 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395491016759 active site 395491016760 non-prolyl cis peptide bond; other site 395491016761 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491016762 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491016763 DNA binding site [nucleotide binding] 395491016764 domain linker motif; other site 395491016765 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395491016766 ligand binding site [chemical binding]; other site 395491016767 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491016768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016769 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491016770 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491016771 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 395491016772 DNA interaction; other site 395491016773 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491016774 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 395491016775 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395491016776 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 395491016777 dimer interface [polypeptide binding]; other site 395491016778 conserved gate region; other site 395491016779 putative PBP binding loops; other site 395491016780 ABC-ATPase subunit interface; other site 395491016781 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491016782 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 395491016783 dimer interface [polypeptide binding]; other site 395491016784 conserved gate region; other site 395491016785 ABC-ATPase subunit interface; other site 395491016786 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491016787 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491016788 Walker A/P-loop; other site 395491016789 ATP binding site [chemical binding]; other site 395491016790 Q-loop/lid; other site 395491016791 ABC transporter signature motif; other site 395491016792 Walker B; other site 395491016793 D-loop; other site 395491016794 H-loop/switch region; other site 395491016795 TOBE domain; Region: TOBE_2; cl01440 395491016796 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491016797 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491016798 DNA binding site [nucleotide binding] 395491016799 domain linker motif; other site 395491016800 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_11; cd06293 395491016801 putative dimerization interface [polypeptide binding]; other site 395491016802 putative ligand binding site [chemical binding]; other site 395491016803 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 395491016804 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491016805 ligand binding site [chemical binding]; other site 395491016806 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491016807 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491016808 Walker A/P-loop; other site 395491016809 ATP binding site [chemical binding]; other site 395491016810 Q-loop/lid; other site 395491016811 ABC transporter signature motif; other site 395491016812 Walker B; other site 395491016813 D-loop; other site 395491016814 H-loop/switch region; other site 395491016815 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 395491016816 TM-ABC transporter signature motif; other site 395491016817 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 395491016818 active site 395491016819 substrate binding pocket [chemical binding]; other site 395491016820 homodimer interaction site [polypeptide binding]; other site 395491016821 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395491016822 BtpA family; Region: BtpA; cl00440 395491016823 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 395491016824 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395491016825 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 395491016826 substrate binding site [chemical binding]; other site 395491016827 dimer interface [polypeptide binding]; other site 395491016828 ATP binding site [chemical binding]; other site 395491016829 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 395491016830 active site 395491016831 dimerization interface [polypeptide binding]; other site 395491016832 TOBE domain; Region: TOBE_2; cl01440 395491016833 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 395491016834 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491016835 Helix-turn-helix domains; Region: HTH; cl00088 395491016836 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 395491016837 putative dimerization interface [polypeptide binding]; other site 395491016838 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491016839 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395491016840 putative NAD(P) binding site [chemical binding]; other site 395491016841 putative active site [active] 395491016842 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395491016843 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 395491016844 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 395491016845 S-adenosylmethionine binding site [chemical binding]; other site 395491016846 cytosine deaminase; Validated; Region: PRK07572 395491016847 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 395491016848 active site 395491016849 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491016850 TM-ABC transporter signature motif; other site 395491016851 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491016852 TM-ABC transporter signature motif; other site 395491016853 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395491016854 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491016855 Walker A/P-loop; other site 395491016856 ATP binding site [chemical binding]; other site 395491016857 Q-loop/lid; other site 395491016858 ABC transporter signature motif; other site 395491016859 Walker B; other site 395491016860 D-loop; other site 395491016861 H-loop/switch region; other site 395491016862 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491016863 amidase; Provisional; Region: PRK07869 395491016864 Amidase; Region: Amidase; cl11426 395491016865 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 395491016866 putative ligand binding site [chemical binding]; other site 395491016867 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395491016868 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395491016869 putative acyl-acceptor binding pocket; other site 395491016870 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 395491016871 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395491016872 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 395491016873 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 395491016874 HSP70 interaction site [polypeptide binding]; other site 395491016875 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395491016876 substrate binding site [polypeptide binding]; other site 395491016877 dimer interface [polypeptide binding]; other site 395491016878 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 395491016879 Ligand Binding Site [chemical binding]; other site 395491016880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016881 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395491016882 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 395491016883 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491016884 putative S-transferase; Provisional; Region: PRK11752 395491016885 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 395491016886 C-terminal domain interface [polypeptide binding]; other site 395491016887 GSH binding site (G-site) [chemical binding]; other site 395491016888 dimer interface [polypeptide binding]; other site 395491016889 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 395491016890 dimer interface [polypeptide binding]; other site 395491016891 N-terminal domain interface [polypeptide binding]; other site 395491016892 active site 395491016893 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 395491016894 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491016895 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395491016896 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491016897 Walker A/P-loop; other site 395491016898 ATP binding site [chemical binding]; other site 395491016899 Q-loop/lid; other site 395491016900 ABC transporter signature motif; other site 395491016901 Walker B; other site 395491016902 D-loop; other site 395491016903 H-loop/switch region; other site 395491016904 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491016905 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491016906 Walker A/P-loop; other site 395491016907 ATP binding site [chemical binding]; other site 395491016908 Q-loop/lid; other site 395491016909 ABC transporter signature motif; other site 395491016910 Walker B; other site 395491016911 D-loop; other site 395491016912 H-loop/switch region; other site 395491016913 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491016914 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395491016915 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 395491016916 dimer interface [polypeptide binding]; other site 395491016917 conserved gate region; other site 395491016918 putative PBP binding loops; other site 395491016919 ABC-ATPase subunit interface; other site 395491016920 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491016921 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 395491016922 dimer interface [polypeptide binding]; other site 395491016923 conserved gate region; other site 395491016924 putative PBP binding loops; other site 395491016925 ABC-ATPase subunit interface; other site 395491016926 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 395491016927 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491016928 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395491016929 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 395491016930 DNA binding residues [nucleotide binding] 395491016931 dimerization interface [polypeptide binding]; other site 395491016932 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 395491016933 Helix-turn-helix domain; Region: HTH_18; pfam12833 395491016934 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491016935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016936 NAD(P) binding site [chemical binding]; other site 395491016937 active site 395491016938 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 395491016939 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 395491016940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491016941 NAD(P) binding site [chemical binding]; other site 395491016942 active site 395491016943 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 395491016944 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 395491016945 Patatin phospholipase; Region: DUF3734; pfam12536 395491016946 Helix-turn-helix domains; Region: HTH; cl00088 395491016947 Winged helix-turn helix; Region: HTH_29; pfam13551 395491016948 Helix-turn-helix domains; Region: HTH; cl00088 395491016949 Integrase core domain; Region: rve; cl01316 395491016950 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 395491016951 TM-ABC transporter signature motif; other site 395491016952 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395491016953 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491016954 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491016955 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 395491016956 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 395491016957 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491016958 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491016959 Walker A/P-loop; other site 395491016960 ATP binding site [chemical binding]; other site 395491016961 Q-loop/lid; other site 395491016962 ABC transporter signature motif; other site 395491016963 Walker B; other site 395491016964 D-loop; other site 395491016965 H-loop/switch region; other site 395491016966 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395491016967 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491016968 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395491016969 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 395491016970 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395491016971 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395491016972 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395491016973 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395491016974 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395491016975 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491016976 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395491016977 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 395491016978 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395491016979 VCBS repeat; Region: VCBS_repeat; TIGR01965 395491016980 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395491016981 Cadherin repeat-like domain; Region: CA_like; cl15786 395491016982 Ca2+ binding site [ion binding]; other site 395491016983 VCBS repeat; Region: VCBS_repeat; TIGR01965 395491016984 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395491016985 Cadherin repeat-like domain; Region: CA_like; cl15786 395491016986 Ca2+ binding site [ion binding]; other site 395491016987 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395491016988 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395491016989 SLBB domain; Region: SLBB; pfam10531 395491016990 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395491016991 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395491016992 MatE; Region: MatE; cl10513 395491016993 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 395491016994 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 395491016995 inhibitor-cofactor binding pocket; inhibition site 395491016996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491016997 catalytic residue [active] 395491016998 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491016999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017000 NAD(P) binding site [chemical binding]; other site 395491017001 active site 395491017002 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 395491017003 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 395491017004 putative trimer interface [polypeptide binding]; other site 395491017005 putative CoA binding site [chemical binding]; other site 395491017006 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 395491017007 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 395491017008 inhibitor-cofactor binding pocket; inhibition site 395491017009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491017010 catalytic residue [active] 395491017011 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491017012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017013 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491017014 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 395491017015 putative trimer interface [polypeptide binding]; other site 395491017016 putative active site [active] 395491017017 putative substrate binding site [chemical binding]; other site 395491017018 putative CoA binding site [chemical binding]; other site 395491017019 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395491017020 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; cl09944 395491017021 active site 395491017022 phosphorylation site [posttranslational modification] 395491017023 intermolecular recognition site; other site 395491017024 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 395491017025 DNA binding residues [nucleotide binding] 395491017026 dimerization interface [polypeptide binding]; other site 395491017027 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 395491017028 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 395491017029 binding surface 395491017030 TPR motif; other site 395491017031 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 395491017032 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491017033 NAD binding site [chemical binding]; other site 395491017034 putative substrate binding site 2 [chemical binding]; other site 395491017035 putative substrate binding site 1 [chemical binding]; other site 395491017036 active site 395491017037 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 395491017038 Bacterial sugar transferase; Region: Bac_transf; cl00939 395491017039 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 395491017040 Right handed beta helix region; Region: Beta_helix; pfam13229 395491017041 Right handed beta helix region; Region: Beta_helix; pfam13229 395491017042 O-Antigen ligase; Region: Wzy_C; cl04850 395491017043 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 395491017044 active site 395491017045 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491017046 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 395491017047 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395491017048 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395491017049 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 395491017050 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491017051 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 395491017052 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395491017053 NADP-binding site; other site 395491017054 homotetramer interface [polypeptide binding]; other site 395491017055 substrate binding site [chemical binding]; other site 395491017056 homodimer interface [polypeptide binding]; other site 395491017057 active site 395491017058 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 395491017059 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 395491017060 NADP binding site [chemical binding]; other site 395491017061 active site 395491017062 putative substrate binding site [chemical binding]; other site 395491017063 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 395491017064 MobA/MobL family; Region: MobA_MobL; pfam03389 395491017065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491017066 Family description; Region: UvrD_C_2; cl15862 395491017067 Domain of unknown function (DUF303); Region: DUF303; pfam03629 395491017068 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395491017069 Helix-turn-helix domains; Region: HTH; cl00088 395491017070 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 395491017071 dimerization interface [polypeptide binding]; other site 395491017072 substrate binding pocket [chemical binding]; other site 395491017073 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491017074 non-specific DNA binding site [nucleotide binding]; other site 395491017075 salt bridge; other site 395491017076 sequence-specific DNA binding site [nucleotide binding]; other site 395491017077 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395491017078 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 395491017079 S-adenosylmethionine binding site [chemical binding]; other site 395491017080 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491017081 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 395491017082 DNA binding residues [nucleotide binding] 395491017083 dimerization interface [polypeptide binding]; other site 395491017084 choline dehydrogenase; Validated; Region: PRK02106 395491017085 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395491017086 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 395491017087 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 395491017088 active site 395491017089 catalytic residues [active] 395491017090 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 395491017091 TM-ABC transporter signature motif; other site 395491017092 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491017093 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491017094 Walker A/P-loop; other site 395491017095 ATP binding site [chemical binding]; other site 395491017096 Q-loop/lid; other site 395491017097 ABC transporter signature motif; other site 395491017098 Walker B; other site 395491017099 D-loop; other site 395491017100 H-loop/switch region; other site 395491017101 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491017102 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395491017103 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 395491017104 ligand binding site [chemical binding]; other site 395491017105 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491017106 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491017107 DNA-binding site [nucleotide binding]; DNA binding site 395491017108 FCD domain; Region: FCD; cl11656 395491017109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395491017110 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491017111 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 395491017112 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 395491017113 N- and C-terminal domain interface [polypeptide binding]; other site 395491017114 putative active site [active] 395491017115 putative MgATP binding site [chemical binding]; other site 395491017116 catalytic site [active] 395491017117 metal binding site [ion binding]; metal-binding site 395491017118 carbohydrate binding site [chemical binding]; other site 395491017119 putative homodimer interface [polypeptide binding]; other site 395491017120 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395491017121 classical (c) SDRs; Region: SDR_c; cd05233 395491017122 NAD(P) binding site [chemical binding]; other site 395491017123 active site 395491017124 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395491017125 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491017126 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395491017127 Glycerophosphodiester phosphodiesterase domain of putative Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_pAtGDE_like; cd08565 395491017128 active site 395491017129 catalytic site [active] 395491017130 metal binding site [ion binding]; metal-binding site 395491017131 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491017132 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 395491017133 dimer interface [polypeptide binding]; other site 395491017134 conserved gate region; other site 395491017135 putative PBP binding loops; other site 395491017136 ABC-ATPase subunit interface; other site 395491017137 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491017138 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; cl00427 395491017139 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 395491017140 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491017141 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491017142 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491017143 Walker A/P-loop; other site 395491017144 ATP binding site [chemical binding]; other site 395491017145 Q-loop/lid; other site 395491017146 ABC transporter signature motif; other site 395491017147 Walker B; other site 395491017148 D-loop; other site 395491017149 H-loop/switch region; other site 395491017150 TOBE domain; Region: TOBE_2; cl01440 395491017151 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491017152 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395491017153 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395491017154 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 395491017155 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 395491017156 S-adenosylmethionine binding site [chemical binding]; other site 395491017157 Helix-turn-helix domains; Region: HTH; cl00088 395491017158 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 395491017159 FCD domain; Region: FCD; cl11656 395491017160 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 395491017161 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 395491017162 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491017163 Walker A/P-loop; other site 395491017164 ATP binding site [chemical binding]; other site 395491017165 Q-loop/lid; other site 395491017166 ABC transporter signature motif; other site 395491017167 Walker B; other site 395491017168 D-loop; other site 395491017169 H-loop/switch region; other site 395491017170 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491017171 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395491017172 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491017173 Walker A/P-loop; other site 395491017174 ATP binding site [chemical binding]; other site 395491017175 Q-loop/lid; other site 395491017176 ABC transporter signature motif; other site 395491017177 Walker B; other site 395491017178 D-loop; other site 395491017179 H-loop/switch region; other site 395491017180 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491017181 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395491017182 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395491017183 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 395491017184 dimer interface [polypeptide binding]; other site 395491017185 conserved gate region; other site 395491017186 putative PBP binding loops; other site 395491017187 ABC-ATPase subunit interface; other site 395491017188 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491017189 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 395491017190 dimer interface [polypeptide binding]; other site 395491017191 conserved gate region; other site 395491017192 putative PBP binding loops; other site 395491017193 ABC-ATPase subunit interface; other site 395491017194 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 395491017195 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491017196 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491017197 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491017198 inhibitor site; inhibition site 395491017199 active site 395491017200 dimer interface [polypeptide binding]; other site 395491017201 catalytic residue [active] 395491017202 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; cl01922 395491017203 BNR repeat-like domain; Region: BNR_2; pfam13088 395491017204 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395491017205 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 395491017206 putative active site [active] 395491017207 metal binding site [ion binding]; metal-binding site 395491017208 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 395491017209 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 395491017210 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395491017211 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 395491017212 oligomeric interface; other site 395491017213 putative active site [active] 395491017214 homodimer interface [polypeptide binding]; other site 395491017215 RES domain; Region: RES; cl02411 395491017216 Uncharacterized conserved protein [Function unknown]; Region: COG5642 395491017217 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 395491017218 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 attaches...; Region: class_II_aaRS-like_core; cl00268 395491017219 motif 1; other site 395491017220 dimer interface [polypeptide binding]; other site 395491017221 active site 395491017222 motif 2; other site 395491017223 motif 3; other site 395491017224 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491017225 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; cl00427 395491017226 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395491017227 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491017228 Walker A/P-loop; other site 395491017229 ATP binding site [chemical binding]; other site 395491017230 Q-loop/lid; other site 395491017231 ABC transporter signature motif; other site 395491017232 Walker B; other site 395491017233 D-loop; other site 395491017234 H-loop/switch region; other site 395491017235 NMT1/THI5 like; Region: NMT1; pfam09084 395491017236 NMT1-like family; Region: NMT1_2; cl15260 395491017237 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; cl15306 395491017238 membrane-bound complex binding site; other site 395491017239 hinge residues; other site 395491017240 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395491017241 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491017242 active site 395491017243 metal binding site [ion binding]; metal-binding site 395491017244 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491017245 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491017246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491017247 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491017248 Helix-turn-helix domains; Region: HTH; cl00088 395491017249 response regulator; Provisional; Region: PRK13435 395491017250 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; cl09944 395491017251 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491017252 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 395491017253 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; cl00080 395491017254 dimer interface [polypeptide binding]; other site 395491017255 phosphorylation site [posttranslational modification] 395491017256 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 395491017257 ATP binding site [chemical binding]; other site 395491017258 Mg2+ binding site [ion binding]; other site 395491017259 G-X-G motif; other site 395491017260 Response regulator receiver domain; Region: Response_reg; pfam00072 395491017261 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 395491017262 active site 395491017263 phosphorylation site [posttranslational modification] 395491017264 intermolecular recognition site; other site 395491017265 dimerization interface [polypeptide binding]; other site 395491017266 BA14K-like protein; Region: BA14K; pfam07886 395491017267 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491017268 hypothetical protein; Provisional; Region: PRK07588 395491017269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017270 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 395491017271 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 395491017272 catalytic residues [active] 395491017273 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395491017274 cleavage site 395491017275 active site 395491017276 substrate binding sites [chemical binding]; other site 395491017277 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395491017278 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 395491017279 cleavage site 395491017280 active site 395491017281 substrate binding sites [chemical binding]; other site 395491017282 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 395491017283 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 395491017284 active site 395491017285 catalytic triad [active] 395491017286 calcium binding site [ion binding]; other site 395491017287 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 395491017288 active site 395491017289 catalytic residues [active] 395491017290 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 395491017291 PLD-like domain; Region: PLDc_2; pfam13091 395491017292 putative active site [active] 395491017293 catalytic site [active] 395491017294 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 395491017295 PLD-like domain; Region: PLDc_2; pfam13091 395491017296 putative active site [active] 395491017297 putative catalytic site [active] 395491017298 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; cl00083 395491017299 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491017300 AAA domain; Region: AAA_21; pfam13304 395491017301 Walker A/P-loop; other site 395491017302 ATP binding site [chemical binding]; other site 395491017303 Q-loop/lid; other site 395491017304 ABC transporter signature motif; other site 395491017305 Walker B; other site 395491017306 D-loop; other site 395491017307 H-loop/switch region; other site 395491017308 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; cl00083 395491017309 Helix-turn-helix domains; Region: HTH; cl00088 395491017310 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 395491017311 active site 395491017312 NTP binding site [chemical binding]; other site 395491017313 nucleic acid binding site [nucleotide binding]; other site 395491017314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491017315 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395491017316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491017317 Walker A/P-loop; other site 395491017318 ATP binding site [chemical binding]; other site 395491017319 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 395491017320 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 395491017321 putative active site [active] 395491017322 putative metal-binding site [ion binding]; other site 395491017323 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 395491017324 HTH DNA binding domain; Region: HTH_13; pfam11972 395491017325 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 395491017326 DNA binding site [nucleotide binding] 395491017327 dimer interface [polypeptide binding]; other site 395491017328 active site 395491017329 Int/Topo IB signature motif; other site 395491017330 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 395491017331 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 395491017332 Walker A motif; other site 395491017333 ATP binding site [chemical binding]; other site 395491017334 Walker B motif; other site 395491017335 arginine finger; other site 395491017336 Fic family protein [Function unknown]; Region: COG3177 395491017337 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 395491017338 Fic/DOC family; Region: Fic; cl00960 395491017339 Helix-turn-helix domains; Region: HTH; cl00088 395491017340 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395491017341 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395491017342 ParB-like nuclease domain; Region: ParBc; cl02129 395491017343 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395491017344 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395491017345 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 395491017346 P-loop; other site 395491017347 Magnesium ion binding site [ion binding]; other site 395491017348 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 395491017349 Magnesium ion binding site [ion binding]; other site 395491017350 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491017351 conjugal transfer protein TrbB; Provisional; Region: PRK13833 395491017352 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 395491017353 ATP binding site [chemical binding]; other site 395491017354 Walker A motif; other site 395491017355 hexamer interface [polypeptide binding]; other site 395491017356 Walker B motif; other site 395491017357 TrbC/VIRB2 family; Region: TrbC; cl01583 395491017358 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 395491017359 conjugal transfer protein TrbE; Provisional; Region: PRK13830 395491017360 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 395491017361 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491017362 Walker A/P-loop; other site 395491017363 ATP binding site [chemical binding]; other site 395491017364 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 395491017365 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 395491017366 VirB8 protein; Region: VirB8; cl01500 395491017367 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 395491017368 VirB7 interaction site; other site 395491017369 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 395491017370 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 395491017371 transcriptional regulator TraR; Provisional; Region: PRK13870 395491017372 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395491017373 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 395491017374 DNA binding residues [nucleotide binding] 395491017375 dimerization interface [polypeptide binding]; other site 395491017376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4861 395491017377 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 395491017378 active site 395491017379 phosphorylation site [posttranslational modification] 395491017380 intermolecular recognition site; other site 395491017381 dimerization interface [polypeptide binding]; other site 395491017382 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 395491017383 DNA binding site [nucleotide binding] 395491017384 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 395491017385 DNA binding site [nucleotide binding] 395491017386 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 395491017387 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 395491017388 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 395491017389 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 395491017390 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 395491017391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017392 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395491017393 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 395491017394 putative active site [active] 395491017395 catalytic triad [active] 395491017396 dimer interface [polypeptide binding]; other site 395491017397 hypothetical protein; Validated; Region: PRK06201 395491017398 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395491017399 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 395491017400 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 395491017401 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491017402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491017403 Walker A/P-loop; other site 395491017404 ATP binding site [chemical binding]; other site 395491017405 Q-loop/lid; other site 395491017406 ABC transporter signature motif; other site 395491017407 Walker B; other site 395491017408 D-loop; other site 395491017409 H-loop/switch region; other site 395491017410 TOBE domain; Region: TOBE_2; cl01440 395491017411 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395491017412 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 395491017413 dimer interface [polypeptide binding]; other site 395491017414 conserved gate region; other site 395491017415 putative PBP binding loops; other site 395491017416 ABC-ATPase subunit interface; other site 395491017417 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 395491017418 dimer interface [polypeptide binding]; other site 395491017419 conserved gate region; other site 395491017420 putative PBP binding loops; other site 395491017421 ABC-ATPase subunit interface; other site 395491017422 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395491017423 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 395491017424 Protein of unknown function (DUF433); Region: DUF433; cl01030 395491017425 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 395491017426 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 395491017427 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 395491017428 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 395491017429 Dtr system oriT relaxase; Provisional; Region: PRK13826 395491017430 MobA/MobL family; Region: MobA_MobL; pfam03389 395491017431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491017432 Family description; Region: UvrD_C_2; cl15862 395491017433 TraC-like protein; Region: TraC; cl06725 395491017434 Conjugal transfer protein TraD; Region: TraD; cl05753 395491017435 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 395491017436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491017437 Walker A motif; other site 395491017438 ATP binding site [chemical binding]; other site 395491017439 Walker B motif; other site 395491017440 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 395491017441 Protein of unknown function (DUF736); Region: DUF736; cl02303 395491017442 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 395491017443 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395491017444 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 395491017445 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 395491017446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017448 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491017449 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 395491017450 active site 395491017451 metal binding site [ion binding]; metal-binding site 395491017452 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 395491017453 active site 395491017454 metal binding site [ion binding]; metal-binding site 395491017455 glutathionine S-transferase; Provisional; Region: PRK10542 395491017456 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 395491017457 C-terminal domain interface [polypeptide binding]; other site 395491017458 GSH binding site (G-site) [chemical binding]; other site 395491017459 dimer interface [polypeptide binding]; other site 395491017460 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 395491017461 dimer interface [polypeptide binding]; other site 395491017462 N-terminal domain interface [polypeptide binding]; other site 395491017463 substrate binding pocket (H-site) [chemical binding]; other site 395491017464 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491017465 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 395491017466 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 395491017467 putative substrate translocation pore; other site 395491017468 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395491017469 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395491017470 active site 395491017471 Flavin Reductases; Region: FlaRed; cl00801 395491017472 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395491017473 Helix-turn-helix domains; Region: HTH; cl00088 395491017474 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 395491017475 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 395491017476 dimer interface [polypeptide binding]; other site 395491017477 active site 395491017478 FAD binding domain; Region: FAD_binding_3; pfam01494 395491017479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017480 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 395491017481 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395491017482 TM-ABC transporter signature motif; other site 395491017483 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395491017484 TM-ABC transporter signature motif; other site 395491017485 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395491017486 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395491017487 Walker A/P-loop; other site 395491017488 ATP binding site [chemical binding]; other site 395491017489 Q-loop/lid; other site 395491017490 ABC transporter signature motif; other site 395491017491 Walker B; other site 395491017492 D-loop; other site 395491017493 H-loop/switch region; other site 395491017494 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491017495 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395491017496 Walker A/P-loop; other site 395491017497 ATP binding site [chemical binding]; other site 395491017498 Q-loop/lid; other site 395491017499 ABC transporter signature motif; other site 395491017500 Walker B; other site 395491017501 D-loop; other site 395491017502 H-loop/switch region; other site 395491017503 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395491017504 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_4; cd06337 395491017505 putative ligand binding site [chemical binding]; other site 395491017506 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395491017507 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 395491017508 active site 395491017509 dimer interface [polypeptide binding]; other site 395491017510 metal binding site [ion binding]; metal-binding site 395491017511 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 395491017512 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 395491017513 active site 395491017514 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491017515 Helix-turn-helix domains; Region: HTH; cl00088 395491017516 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 395491017517 dimerization interface [polypeptide binding]; other site 395491017518 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 395491017519 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 395491017520 osmolarity response regulator; Provisional; Region: ompR; PRK09468 395491017521 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 395491017522 active site 395491017523 phosphorylation site [posttranslational modification] 395491017524 intermolecular recognition site; other site 395491017525 dimerization interface [polypeptide binding]; other site 395491017526 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 395491017527 DNA binding site [nucleotide binding] 395491017528 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 395491017529 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 395491017530 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 395491017531 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395491017532 Protein of unknown function DUF72; Region: DUF72; cl00777 395491017533 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395491017534 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 395491017535 putative dimer interface [polypeptide binding]; other site 395491017536 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491017537 hypothetical protein; Provisional; Region: PRK13559 395491017538 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491017539 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395491017540 Histidine kinase; Region: HisKA_2; cl06527 395491017541 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491017542 PAS domain; Region: PAS_9; pfam13426 395491017543 putative active site [active] 395491017544 heme pocket [chemical binding]; other site 395491017545 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491017546 Histidine kinase; Region: HisKA_2; cl06527 395491017547 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 395491017548 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395491017549 NAD binding site [chemical binding]; other site 395491017550 catalytic Zn binding site [ion binding]; other site 395491017551 structural Zn binding site [ion binding]; other site 395491017552 Domain of unknown function (DUF305); Region: DUF305; cl15795 395491017553 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491017554 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 395491017555 ligand binding site [chemical binding]; other site 395491017556 Helix-turn-helix domains; Region: HTH; cl00088 395491017557 Response regulator receiver domain; Region: Response_reg; pfam00072 395491017558 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 395491017559 active site 395491017560 phosphorylation site [posttranslational modification] 395491017561 intermolecular recognition site; other site 395491017562 dimerization interface [polypeptide binding]; other site 395491017563 thiamine pyrophosphate protein; Provisional; Region: PRK08273 395491017564 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 395491017565 PYR/PP interface [polypeptide binding]; other site 395491017566 dimer interface [polypeptide binding]; other site 395491017567 tetramer interface [polypeptide binding]; other site 395491017568 TPP binding site [chemical binding]; other site 395491017569 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395491017570 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 395491017571 TPP-binding site [chemical binding]; other site 395491017572 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 395491017573 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional; Region: PRK14906 395491017574 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491017575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017576 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491017577 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395491017578 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 395491017579 putative NAD(P) binding site [chemical binding]; other site 395491017580 catalytic Zn binding site [ion binding]; other site 395491017581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017582 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395491017583 NAD(P) binding site [chemical binding]; other site 395491017584 active site 395491017585 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 395491017586 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 395491017587 NAD binding site [chemical binding]; other site 395491017588 homotetramer interface [polypeptide binding]; other site 395491017589 homodimer interface [polypeptide binding]; other site 395491017590 active site 395491017591 substrate binding site [chemical binding]; other site 395491017592 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 395491017593 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl15759 395491017594 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 395491017595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 395491017596 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 395491017597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 395491017598 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 395491017599 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 395491017600 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 395491017601 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 395491017602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017603 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491017604 NAD(P) binding site [chemical binding]; other site 395491017605 active site 395491017606 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 395491017607 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 395491017608 S-adenosylmethionine binding site [chemical binding]; other site 395491017609 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 395491017610 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491017611 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395491017612 classical (c) SDRs; Region: SDR_c; cd05233 395491017613 NAD(P) binding site [chemical binding]; other site 395491017614 active site 395491017615 RNA polymerase sigma factor; Provisional; Region: PRK12547 395491017616 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491017617 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491017618 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 395491017619 dimerization interface [polypeptide binding]; other site 395491017620 metal binding site [ion binding]; metal-binding site 395491017621 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; cl01922 395491017622 Asp-box motif; other site 395491017623 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491017624 Helix-turn-helix domains; Region: HTH; cl00088 395491017625 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 395491017626 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 395491017627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017628 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 395491017629 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 395491017630 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 395491017631 generic binding surface I; other site 395491017632 generic binding surface II; other site 395491017633 DNA Polymerase Y-family; Region: PolY_like; cd03468 395491017634 active site 395491017635 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 395491017636 DNA binding site [nucleotide binding] 395491017637 Cell division inhibitor SulA; Region: SulA; cl01880 395491017638 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 395491017639 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 395491017640 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 395491017641 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: GT1_like_1; cd04950 395491017642 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491017643 putative homodimer interface [polypeptide binding]; other site 395491017644 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 395491017645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017646 UDP-galactopyranose mutase; Region: GLF; pfam03275 395491017647 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491017648 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395491017649 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491017650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491017651 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491017652 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 395491017653 putative NAD(P) binding site [chemical binding]; other site 395491017654 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491017655 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 395491017656 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 395491017657 short chain dehydrogenase; Provisional; Region: PRK06701 395491017658 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 395491017659 NAD binding site [chemical binding]; other site 395491017660 metal binding site [ion binding]; metal-binding site 395491017661 active site 395491017662 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 395491017663 metal binding site [ion binding]; metal-binding site 395491017664 dimerization interface [polypeptide binding]; other site 395491017665 Domain of unknown function (DUF305); Region: DUF305; cl15795 395491017666 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 395491017667 CGNR zinc finger; Region: zf-CGNR; pfam11706 395491017668 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 395491017669 EamA-like transporter family; Region: EamA; cl01037 395491017670 EamA-like transporter family; Region: EamA; cl01037 395491017671 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 395491017672 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491017673 FecR protein; Region: FecR; pfam04773 395491017674 CHASE2 domain; Region: CHASE2; cl01732 395491017675 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395491017676 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491017677 metal binding site [ion binding]; metal-binding site 395491017678 active site 395491017679 I-site; other site 395491017680 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491017681 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395491017682 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 395491017683 active site 395491017684 phosphorylation site [posttranslational modification] 395491017685 intermolecular recognition site; other site 395491017686 dimerization interface [polypeptide binding]; other site 395491017687 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 395491017688 DNA binding residues [nucleotide binding] 395491017689 dimerization interface [polypeptide binding]; other site 395491017690 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 395491017691 putative substrate translocation pore; other site 395491017692 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 395491017693 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 395491017694 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395491017695 active site 395491017696 DNA binding site [nucleotide binding] 395491017697 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 395491017698 DNA binding site [nucleotide binding] 395491017699 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 395491017700 nucleotide binding site [chemical binding]; other site 395491017701 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395491017702 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 395491017703 putative dimer interface [polypeptide binding]; other site 395491017704 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491017705 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491017706 Response regulator receiver domain; Region: Response_reg; pfam00072 395491017707 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 395491017708 active site 395491017709 phosphorylation site [posttranslational modification] 395491017710 intermolecular recognition site; other site 395491017711 dimerization interface [polypeptide binding]; other site 395491017712 two component system sensor kinase SsrB; Provisional; Region: PRK15369 395491017713 Response regulator receiver domain; Region: Response_reg; pfam00072 395491017714 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 395491017715 active site 395491017716 phosphorylation site [posttranslational modification] 395491017717 intermolecular recognition site; other site 395491017718 dimerization interface [polypeptide binding]; other site 395491017719 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; cl01155 395491017720 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 395491017721 non-specific DNA binding site [nucleotide binding]; other site 395491017722 salt bridge; other site 395491017723 sequence-specific DNA binding site [nucleotide binding]; other site 395491017724 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491017725 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 395491017726 nucleophile elbow; other site 395491017727 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395491017728 Protein export membrane protein; Region: SecD_SecF; cl14618 395491017729 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395491017730 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491017731 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491017732 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395491017733 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 395491017734 active site 395491017735 phosphorylation site [posttranslational modification] 395491017736 intermolecular recognition site; other site 395491017737 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 395491017738 putative active site [active] 395491017739 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491017740 Helix-turn-helix domains; Region: HTH; cl00088 395491017741 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 395491017742 putative effector binding pocket; other site 395491017743 putative dimerization interface [polypeptide binding]; other site 395491017744 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395491017745 extended (e) SDRs; Region: SDR_e; cd08946 395491017746 NAD(P) binding site [chemical binding]; other site 395491017747 active site 395491017748 substrate binding site [chemical binding]; other site 395491017749 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491017750 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 395491017751 active site 395491017752 catalytic tetrad [active] 395491017753 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491017754 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 395491017755 active site 395491017756 catalytic tetrad [active] 395491017757 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395491017758 classical (c) SDRs; Region: SDR_c; cd05233 395491017759 NAD(P) binding site [chemical binding]; other site 395491017760 active site 395491017761 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 395491017762 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491017763 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 395491017764 dimer interface [polypeptide binding]; other site 395491017765 conserved gate region; other site 395491017766 putative PBP binding loops; other site 395491017767 ABC-ATPase subunit interface; other site 395491017768 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491017769 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 395491017770 dimer interface [polypeptide binding]; other site 395491017771 conserved gate region; other site 395491017772 putative PBP binding loops; other site 395491017773 ABC-ATPase subunit interface; other site 395491017774 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 395491017775 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 395491017776 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395491017777 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491017778 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491017779 DNA binding site [nucleotide binding] 395491017780 domain linker motif; other site 395491017781 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491017782 dimerization interface [polypeptide binding]; other site 395491017783 ligand binding site [chemical binding]; other site 395491017784 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491017785 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491017786 Walker A/P-loop; other site 395491017787 ATP binding site [chemical binding]; other site 395491017788 Q-loop/lid; other site 395491017789 ABC transporter signature motif; other site 395491017790 Walker B; other site 395491017791 D-loop; other site 395491017792 H-loop/switch region; other site 395491017793 TOBE domain; Region: TOBE_2; cl01440 395491017794 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395491017795 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 395491017796 putative NAD(P) binding site [chemical binding]; other site 395491017797 putative active site [active] 395491017798 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491017799 classical (c) SDRs; Region: SDR_c; cd05233 395491017800 NAD(P) binding site [chemical binding]; other site 395491017801 active site 395491017802 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 395491017803 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 395491017804 active site 395491017805 hypothetical protein; Provisional; Region: PRK06154 395491017806 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395491017807 PYR/PP interface [polypeptide binding]; other site 395491017808 dimer interface [polypeptide binding]; other site 395491017809 TPP binding site [chemical binding]; other site 395491017810 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395491017811 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 395491017812 TPP-binding site; other site 395491017813 dimer interface [polypeptide binding]; other site 395491017814 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 395491017815 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 395491017816 active site 395491017817 catalytic site [active] 395491017818 tetramer interface [polypeptide binding]; other site 395491017819 extended (e) SDRs; Region: SDR_e; cd08946 395491017820 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395491017821 NAD(P) binding site [chemical binding]; other site 395491017822 active site 395491017823 substrate binding site [chemical binding]; other site 395491017824 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 395491017825 classical (c) SDRs; Region: SDR_c; cd05233 395491017826 NAD(P) binding site [chemical binding]; other site 395491017827 active site 395491017828 dihydropyrimidinase; Provisional; Region: PRK13404 395491017829 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 395491017830 tetramer interface [polypeptide binding]; other site 395491017831 active site 395491017832 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 395491017833 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395491017834 putative substrate translocation pore; other site 395491017835 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 395491017836 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491017837 Walker A/P-loop; other site 395491017838 ATP binding site [chemical binding]; other site 395491017839 Q-loop/lid; other site 395491017840 ABC transporter signature motif; other site 395491017841 Walker B; other site 395491017842 D-loop; other site 395491017843 H-loop/switch region; other site 395491017844 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491017845 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491017846 Walker A/P-loop; other site 395491017847 ATP binding site [chemical binding]; other site 395491017848 Q-loop/lid; other site 395491017849 ABC transporter signature motif; other site 395491017850 Walker B; other site 395491017851 D-loop; other site 395491017852 H-loop/switch region; other site 395491017853 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491017854 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395491017855 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 395491017856 dimer interface [polypeptide binding]; other site 395491017857 conserved gate region; other site 395491017858 ABC-ATPase subunit interface; other site 395491017859 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491017860 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 395491017861 dimer interface [polypeptide binding]; other site 395491017862 conserved gate region; other site 395491017863 putative PBP binding loops; other site 395491017864 ABC-ATPase subunit interface; other site 395491017865 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_17; cd08503 395491017866 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491017867 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491017868 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395491017869 conserved cys residue [active] 395491017870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491017871 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491017872 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491017873 Walker A/P-loop; other site 395491017874 ATP binding site [chemical binding]; other site 395491017875 Q-loop/lid; other site 395491017876 ABC transporter signature motif; other site 395491017877 Walker B; other site 395491017878 D-loop; other site 395491017879 H-loop/switch region; other site 395491017880 TOBE domain; Region: TOBE_2; cl01440 395491017881 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491017882 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 395491017883 dimer interface [polypeptide binding]; other site 395491017884 conserved gate region; other site 395491017885 putative PBP binding loops; other site 395491017886 ABC-ATPase subunit interface; other site 395491017887 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 395491017888 dimer interface [polypeptide binding]; other site 395491017889 conserved gate region; other site 395491017890 putative PBP binding loops; other site 395491017891 ABC-ATPase subunit interface; other site 395491017892 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491017893 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 395491017894 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491017895 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491017896 DNA-binding site [nucleotide binding]; DNA binding site 395491017897 FCD domain; Region: FCD; cl11656 395491017898 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395491017899 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; cl09108 395491017900 metal binding site [ion binding]; metal-binding site 395491017901 substrate binding pocket [chemical binding]; other site 395491017902 TspO/MBR family; Region: TspO_MBR; cl01379 395491017903 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 395491017904 Helix-turn-helix domains; Region: HTH; cl00088 395491017905 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 395491017906 putative dimerization interface [polypeptide binding]; other site 395491017907 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491017908 active site 395491017909 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395491017910 Na binding site [ion binding]; other site 395491017911 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491017912 hypothetical protein; Provisional; Region: PRK06102 395491017913 Amidase; Region: Amidase; cl11426 395491017914 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 395491017915 active site 395491017916 catalytic site [active] 395491017917 Zn binding site [ion binding]; other site 395491017918 tetramer interface [polypeptide binding]; other site 395491017919 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395491017920 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395491017921 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491017922 Helix-turn-helix domains; Region: HTH; cl00088 395491017923 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 395491017924 dimerization interface [polypeptide binding]; other site 395491017925 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491017926 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 395491017927 AP (apurinic/apyrimidinic) site pocket; other site 395491017928 DNA interaction; other site 395491017929 Metal-binding active site; metal-binding site 395491017930 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395491017931 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395491017932 NAD(P) binding site [chemical binding]; other site 395491017933 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 395491017934 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 395491017935 IHF dimer interface [polypeptide binding]; other site 395491017936 IHF - DNA interface [nucleotide binding]; other site 395491017937 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 395491017938 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491017939 Helix-turn-helix domains; Region: HTH; cl00088 395491017940 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 395491017941 dimerization interface [polypeptide binding]; other site 395491017942 substrate binding pocket [chemical binding]; other site 395491017943 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 395491017944 non-specific DNA binding site [nucleotide binding]; other site 395491017945 salt bridge; other site 395491017946 sequence-specific DNA binding site [nucleotide binding]; other site 395491017947 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 395491017948 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 395491017949 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 395491017950 ATP binding site [chemical binding]; other site 395491017951 putative Mg++ binding site [ion binding]; other site 395491017952 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 395491017953 nucleotide binding region [chemical binding]; other site 395491017954 ATP-binding site [chemical binding]; other site 395491017955 TRCF domain; Region: TRCF; cl04088 395491017956 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395491017957 Major royal jelly protein; Region: MRJP; pfam03022 395491017958 PAS domain S-box; Region: sensory_box; TIGR00229 395491017959 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491017960 putative active site [active] 395491017961 heme pocket [chemical binding]; other site 395491017962 GAF domain; Region: GAF_2; pfam13185 395491017963 GAF domain; Region: GAF; cl15785 395491017964 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395491017965 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 395491017966 ATP binding site [chemical binding]; other site 395491017967 Mg2+ binding site [ion binding]; other site 395491017968 G-X-G motif; other site 395491017969 Response regulator receiver domain; Region: Response_reg; pfam00072 395491017970 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 395491017971 active site 395491017972 phosphorylation site [posttranslational modification] 395491017973 intermolecular recognition site; other site 395491017974 dimerization interface [polypeptide binding]; other site 395491017975 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491017976 Histidine kinase; Region: HisKA_2; cl06527 395491017977 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 395491017978 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 395491017979 Walker A motif; other site 395491017980 ATP binding site [chemical binding]; other site 395491017981 Walker B motif; other site 395491017982 DNA repair and recombination protein RadB; Provisional; Region: radB; PRK09361 395491017983 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 395491017984 Walker A motif; other site 395491017985 ATP binding site [chemical binding]; other site 395491017986 Walker B motif; other site 395491017987 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395491017988 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 395491017989 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491017990 Cupin domain; Region: Cupin_2; cl09118 395491017991 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491017992 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 395491017993 putative NAD(P) binding site [chemical binding]; other site 395491017994 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395491017995 Response regulator receiver domain; Region: Response_reg; pfam00072 395491017996 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 395491017997 active site 395491017998 phosphorylation site [posttranslational modification] 395491017999 intermolecular recognition site; other site 395491018000 dimerization interface [polypeptide binding]; other site 395491018001 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395491018002 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 395491018003 active site 395491018004 phosphorylation site [posttranslational modification] 395491018005 intermolecular recognition site; other site 395491018006 dimerization interface [polypeptide binding]; other site 395491018007 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 395491018008 DNA binding residues [nucleotide binding] 395491018009 dimerization interface [polypeptide binding]; other site 395491018010 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491018011 substrate binding site [chemical binding]; other site 395491018012 activation loop (A-loop); other site 395491018013 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491018014 Predicted ATPase [General function prediction only]; Region: COG3899 395491018015 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395491018016 GAF domain; Region: GAF; cl15785 395491018017 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491018018 PAS domain; Region: PAS_9; pfam13426 395491018019 putative active site [active] 395491018020 heme pocket [chemical binding]; other site 395491018021 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 395491018022 dimer interface [polypeptide binding]; other site 395491018023 phosphorylation site [posttranslational modification] 395491018024 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 395491018025 ATP binding site [chemical binding]; other site 395491018026 Mg2+ binding site [ion binding]; other site 395491018027 G-X-G motif; other site 395491018028 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491018029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018030 NAD(P) binding site [chemical binding]; other site 395491018031 active site 395491018032 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491018033 Helix-turn-helix domains; Region: HTH; cl00088 395491018034 classical (c) SDRs; Region: SDR_c; cd05233 395491018035 NAD(P) binding site [chemical binding]; other site 395491018036 active site 395491018037 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491018038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018039 NAD(P) binding site [chemical binding]; other site 395491018040 active site 395491018041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491018042 Helix-turn-helix domains; Region: HTH; cl00088 395491018043 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 395491018044 putative effector binding pocket; other site 395491018045 dimerization interface [polypeptide binding]; other site 395491018046 LysR family transcriptional regulator; Provisional; Region: PRK14997 395491018047 Helix-turn-helix domains; Region: HTH; cl00088 395491018048 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_6; cd08475 395491018049 putative effector binding pocket; other site 395491018050 putative dimerization interface [polypeptide binding]; other site 395491018051 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 395491018052 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491018053 putative NAD(P) binding site [chemical binding]; other site 395491018054 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 395491018055 ATP binding site [chemical binding]; other site 395491018056 Mg2+ binding site [ion binding]; other site 395491018057 G-X-G motif; other site 395491018058 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 395491018059 active site 395491018060 phosphorylation site [posttranslational modification] 395491018061 intermolecular recognition site; other site 395491018062 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 395491018063 putative active site [active] 395491018064 catalytic site [active] 395491018065 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 395491018066 PLD-like domain; Region: PLDc_2; pfam13091 395491018067 putative active site [active] 395491018068 catalytic site [active] 395491018069 circadian clock protein KaiC; Reviewed; Region: PRK09302 395491018070 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491018071 Walker A motif; other site 395491018072 ATP binding site [chemical binding]; other site 395491018073 Walker B motif; other site 395491018074 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 395491018075 Walker A motif; other site 395491018076 ATP binding site [chemical binding]; other site 395491018077 Walker B motif; other site 395491018078 putative diguanylate cyclase; Provisional; Region: PRK09776 395491018079 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395491018080 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 395491018081 ATP binding site [chemical binding]; other site 395491018082 Mg2+ binding site [ion binding]; other site 395491018083 G-X-G motif; other site 395491018084 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491018085 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 395491018086 active site 395491018087 phosphorylation site [posttranslational modification] 395491018088 intermolecular recognition site; other site 395491018089 dimerization interface [polypeptide binding]; other site 395491018090 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491018091 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 395491018092 ligand binding site [chemical binding]; other site 395491018093 flexible hinge region; other site 395491018094 Helix-turn-helix domains; Region: HTH; cl00088 395491018095 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491018096 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; cl00047 395491018097 ligand binding site [chemical binding]; other site 395491018098 flexible hinge region; other site 395491018099 Helix-turn-helix domains; Region: HTH; cl00088 395491018100 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491018101 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491018102 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491018103 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; cl09944 395491018104 active site 395491018105 phosphorylation site [posttranslational modification] 395491018106 intermolecular recognition site; other site 395491018107 dimerization interface [polypeptide binding]; other site 395491018108 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 395491018109 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 395491018110 short chain dehydrogenase; Provisional; Region: PRK06139 395491018111 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 395491018112 putative NAD(P) binding site [chemical binding]; other site 395491018113 active site 395491018114 hypothetical protein; Validated; Region: PRK08238 395491018115 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491018116 UbiA prenyltransferase family; Region: UbiA; cl00337 395491018117 GtrA-like protein; Region: GtrA; cl00971 395491018118 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395491018119 FAD binding domain; Region: FAD_binding_4; pfam01565 395491018120 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395491018121 classical (c) SDRs; Region: SDR_c; cd05233 395491018122 NAD(P) binding site [chemical binding]; other site 395491018123 active site 395491018124 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 395491018125 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 395491018126 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 395491018127 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 395491018128 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 395491018129 proposed catalytic triad [active] 395491018130 active site nucleophile [active] 395491018131 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 395491018132 active site 395491018133 dimer interface [polypeptide binding]; other site 395491018134 catalytic nucleophile [active] 395491018135 cyanophycin synthetase; Provisional; Region: PRK14016 395491018136 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491018137 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395491018138 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 395491018139 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395491018140 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 395491018141 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 395491018142 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 395491018143 dimanganese center [ion binding]; other site 395491018144 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 395491018145 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 395491018146 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 395491018147 catalytic site [active] 395491018148 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 395491018149 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491018150 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491018151 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 395491018152 putative proximal heme binding site [chemical binding]; other site 395491018153 putative Iron-sulfur protein interface [polypeptide binding]; other site 395491018154 putative SdhC subunit interface [polypeptide binding]; other site 395491018155 putative proximal quinone binding site; other site 395491018156 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491018157 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491018158 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 395491018159 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395491018160 NAD binding site [chemical binding]; other site 395491018161 catalytic Zn binding site [ion binding]; other site 395491018162 structural Zn binding site [ion binding]; other site 395491018163 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491018164 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395491018165 substrate binding pocket [chemical binding]; other site 395491018166 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395491018167 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 395491018168 putative molybdopterin cofactor binding site [chemical binding]; other site 395491018169 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 395491018170 putative molybdopterin cofactor binding site; other site 395491018171 Cytochrome c; Region: Cytochrom_C; cl11414 395491018172 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395491018173 Cytochrome c; Region: Cytochrom_C; cl11414 395491018174 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395491018175 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 395491018176 D-pathway; other site 395491018177 Putative ubiquinol binding site [chemical binding]; other site 395491018178 Low-spin heme (heme b) binding site [chemical binding]; other site 395491018179 Putative water exit pathway; other site 395491018180 Binuclear center (heme o3/CuB) [ion binding]; other site 395491018181 K-pathway; other site 395491018182 Putative proton exit pathway; other site 395491018183 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 395491018184 Subunit I/III interface [polypeptide binding]; other site 395491018185 Cytochrome c; Region: Cytochrom_C; cl11414 395491018186 Cytochrome c; Region: Cytochrom_C; cl11414 395491018187 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395491018188 Cytochrome c; Region: Cytochrom_C; cl11414 395491018189 Low affinity iron permease; Region: Iron_permease; cl12096 395491018190 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_9; cd04666 395491018191 nudix motif; other site 395491018192 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 395491018193 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395491018194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018195 NAD(P) binding site [chemical binding]; other site 395491018196 active site 395491018197 Cupin domain; Region: Cupin_2; cl09118 395491018198 Helix-turn-helix domain; Region: HTH_18; pfam12833 395491018199 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491018200 Helix-turn-helix domains; Region: HTH; cl00088 395491018201 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 395491018202 dinuclear metal binding motif [ion binding]; other site 395491018203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018204 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 395491018205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018206 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491018207 Helix-turn-helix domains; Region: HTH; cl00088 395491018208 Usg-like family; Region: Usg; cl11567 395491018209 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 395491018210 oligomerisation interface [polypeptide binding]; other site 395491018211 mobile loop; other site 395491018212 roof hairpin; other site 395491018213 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 395491018214 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 395491018215 ring oligomerisation interface [polypeptide binding]; other site 395491018216 ATP/Mg binding site [chemical binding]; other site 395491018217 stacking interactions; other site 395491018218 hinge regions; other site 395491018219 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 395491018220 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491018221 putative ADP-binding pocket [chemical binding]; other site 395491018222 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395491018223 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491018224 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 395491018225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018226 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 395491018227 classical (c) SDRs; Region: SDR_c; cd05233 395491018228 NAD(P) binding site [chemical binding]; other site 395491018229 active site 395491018230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491018231 Helix-turn-helix domains; Region: HTH; cl00088 395491018232 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 395491018233 dimerization interface [polypeptide binding]; other site 395491018234 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 395491018235 putative active site [active] 395491018236 K+ potassium transporter; Region: K_trans; cl15781 395491018237 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 395491018238 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 395491018239 homodimer interface [polypeptide binding]; other site 395491018240 acceptor substrate-binding pocket; other site 395491018241 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 395491018242 dimerization interface [polypeptide binding]; other site 395491018243 Domain of unknown function (DUF305); Region: DUF305; cl15795 395491018244 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491018245 Helix-turn-helix domains; Region: HTH; cl00088 395491018246 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 395491018247 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491018248 Domain of unknown function (DUF955); Region: DUF955; cl01076 395491018249 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; cl00047 395491018250 Helix-turn-helix domains; Region: HTH; cl00088 395491018251 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 395491018252 proximal heme binding site [chemical binding]; other site 395491018253 Iron-sulfur protein interface; other site 395491018254 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 395491018255 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 395491018256 RNA binding surface [nucleotide binding]; other site 395491018257 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491018258 PAS domain; Region: PAS_9; pfam13426 395491018259 putative active site [active] 395491018260 heme pocket [chemical binding]; other site 395491018261 PAS domain S-box; Region: sensory_box; TIGR00229 395491018262 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491018263 putative active site [active] 395491018264 heme pocket [chemical binding]; other site 395491018265 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395491018266 Histidine kinase; Region: HisKA_2; cl06527 395491018267 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 395491018268 ATP binding site [chemical binding]; other site 395491018269 Mg2+ binding site [ion binding]; other site 395491018270 G-X-G motif; other site 395491018271 Domain of unknown function (DUF378); Region: DUF378; cl00943 395491018272 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491018273 Stress-induced bacterial acidophilic repeat motif; Region: KGG; pfam10685 395491018274 short chain dehydrogenase; Provisional; Region: PRK06139 395491018275 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 395491018276 putative NAD(P) binding site [chemical binding]; other site 395491018277 active site 395491018278 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 395491018279 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 395491018280 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491018281 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491018282 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491018283 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; cl09944 395491018284 active site 395491018285 phosphorylation site [posttranslational modification] 395491018286 intermolecular recognition site; other site 395491018287 dimerization interface [polypeptide binding]; other site 395491018288 oxidoreductase; Provisional; Region: PRK06128 395491018289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018290 NAD(P) binding site [chemical binding]; other site 395491018291 active site 395491018292 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395491018293 classical (c) SDRs; Region: SDR_c; cd05233 395491018294 NAD(P) binding site [chemical binding]; other site 395491018295 active site 395491018296 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 395491018297 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491018298 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395491018299 Fe-S cluster binding site [ion binding]; other site 395491018300 active site 395491018301 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 395491018302 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 395491018303 S-adenosylmethionine binding site [chemical binding]; other site 395491018304 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 395491018305 Erythromycin esterase; Region: Erythro_esteras; pfam05139 395491018306 Predicted ATPase [General function prediction only]; Region: COG3899 395491018307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491018308 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 395491018309 DNA binding residues [nucleotide binding] 395491018310 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 395491018311 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491018312 Helix-turn-helix domains; Region: HTH; cl00088 395491018313 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 395491018314 dimerization interface [polypeptide binding]; other site 395491018315 substrate binding pocket [chemical binding]; other site 395491018316 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 395491018317 non-specific DNA binding site [nucleotide binding]; other site 395491018318 salt bridge; other site 395491018319 sequence-specific DNA binding site [nucleotide binding]; other site 395491018320 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 395491018321 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 protein; Region: CSP_CDS; cd04458 395491018322 DNA-binding site [nucleotide binding]; DNA binding site 395491018323 RNA-binding motif; other site 395491018324 Response regulator receiver domain; Region: Response_reg; pfam00072 395491018325 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 395491018326 active site 395491018327 phosphorylation site [posttranslational modification] 395491018328 intermolecular recognition site; other site 395491018329 dimerization interface [polypeptide binding]; other site 395491018330 LysE type translocator; Region: LysE; cl00565 395491018331 Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are...; Region: PRX_family; cd02971 395491018332 catalytic triad [active] 395491018333 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 395491018334 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395491018335 DoxX; Region: DoxX; cl00976 395491018336 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 395491018337 Protein of unknown function (DUF692); Region: DUF692; cl01263 395491018338 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 395491018339 K+ potassium transporter; Region: K_trans; cl15781 395491018340 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 395491018341 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 395491018342 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 395491018343 homodimer interface [polypeptide binding]; other site 395491018344 active site 395491018345 TDP-binding site; other site 395491018346 acceptor substrate-binding pocket; other site 395491018347 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 395491018348 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 395491018349 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 395491018350 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 395491018351 Subunit I/III interface [polypeptide binding]; other site 395491018352 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395491018353 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 395491018354 D-pathway; other site 395491018355 Low-spin heme binding site [chemical binding]; other site 395491018356 Putative water exit pathway; other site 395491018357 Binuclear center (active site) [active] 395491018358 K-pathway; other site 395491018359 Putative proton exit pathway; other site 395491018360 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 395491018361 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395491018362 Cytochrome c; Region: Cytochrom_C; cl11414 395491018363 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 395491018364 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 395491018365 Cu(I) binding site [ion binding]; other site 395491018366 Cytochrome c; Region: Cytochrom_C; cl11414 395491018367 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 395491018368 Polysulphide reductase, NrfD; Region: NrfD; cl01295 395491018369 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 395491018370 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 395491018371 molybdopterin cofactor binding site; other site 395491018372 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 395491018373 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 395491018374 4Fe-4S binding domain; Region: Fer4; cl02805 395491018375 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 395491018376 heme-binding residues [chemical binding]; other site 395491018377 Bacterial SH3 domain; Region: SH3_3; cl02551 395491018378 Bacterial SH3 domain; Region: SH3_3; cl02551 395491018379 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 395491018380 Helix-turn-helix domains; Region: HTH; cl00088 395491018381 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395491018382 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395491018383 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 395491018384 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 395491018385 Trp docking motif [polypeptide binding]; other site 395491018386 putative active site [active] 395491018387 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 395491018388 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 395491018389 putative ion selectivity filter; other site 395491018390 putative pore gating glutamate residue; other site 395491018391 putative H+/Cl- coupling transport residue; other site 395491018392 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 protein; Region: CSP_CDS; cd04458 395491018393 DNA-binding site [nucleotide binding]; DNA binding site 395491018394 RNA-binding motif; other site 395491018395 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 395491018396 putative metal binding site [ion binding]; other site 395491018397 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 395491018398 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 395491018399 FOG: CBS domain [General function prediction only]; Region: COG0517 395491018400 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 395491018401 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; cl00075 395491018402 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; cl00075 395491018403 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; cl15377 395491018404 FeS/SAM binding site; other site 395491018405 DNA-sulfur modification-associated; Region: DndB; cl14002 395491018406 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 395491018407 ATP binding site [chemical binding]; other site 395491018408 putative Mg++ binding site [ion binding]; other site 395491018409 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 395491018410 nucleotide binding region [chemical binding]; other site 395491018411 ATP-binding site [chemical binding]; other site 395491018412 serine endoprotease; Provisional; Region: PRK10942 395491018413 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395491018414 Family description; Region: UvrD_C_2; cl15862 395491018415 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 395491018416 HTH DNA binding domain; Region: HTH_13; pfam11972 395491018417 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395491018418 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 395491018419 putative active site [active] 395491018420 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 395491018421 DNA binding site [nucleotide binding] 395491018422 dimer interface [polypeptide binding]; other site 395491018423 active site 395491018424 Int/Topo IB signature motif; other site 395491018425 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 395491018426 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 395491018427 putative active site [active] 395491018428 replication initiation protein RepC; Provisional; Region: PRK13824 395491018429 Helix-turn-helix domains; Region: HTH; cl00088 395491018430 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395491018431 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395491018432 ParB-like nuclease domain; Region: ParBc; cl02129 395491018433 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395491018434 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395491018435 DNA binding residues [nucleotide binding] 395491018436 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 395491018437 P-loop; other site 395491018438 Magnesium ion binding site [ion binding]; other site 395491018439 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 395491018440 Magnesium ion binding site [ion binding]; other site 395491018441 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 395491018442 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491018443 Cupin domain; Region: Cupin_2; cl09118 395491018444 Helix-turn-helix domain; Region: HTH_18; pfam12833 395491018445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491018446 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 395491018447 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 395491018448 putative ligand binding site [chemical binding]; other site 395491018449 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491018450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491018451 Walker A/P-loop; other site 395491018452 ATP binding site [chemical binding]; other site 395491018453 Q-loop/lid; other site 395491018454 ABC transporter signature motif; other site 395491018455 Walker B; other site 395491018456 D-loop; other site 395491018457 H-loop/switch region; other site 395491018458 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 395491018459 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 395491018460 TM-ABC transporter signature motif; other site 395491018461 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395491018462 classical (c) SDRs; Region: SDR_c; cd05233 395491018463 NAD(P) binding site [chemical binding]; other site 395491018464 active site 395491018465 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491018466 classical (c) SDRs; Region: SDR_c; cd05233 395491018467 NAD(P) binding site [chemical binding]; other site 395491018468 active site 395491018469 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491018470 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 395491018471 dimer interface [polypeptide binding]; other site 395491018472 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491018473 Helix-turn-helix domains; Region: HTH; cl00088 395491018474 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; cl01054 395491018475 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 395491018476 dimer interface [polypeptide binding]; other site 395491018477 phosphorylation site [posttranslational modification] 395491018478 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 395491018479 ATP binding site [chemical binding]; other site 395491018480 Mg2+ binding site [ion binding]; other site 395491018481 G-X-G motif; other site 395491018482 DNA-binding response regulator CreB; Provisional; Region: PRK11083 395491018483 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 395491018484 active site 395491018485 phosphorylation site [posttranslational modification] 395491018486 intermolecular recognition site; other site 395491018487 dimerization interface [polypeptide binding]; other site 395491018488 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 395491018489 DNA binding site [nucleotide binding] 395491018490 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 395491018491 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 395491018492 aspartate kinase; Validated; Region: PRK09181 395491018493 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 395491018494 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395491018495 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 395491018496 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 395491018497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491018498 Helix-turn-helix domains; Region: HTH; cl00088 395491018499 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 395491018500 putative effector binding pocket; other site 395491018501 putative dimerization interface [polypeptide binding]; other site 395491018502 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 395491018503 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491018504 active site 395491018505 catalytic tetrad [active] 395491018506 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 395491018507 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 bacteriocins; Region: Peptidase_C39C; cd02419 395491018508 putative active site [active] 395491018509 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491018510 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 395491018511 Walker A/P-loop; other site 395491018512 ATP binding site [chemical binding]; other site 395491018513 Q-loop/lid; other site 395491018514 ABC transporter signature motif; other site 395491018515 Walker B; other site 395491018516 D-loop; other site 395491018517 H-loop/switch region; other site 395491018518 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395491018519 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491018520 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 395491018521 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491018522 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 395491018523 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 395491018524 non-specific DNA binding site [nucleotide binding]; other site 395491018525 salt bridge; other site 395491018526 sequence-specific DNA binding site [nucleotide binding]; other site 395491018527 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491018528 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 395491018529 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 395491018530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018531 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395491018532 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491018533 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491018534 Walker A/P-loop; other site 395491018535 ATP binding site [chemical binding]; other site 395491018536 Q-loop/lid; other site 395491018537 ABC transporter signature motif; other site 395491018538 Walker B; other site 395491018539 D-loop; other site 395491018540 H-loop/switch region; other site 395491018541 TOBE domain; Region: TOBE_2; cl01440 395491018542 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 395491018543 dimer interface [polypeptide binding]; other site 395491018544 conserved gate region; other site 395491018545 putative PBP binding loops; other site 395491018546 ABC-ATPase subunit interface; other site 395491018547 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; cl00427 395491018548 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491018549 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 395491018550 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491018551 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 395491018552 Metal-binding active site; metal-binding site 395491018553 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491018554 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491018555 DNA binding site [nucleotide binding] 395491018556 domain linker motif; other site 395491018557 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491018558 dimerization interface [polypeptide binding]; other site 395491018559 ligand binding site [chemical binding]; other site 395491018560 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491018561 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491018562 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 395491018563 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 395491018564 carboxyltransferase (CT) interaction site; other site 395491018565 biotinylation site [posttranslational modification]; other site 395491018566 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 395491018567 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395491018568 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491018569 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395491018570 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 395491018571 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395491018572 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 395491018573 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 395491018574 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 395491018575 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 395491018576 putative active site [active] 395491018577 aspartate aminotransferase; Provisional; Region: PRK05764 395491018578 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 395491018579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491018580 homodimer interface [polypeptide binding]; other site 395491018581 catalytic residue [active] 395491018582 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 395491018583 Helix-turn-helix domains; Region: HTH; cl00088 395491018584 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 395491018585 putative dimerization interface [polypeptide binding]; other site 395491018586 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395491018587 classical (c) SDRs; Region: SDR_c; cd05233 395491018588 NAD(P) binding site [chemical binding]; other site 395491018589 active site 395491018590 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491018591 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 395491018592 dimer interface [polypeptide binding]; other site 395491018593 conserved gate region; other site 395491018594 putative PBP binding loops; other site 395491018595 ABC-ATPase subunit interface; other site 395491018596 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 395491018597 dimer interface [polypeptide binding]; other site 395491018598 conserved gate region; other site 395491018599 putative PBP binding loops; other site 395491018600 ABC-ATPase subunit interface; other site 395491018601 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491018602 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491018603 Walker A/P-loop; other site 395491018604 ATP binding site [chemical binding]; other site 395491018605 Q-loop/lid; other site 395491018606 ABC transporter signature motif; other site 395491018607 Walker B; other site 395491018608 D-loop; other site 395491018609 H-loop/switch region; other site 395491018610 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491018611 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491018612 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 395491018613 substrate binding pocket [chemical binding]; other site 395491018614 membrane-bound complex binding site; other site 395491018615 hinge residues; other site 395491018616 hypothetical protein; Validated; Region: PRK06201 395491018617 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395491018618 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 395491018619 Predicted deacylase [General function prediction only]; Region: COG3608 395491018620 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 395491018621 putative active site [active] 395491018622 Zn binding site [ion binding]; other site 395491018623 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 395491018624 homotrimer interaction site [polypeptide binding]; other site 395491018625 putative active site [active] 395491018626 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 395491018627 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 395491018628 dimer interface [polypeptide binding]; other site 395491018629 active site 395491018630 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395491018631 substrate binding site [chemical binding]; other site 395491018632 catalytic residue [active] 395491018633 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395491018634 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 395491018635 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 395491018636 TM-ABC transporter signature motif; other site 395491018637 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 395491018638 TM-ABC transporter signature motif; other site 395491018639 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491018640 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491018641 Walker A/P-loop; other site 395491018642 ATP binding site [chemical binding]; other site 395491018643 Q-loop/lid; other site 395491018644 ABC transporter signature motif; other site 395491018645 Walker B; other site 395491018646 D-loop; other site 395491018647 H-loop/switch region; other site 395491018648 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491018649 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 395491018650 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491018651 putative ligand binding site [chemical binding]; other site 395491018652 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395491018653 Helix-turn-helix domains; Region: HTH; cl00088 395491018654 Bacterial transcriptional regulator; Region: IclR; pfam01614 395491018655 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395491018656 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395491018657 active site 395491018658 non-prolyl cis peptide bond; other site 395491018659 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491018660 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 395491018661 dimer interface [polypeptide binding]; other site 395491018662 conserved gate region; other site 395491018663 putative PBP binding loops; other site 395491018664 ABC-ATPase subunit interface; other site 395491018665 NMT1-like family; Region: NMT1_2; cl15260 395491018666 NMT1/THI5 like; Region: NMT1; pfam09084 395491018667 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395491018668 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491018669 Walker A/P-loop; other site 395491018670 ATP binding site [chemical binding]; other site 395491018671 Q-loop/lid; other site 395491018672 ABC transporter signature motif; other site 395491018673 Walker B; other site 395491018674 D-loop; other site 395491018675 H-loop/switch region; other site 395491018676 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 395491018677 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 395491018678 Cl- selectivity filter; other site 395491018679 Cl- binding residues [ion binding]; other site 395491018680 pore gating glutamate residue; other site 395491018681 dimer interface [polypeptide binding]; other site 395491018682 FOG: CBS domain [General function prediction only]; Region: COG0517 395491018683 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 395491018684 Helix-turn-helix domains; Region: HTH; cl00088 395491018685 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 395491018686 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491018687 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 395491018688 dimer interface [polypeptide binding]; other site 395491018689 conserved gate region; other site 395491018690 putative PBP binding loops; other site 395491018691 ABC-ATPase subunit interface; other site 395491018692 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491018693 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; cl00427 395491018694 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491018695 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 395491018696 substrate binding pocket [chemical binding]; other site 395491018697 membrane-bound complex binding site; other site 395491018698 hinge residues; other site 395491018699 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 395491018700 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491018701 Walker A/P-loop; other site 395491018702 ATP binding site [chemical binding]; other site 395491018703 Q-loop/lid; other site 395491018704 ABC transporter signature motif; other site 395491018705 Walker B; other site 395491018706 D-loop; other site 395491018707 H-loop/switch region; other site 395491018708 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395491018709 Helix-turn-helix domains; Region: HTH; cl00088 395491018710 AsnC family; Region: AsnC_trans_reg; pfam01037 395491018711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 395491018712 Cache domain; Region: Cache_2; cl07034 395491018713 Histidine kinase; Region: HisKA_3; pfam07730 395491018714 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; cl00075 395491018715 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395491018716 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 395491018717 active site 395491018718 phosphorylation site [posttranslational modification] 395491018719 intermolecular recognition site; other site 395491018720 dimerization interface [polypeptide binding]; other site 395491018721 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 395491018722 DNA binding residues [nucleotide binding] 395491018723 dimerization interface [polypeptide binding]; other site 395491018724 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 395491018725 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395491018726 Na binding site [ion binding]; other site 395491018727 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395491018728 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; cl01054 395491018729 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395491018730 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491018731 dimer interface [polypeptide binding]; other site 395491018732 putative CheW interface [polypeptide binding]; other site 395491018733 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 395491018734 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 395491018735 active site 395491018736 dimer interface [polypeptide binding]; other site 395491018737 non-prolyl cis peptide bond; other site 395491018738 insertion regions; other site 395491018739 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395491018740 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395491018741 active site 395491018742 non-prolyl cis peptide bond; other site 395491018743 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395491018744 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491018745 Walker A/P-loop; other site 395491018746 ATP binding site [chemical binding]; other site 395491018747 Q-loop/lid; other site 395491018748 ABC transporter signature motif; other site 395491018749 Walker B; other site 395491018750 D-loop; other site 395491018751 H-loop/switch region; other site 395491018752 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395491018753 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; cl00427 395491018754 NMT1-like family; Region: NMT1_2; cl15260 395491018755 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395491018756 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 395491018757 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395491018758 putative ligand binding site [chemical binding]; other site 395491018759 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 395491018760 TM-ABC transporter signature motif; other site 395491018761 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491018762 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491018763 Walker A/P-loop; other site 395491018764 ATP binding site [chemical binding]; other site 395491018765 Q-loop/lid; other site 395491018766 ABC transporter signature motif; other site 395491018767 Walker B; other site 395491018768 D-loop; other site 395491018769 H-loop/switch region; other site 395491018770 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491018771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018772 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395491018773 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 395491018774 AAA domain; Region: AAA_33; pfam13671 395491018775 ATP-binding site [chemical binding]; other site 395491018776 Gluconate-6-phosphate binding site [chemical binding]; other site 395491018777 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 395491018778 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 395491018779 NADP binding site [chemical binding]; other site 395491018780 homodimer interface [polypeptide binding]; other site 395491018781 active site 395491018782 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395491018783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018784 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 395491018785 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 395491018786 putative NAD(P) binding site [chemical binding]; other site 395491018787 catalytic Zn binding site [ion binding]; other site 395491018788 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491018789 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491018790 DNA binding site [nucleotide binding] 395491018791 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 395491018792 putative dimerization interface [polypeptide binding]; other site 395491018793 putative ligand binding site [chemical binding]; other site 395491018794 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 395491018795 Strictosidine synthase; Region: Str_synth; pfam03088 395491018796 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 395491018797 von Willebrand factor; Region: vWF_A; pfam12450 395491018798 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 395491018799 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 395491018800 metal ion-dependent adhesion site (MIDAS); other site 395491018801 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 395491018802 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 395491018803 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491018804 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 395491018805 DNA binding residues [nucleotide binding] 395491018806 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395491018807 Predicted acyl esterases [General function prediction only]; Region: COG2936 395491018808 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491018809 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 395491018810 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395491018811 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491018812 Walker A/P-loop; other site 395491018813 ATP binding site [chemical binding]; other site 395491018814 Q-loop/lid; other site 395491018815 ABC transporter signature motif; other site 395491018816 Walker B; other site 395491018817 D-loop; other site 395491018818 H-loop/switch region; other site 395491018819 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491018820 Walker A/P-loop; other site 395491018821 ATP binding site [chemical binding]; other site 395491018822 Q-loop/lid; other site 395491018823 ABC transporter signature motif; other site 395491018824 Walker B; other site 395491018825 D-loop; other site 395491018826 H-loop/switch region; other site 395491018827 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 395491018828 dimer interface [polypeptide binding]; other site 395491018829 conserved gate region; other site 395491018830 ABC-ATPase subunit interface; other site 395491018831 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491018832 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 395491018833 dimer interface [polypeptide binding]; other site 395491018834 conserved gate region; other site 395491018835 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; cl00427 395491018836 ABC-ATPase subunit interface; other site 395491018837 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_17; cd08503 395491018838 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491018839 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 395491018840 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 395491018841 substrate binding site [chemical binding]; other site 395491018842 oxyanion hole (OAH) forming residues; other site 395491018843 trimer interface [polypeptide binding]; other site 395491018844 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 395491018845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018846 CoA-ligase; Region: Ligase_CoA; cl02894 395491018847 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491018848 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395491018849 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395491018850 active site 395491018851 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 395491018852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491018853 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395491018854 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 395491018855 active site 395491018856 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 395491018857 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491018858 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395491018859 conserved cys residue [active] 395491018860 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491018861 Helix-turn-helix domains; Region: HTH; cl00088 395491018862 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 395491018863 dimerization interface [polypeptide binding]; other site 395491018864 EamA-like transporter family; Region: EamA; cl01037 395491018865 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395491018866 EamA-like transporter family; Region: EamA; cl01037 395491018867 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 395491018868 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 395491018869 NAD binding site [chemical binding]; other site 395491018870 catalytic Zn binding site [ion binding]; other site 395491018871 structural Zn binding site [ion binding]; other site 395491018872 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 395491018873 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491018874 substrate binding pocket [chemical binding]; other site 395491018875 membrane-bound complex binding site; other site 395491018876 hinge residues; other site 395491018877 CHASE4 domain; Region: CHASE4; cl01308 395491018878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491018879 metal binding site [ion binding]; metal-binding site 395491018880 active site 395491018881 I-site; other site 395491018882 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491018883 Isochorismatase family; Region: Isochorismatase; pfam00857 395491018884 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 395491018885 catalytic triad [active] 395491018886 conserved cis-peptide bond; other site 395491018887 Arginase family; Region: Arginase; cl00306 395491018888 hypothetical protein; Provisional; Region: PRK07550 395491018889 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 395491018890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491018891 homodimer interface [polypeptide binding]; other site 395491018892 catalytic residue [active] 395491018893 Flavin Reductases; Region: FlaRed; cl00801 395491018894 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395491018895 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395491018896 active site 395491018897 non-prolyl cis peptide bond; other site 395491018898 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491018899 Helix-turn-helix domains; Region: HTH; cl00088 395491018900 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 395491018901 dimerization interface [polypeptide binding]; other site 395491018902 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395491018903 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491018904 DNA-binding site [nucleotide binding]; DNA binding site 395491018905 UTRA domain; Region: UTRA; cl01230 395491018906 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491018907 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 395491018908 substrate binding pocket [chemical binding]; other site 395491018909 membrane-bound complex binding site; other site 395491018910 hinge residues; other site 395491018911 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491018912 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 395491018913 dimer interface [polypeptide binding]; other site 395491018914 conserved gate region; other site 395491018915 putative PBP binding loops; other site 395491018916 ABC-ATPase subunit interface; other site 395491018917 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491018918 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 395491018919 dimer interface [polypeptide binding]; other site 395491018920 conserved gate region; other site 395491018921 putative PBP binding loops; other site 395491018922 ABC-ATPase subunit interface; other site 395491018923 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491018924 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491018925 Walker A/P-loop; other site 395491018926 ATP binding site [chemical binding]; other site 395491018927 Q-loop/lid; other site 395491018928 ABC transporter signature motif; other site 395491018929 Walker B; other site 395491018930 D-loop; other site 395491018931 H-loop/switch region; other site 395491018932 Cupin domain; Region: Cupin_2; cl09118 395491018933 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 395491018934 catalytic triad [active] 395491018935 conserved cis-peptide bond; other site 395491018936 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395491018937 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491018938 Walker A/P-loop; other site 395491018939 ATP binding site [chemical binding]; other site 395491018940 Q-loop/lid; other site 395491018941 ABC transporter signature motif; other site 395491018942 Walker B; other site 395491018943 D-loop; other site 395491018944 H-loop/switch region; other site 395491018945 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491018946 Amidohydrolase ring-opening protein (Amido_AtzD_TrzD); Region: Amido_AtzD_TrzD; pfam09663 395491018947 ring-opening amidohydrolases; Region: amido_AtzD_TrzD; TIGR02714 395491018948 Isochorismatase family; Region: Isochorismatase; pfam00857 395491018949 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 395491018950 catalytic triad [active] 395491018951 conserved cis-peptide bond; other site 395491018952 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 395491018953 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395491018954 multimer interface [polypeptide binding]; other site 395491018955 active site 395491018956 catalytic triad [active] 395491018957 dimer interface [polypeptide binding]; other site 395491018958 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491018959 TM-ABC transporter signature motif; other site 395491018960 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491018961 TM-ABC transporter signature motif; other site 395491018962 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 395491018963 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 395491018964 putative ligand binding site [chemical binding]; other site 395491018965 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491018966 DNA-binding site [nucleotide binding]; DNA binding site 395491018967 FCD domain; Region: FCD; cl11656 395491018968 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395491018969 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395491018970 Walker A/P-loop; other site 395491018971 ATP binding site [chemical binding]; other site 395491018972 Q-loop/lid; other site 395491018973 ABC transporter signature motif; other site 395491018974 Walker B; other site 395491018975 D-loop; other site 395491018976 H-loop/switch region; other site 395491018977 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 395491018978 putative PBP binding loops; other site 395491018979 dimer interface [polypeptide binding]; other site 395491018980 ABC-ATPase subunit interface; other site 395491018981 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395491018982 NMT1-like family; Region: NMT1_2; cl15260 395491018983 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491018984 TM-ABC transporter signature motif; other site 395491018985 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395491018986 TM-ABC transporter signature motif; other site 395491018987 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395491018988 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491018989 Walker A/P-loop; other site 395491018990 ATP binding site [chemical binding]; other site 395491018991 Q-loop/lid; other site 395491018992 ABC transporter signature motif; other site 395491018993 Walker B; other site 395491018994 D-loop; other site 395491018995 H-loop/switch region; other site 395491018996 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491018997 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 395491018998 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 395491018999 putative ligand binding site [chemical binding]; other site 395491019000 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 395491019001 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 395491019002 active site 395491019003 putative substrate binding pocket [chemical binding]; other site 395491019004 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395491019005 GST_N family, unknown subfamily 4; 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_4; cd03056 395491019006 putative C-terminal domain interface [polypeptide binding]; other site 395491019007 putative GSH binding site (G-site) [chemical binding]; other site 395491019008 putative dimer interface [polypeptide binding]; other site 395491019009 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395491019010 N-terminal domain interface [polypeptide binding]; other site 395491019011 dimer interface [polypeptide binding]; other site 395491019012 substrate binding pocket (H-site) [chemical binding]; other site 395491019013 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395491019014 hydrophobic ligand binding site; other site 395491019015 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395491019016 [2Fe-2S] cluster binding site [ion binding]; other site 395491019017 Acylphosphatase; Region: Acylphosphatase; cl00551 395491019018 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491019019 Helix-turn-helix domains; Region: HTH; cl00088 395491019020 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 395491019021 putative effector binding pocket; other site 395491019022 dimerization interface [polypeptide binding]; other site 395491019023 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 395491019024 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 395491019025 catalytic residues [active] 395491019026 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491019027 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 395491019028 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395491019029 Walker A/P-loop; other site 395491019030 ATP binding site [chemical binding]; other site 395491019031 Q-loop/lid; other site 395491019032 ABC transporter signature motif; other site 395491019033 Walker B; other site 395491019034 D-loop; other site 395491019035 H-loop/switch region; other site 395491019036 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 395491019037 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 395491019038 siderophore binding site; other site 395491019039 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 395491019040 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 395491019041 ABC-ATPase subunit interface; other site 395491019042 dimer interface [polypeptide binding]; other site 395491019043 putative PBP binding regions; other site 395491019044 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 395491019045 ABC-ATPase subunit interface; other site 395491019046 dimer interface [polypeptide binding]; other site 395491019047 putative PBP binding regions; other site 395491019048 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491019049 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491019050 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491019051 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 395491019052 PhnA protein; Region: PhnA; pfam03831 395491019053 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395491019054 Fic family protein [Function unknown]; Region: COG3177 395491019055 Fic/DOC family; Region: Fic; cl00960 395491019056 DDE superfamily endonuclease; Region: DDE_4; cl15789 395491019057 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 395491019058 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 395491019059 UbiA prenyltransferase family; Region: UbiA; cl00337 395491019060 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491019061 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395491019062 GtrA-like protein; Region: GtrA; cl00971 395491019063 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 395491019064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491019065 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491019066 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395491019067 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 395491019068 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 395491019069 E3 interaction surface; other site 395491019070 lipoyl attachment site [posttranslational modification]; other site 395491019071 e3 binding domain; Region: E3_binding; pfam02817 395491019072 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 395491019073 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 395491019074 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 395491019075 alpha subunit interface [polypeptide binding]; other site 395491019076 TPP binding site [chemical binding]; other site 395491019077 heterodimer interface [polypeptide binding]; other site 395491019078 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395491019079 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 395491019080 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 395491019081 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 395491019082 tetramer interface [polypeptide binding]; other site 395491019083 TPP-binding site [chemical binding]; other site 395491019084 heterodimer interface [polypeptide binding]; other site 395491019085 phosphorylation loop region [posttranslational modification] 395491019086 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395491019087 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395491019088 active site 395491019089 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 395491019090 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395491019091 dimer interface [polypeptide binding]; other site 395491019092 active site 395491019093 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491019094 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 395491019095 NAD binding site [chemical binding]; other site 395491019096 homodimer interface [polypeptide binding]; other site 395491019097 homotetramer interface [polypeptide binding]; other site 395491019098 active site 395491019099 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395491019100 SurA N-terminal domain; Region: SurA_N_3; cl07813 395491019101 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491019102 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491019103 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395491019104 isovaleryl-CoA dehydrogenase; Region: PLN02519 395491019105 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 395491019106 substrate binding site [chemical binding]; other site 395491019107 FAD binding site [chemical binding]; other site 395491019108 catalytic base [active] 395491019109 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 395491019110 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395491019111 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395491019112 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 395491019113 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395491019114 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395491019115 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395491019116 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 395491019117 carboxyltransferase (CT) interaction site; other site 395491019118 biotinylation site [posttranslational modification]; other site 395491019119 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 395491019120 putative active site [active] 395491019121 putative catalytic site [active] 395491019122 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; cl09155 395491019123 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395491019124 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; cl01054 395491019125 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 395491019126 dimer interface [polypeptide binding]; other site 395491019127 phosphorylation site [posttranslational modification] 395491019128 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 395491019129 ATP binding site [chemical binding]; other site 395491019130 Mg2+ binding site [ion binding]; other site 395491019131 G-X-G motif; other site 395491019132 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 395491019133 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 395491019134 active site 395491019135 phosphorylation site [posttranslational modification] 395491019136 intermolecular recognition site; other site 395491019137 dimerization interface [polypeptide binding]; other site 395491019138 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 395491019139 DNA binding site [nucleotide binding] 395491019140 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395491019141 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395491019142 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 395491019143 active site 395491019144 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 395491019145 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491019146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491019147 DNA-binding site [nucleotide binding]; DNA binding site 395491019148 FCD domain; Region: FCD; cl11656 395491019149 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395491019150 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395491019151 inhibitor site; inhibition site 395491019152 active site 395491019153 dimer interface [polypeptide binding]; other site 395491019154 catalytic residue [active] 395491019155 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491019156 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491019157 Walker A/P-loop; other site 395491019158 ATP binding site [chemical binding]; other site 395491019159 Q-loop/lid; other site 395491019160 ABC transporter signature motif; other site 395491019161 Walker B; other site 395491019162 D-loop; other site 395491019163 H-loop/switch region; other site 395491019164 TOBE domain; Region: TOBE_2; cl01440 395491019165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 395491019166 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 395491019167 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491019168 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 395491019169 dimer interface [polypeptide binding]; other site 395491019170 conserved gate region; other site 395491019171 putative PBP binding loops; other site 395491019172 ABC-ATPase subunit interface; other site 395491019173 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 395491019174 dimer interface [polypeptide binding]; other site 395491019175 conserved gate region; other site 395491019176 putative PBP binding loops; other site 395491019177 ABC-ATPase subunit interface; other site 395491019178 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491019179 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 395491019180 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491019181 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491019182 DNA binding site [nucleotide binding] 395491019183 domain linker motif; other site 395491019184 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491019185 ligand binding site [chemical binding]; other site 395491019186 dimerization interface [polypeptide binding]; other site 395491019187 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491019188 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491019189 DNA binding site [nucleotide binding] 395491019190 domain linker motif; other site 395491019191 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395491019192 dimerization interface [polypeptide binding]; other site 395491019193 ligand binding site [chemical binding]; other site 395491019194 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 395491019195 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395491019196 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491019197 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 395491019198 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 395491019199 dimer interface [polypeptide binding]; other site 395491019200 conserved gate region; other site 395491019201 putative PBP binding loops; other site 395491019202 ABC-ATPase subunit interface; other site 395491019203 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491019204 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 395491019205 dimer interface [polypeptide binding]; other site 395491019206 conserved gate region; other site 395491019207 putative PBP binding loops; other site 395491019208 ABC-ATPase subunit interface; other site 395491019209 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491019210 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491019211 Walker A/P-loop; other site 395491019212 ATP binding site [chemical binding]; other site 395491019213 Q-loop/lid; other site 395491019214 ABC transporter signature motif; other site 395491019215 Walker B; other site 395491019216 D-loop; other site 395491019217 H-loop/switch region; other site 395491019218 TOBE domain; Region: TOBE_2; cl01440 395491019219 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 395491019220 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395491019221 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 395491019222 NMT1-like family; Region: NMT1_2; cl15260 395491019223 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491019224 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395491019225 tetramerization interface [polypeptide binding]; other site 395491019226 NAD(P) binding site [chemical binding]; other site 395491019227 catalytic residues [active] 395491019228 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395491019229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491019230 Walker A/P-loop; other site 395491019231 ATP binding site [chemical binding]; other site 395491019232 Q-loop/lid; other site 395491019233 ABC transporter signature motif; other site 395491019234 Walker B; other site 395491019235 D-loop; other site 395491019236 H-loop/switch region; other site 395491019237 TOBE domain; Region: TOBE_2; cl01440 395491019238 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; cl00427 395491019239 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; cl00427 395491019240 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395491019241 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 395491019242 NIPSNAP; Region: NIPSNAP; pfam07978 395491019243 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491019244 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 395491019245 NAD(P) binding site [chemical binding]; other site 395491019246 catalytic residues [active] 395491019247 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395491019248 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 395491019249 Flavin Reductases; Region: FlaRed; cl00801 395491019250 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491019251 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 becoming...; Region: Lipase; cl14883 395491019252 nucleophilic elbow; other site 395491019253 catalytic triad; other site 395491019254 Amino acid synthesis; Region: AA_synth; pfam06684 395491019255 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491019256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491019257 DNA-binding site [nucleotide binding]; DNA binding site 395491019258 FCD domain; Region: FCD; cl11656 395491019259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 395491019260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491019261 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395491019262 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 395491019263 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 395491019264 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 395491019265 MobA/MobL family; Region: MobA_MobL; pfam03389 395491019266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491019267 Family description; Region: UvrD_C_2; cl15862 395491019268 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 395491019269 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491019270 Walker A motif; other site 395491019271 ATP binding site [chemical binding]; other site 395491019272 Walker B motif; other site 395491019273 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 395491019274 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 395491019275 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 395491019276 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395491019277 Helix-turn-helix domains; Region: HTH; cl00088 395491019278 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 395491019279 dimerization interface [polypeptide binding]; other site 395491019280 substrate binding pocket [chemical binding]; other site 395491019281 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 395491019282 non-specific DNA binding site [nucleotide binding]; other site 395491019283 salt bridge; other site 395491019284 sequence-specific DNA binding site [nucleotide binding]; other site 395491019285 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 395491019286 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395491019287 hypothetical protein; Provisional; Region: PRK11820 395491019288 Lysozyme family protein [General function prediction only]; Region: COG5526 395491019289 Peptidase M15; Region: Peptidase_M15_3; cl01194 395491019290 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; cl00454 395491019291 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395491019292 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 395491019293 structural tetrad; other site 395491019294 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 395491019295 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 395491019296 non-specific DNA binding site [nucleotide binding]; other site 395491019297 salt bridge; other site 395491019298 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 395491019299 sequence-specific DNA binding site [nucleotide binding]; other site 395491019300 Cupin domain; Region: Cupin_2; cl09118 395491019301 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 395491019302 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 395491019303 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 395491019304 putative active site [active] 395491019305 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 395491019306 domain_subunit interface; other site 395491019307 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 395491019308 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 395491019309 active site 395491019310 FMN binding site [chemical binding]; other site 395491019311 substrate binding site [chemical binding]; other site 395491019312 3Fe-4S cluster binding site [ion binding]; other site 395491019313 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 395491019314 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395491019315 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 395491019316 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395491019317 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395491019318 putative active site [active] 395491019319 putative substrate binding site [chemical binding]; other site 395491019320 putative cosubstrate binding site; other site 395491019321 catalytic site [active] 395491019322 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395491019323 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395491019324 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395491019325 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 395491019326 FMN-binding pocket [chemical binding]; other site 395491019327 flavin binding motif; other site 395491019328 phosphate binding motif [ion binding]; other site 395491019329 beta-alpha-beta structure motif; other site 395491019330 NAD binding pocket [chemical binding]; other site 395491019331 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 395491019332 catalytic loop [active] 395491019333 iron binding site [ion binding]; other site 395491019334 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 395491019335 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 395491019336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491019337 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491019338 PAS fold; Region: PAS_3; pfam08447 395491019339 putative active site [active] 395491019340 heme pocket [chemical binding]; other site 395491019341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395491019342 putative CheW interface [polypeptide binding]; other site 395491019343 septum formation inhibitor; Reviewed; Region: minC; PRK05177 395491019344 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 395491019345 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 395491019346 Switch I; other site 395491019347 Switch II; other site 395491019348 Septum formation topological specificity factor MinE; Region: MinE; cl00538 395491019349 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 protein; Region: CSP_CDS; cd04458 395491019350 DNA-binding site [nucleotide binding]; DNA binding site 395491019351 RNA-binding motif; other site 395491019352 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395491019353 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395491019354 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395491019355 Amino acid permease; Region: AA_permease_2; pfam13520 395491019356 Amino acid permease; Region: AA_permease_2; pfam13520 395491019357 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395491019358 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 395491019359 active site 395491019360 catalytic tetrad [active] 395491019361 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 395491019362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491019363 Helix-turn-helix domains; Region: HTH; cl00088 395491019364 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395491019365 haloalkane dehalogenase; Provisional; Region: PRK03592 395491019366 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; cl16911 395491019367 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491019368 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 395491019369 active site 395491019370 phosphorylation site [posttranslational modification] 395491019371 intermolecular recognition site; other site 395491019372 dimerization interface [polypeptide binding]; other site 395491019373 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 395491019374 DNA binding site [nucleotide binding] 395491019375 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 395491019376 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 395491019377 dimer interface [polypeptide binding]; other site 395491019378 phosphorylation site [posttranslational modification] 395491019379 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 395491019380 ATP binding site [chemical binding]; other site 395491019381 Mg2+ binding site [ion binding]; other site 395491019382 G-X-G motif; other site 395491019383 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 395491019384 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395491019385 active site 395491019386 catalytic site [active] 395491019387 substrate binding site [chemical binding]; other site 395491019388 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395491019389 KduI/IolB family; Region: KduI; cl01508 395491019390 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 395491019391 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 395491019392 NADP binding site [chemical binding]; other site 395491019393 homodimer interface [polypeptide binding]; other site 395491019394 active site 395491019395 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491019396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491019397 DNA-binding site [nucleotide binding]; DNA binding site 395491019398 FCD domain; Region: FCD; cl11656 395491019399 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 395491019400 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395491019401 active site 395491019402 catalytic site [active] 395491019403 substrate binding site [chemical binding]; other site 395491019404 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395491019405 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 395491019406 putative substrate translocation pore; other site 395491019407 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 395491019408 flagellin; Reviewed; Region: PRK12687 395491019409 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395491019410 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395491019411 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 395491019412 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 395491019413 active site 395491019414 Helix-turn-helix domains; Region: HTH; cl00088 395491019415 short chain dehydrogenase; Provisional; Region: PRK06179 395491019416 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395491019417 NADP binding site [chemical binding]; other site 395491019418 active site 395491019419 steroid binding site; other site 395491019420 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395491019421 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 395491019422 putative NAD(P) binding site [chemical binding]; other site 395491019423 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491019424 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491019425 EamA-like transporter family; Region: EamA; cl01037 395491019426 Helix-turn-helix domains; Region: HTH; cl00088 395491019427 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395491019428 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395491019429 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 395491019430 sugar efflux transporter; Region: 2A0120; TIGR00899 395491019431 putative substrate translocation pore; other site 395491019432 classical (c) SDRs; Region: SDR_c; cd05233 395491019433 NAD(P) binding site [chemical binding]; other site 395491019434 active site 395491019435 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395491019436 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395491019437 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 395491019438 putative active site [active] 395491019439 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 395491019440 homotrimer interaction site [polypeptide binding]; other site 395491019441 putative active site [active] 395491019442 Uncharacterized conserved protein [Function unknown]; Region: COG5476 395491019443 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 395491019444 MlrC C-terminus; Region: MlrC_C; pfam07171 395491019445 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 395491019446 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 395491019447 dimer interface [polypeptide binding]; other site 395491019448 active site 395491019449 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395491019450 substrate binding site [chemical binding]; other site 395491019451 catalytic residue [active] 395491019452 cyclase homology domain; Region: CHD; cd07302 395491019453 nucleotidyl binding site; other site 395491019454 metal binding site [ion binding]; metal-binding site 395491019455 dimer interface [polypeptide binding]; other site 395491019456 TolB amino-terminal domain; Region: TolB_N; cl00639 395491019457 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 395491019458 TPR motif; other site 395491019459 binding surface 395491019460 TPR repeat; Region: TPR_11; pfam13414 395491019461 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 395491019462 TPR motif; other site 395491019463 binding surface 395491019464 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491019465 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491019466 Walker A/P-loop; other site 395491019467 ATP binding site [chemical binding]; other site 395491019468 Q-loop/lid; other site 395491019469 ABC transporter signature motif; other site 395491019470 Walker B; other site 395491019471 D-loop; other site 395491019472 H-loop/switch region; other site 395491019473 TOBE domain; Region: TOBE_2; cl01440 395491019474 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395491019475 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 395491019476 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491019477 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 395491019478 dimer interface [polypeptide binding]; other site 395491019479 conserved gate region; other site 395491019480 ABC-ATPase subunit interface; other site 395491019481 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 395491019482 dimer interface [polypeptide binding]; other site 395491019483 conserved gate region; other site 395491019484 putative PBP binding loops; other site 395491019485 ABC-ATPase subunit interface; other site 395491019486 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491019487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491019488 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491019489 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395491019490 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 395491019491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491019492 Helix-turn-helix domains; Region: HTH; cl00088 395491019493 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 395491019494 dimerization interface [polypeptide binding]; other site 395491019495 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491019496 Helix-turn-helix domains; Region: HTH; cl00088 395491019497 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 395491019498 putative dimerization interface [polypeptide binding]; other site 395491019499 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491019500 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; cl00427 395491019501 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395491019502 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 395491019503 dimer interface [polypeptide binding]; other site 395491019504 conserved gate region; other site 395491019505 putative PBP binding loops; other site 395491019506 ABC-ATPase subunit interface; other site 395491019507 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395491019508 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491019509 Walker A/P-loop; other site 395491019510 ATP binding site [chemical binding]; other site 395491019511 Q-loop/lid; other site 395491019512 ABC transporter signature motif; other site 395491019513 Walker B; other site 395491019514 D-loop; other site 395491019515 H-loop/switch region; other site 395491019516 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491019517 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491019518 Walker A/P-loop; other site 395491019519 ATP binding site [chemical binding]; other site 395491019520 Q-loop/lid; other site 395491019521 ABC transporter signature motif; other site 395491019522 Walker B; other site 395491019523 D-loop; other site 395491019524 H-loop/switch region; other site 395491019525 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491019526 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491019527 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_16; cd08502 395491019528 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491019529 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 395491019530 putative metal binding site [ion binding]; other site 395491019531 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395491019532 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 395491019533 ligand binding site [chemical binding]; other site 395491019534 regulator interaction site; other site 395491019535 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 395491019536 ANTAR domain; Region: ANTAR; cl04297 395491019537 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395491019538 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 395491019539 putative active site [active] 395491019540 catalytic triad [active] 395491019541 putative dimer interface [polypeptide binding]; other site 395491019542 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395491019543 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 395491019544 putative ligand binding site [chemical binding]; other site 395491019545 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395491019546 TM-ABC transporter signature motif; other site 395491019547 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395491019548 TM-ABC transporter signature motif; other site 395491019549 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 395491019550 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395491019551 Walker A/P-loop; other site 395491019552 ATP binding site [chemical binding]; other site 395491019553 Q-loop/lid; other site 395491019554 ABC transporter signature motif; other site 395491019555 Walker B; other site 395491019556 D-loop; other site 395491019557 H-loop/switch region; other site 395491019558 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395491019559 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395491019560 Walker A/P-loop; other site 395491019561 ATP binding site [chemical binding]; other site 395491019562 Q-loop/lid; other site 395491019563 ABC transporter signature motif; other site 395491019564 Walker B; other site 395491019565 D-loop; other site 395491019566 H-loop/switch region; other site 395491019567 Amidase; Region: Amidase; cl11426 395491019568 Protein of unknown function, DUF606; Region: DUF606; cl01273 395491019569 Protein of unknown function, DUF606; Region: DUF606; cl01273 395491019570 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 395491019571 active site 395491019572 SUMO-1 interface [polypeptide binding]; other site 395491019573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 395491019574 MOSC domain; Region: MOSC; pfam03473 395491019575 3-alpha domain; Region: 3-alpha; pfam03475 395491019576 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395491019577 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 395491019578 FAD binding pocket [chemical binding]; other site 395491019579 FAD binding motif [chemical binding]; other site 395491019580 phosphate binding motif [ion binding]; other site 395491019581 beta-alpha-beta structure motif; other site 395491019582 NAD binding pocket [chemical binding]; other site 395491019583 Heme binding pocket [chemical binding]; other site 395491019584 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 395491019585 catalytic loop [active] 395491019586 iron binding site [ion binding]; other site 395491019587 Cupin domain; Region: Cupin_2; cl09118 395491019588 Pirin-related protein [General function prediction only]; Region: COG1741 395491019589 Cupin domain; Region: Cupin_2; cl09118 395491019590 TIGR02588 family protein; Region: TIGR02588 395491019591 Putative integral membrane protein (DUF2391); Region: DUF2391; cl01935 395491019592 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 395491019593 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 395491019594 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 395491019595 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395491019596 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491019597 hypothetical protein; Provisional; Region: PRK11171 395491019598 Cupin domain; Region: Cupin_2; cl09118 395491019599 Cupin domain; Region: Cupin_2; cl09118 395491019600 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 395491019601 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491019602 Walker A/P-loop; other site 395491019603 ATP binding site [chemical binding]; other site 395491019604 Q-loop/lid; other site 395491019605 ABC transporter signature motif; other site 395491019606 Walker B; other site 395491019607 D-loop; other site 395491019608 H-loop/switch region; other site 395491019609 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491019610 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491019611 Walker A/P-loop; other site 395491019612 ATP binding site [chemical binding]; other site 395491019613 Q-loop/lid; other site 395491019614 ABC transporter signature motif; other site 395491019615 Walker B; other site 395491019616 D-loop; other site 395491019617 H-loop/switch region; other site 395491019618 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491019619 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 395491019620 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 395491019621 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491019622 catalytic residue [active] 395491019623 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_1; cd02199 395491019624 homotrimer interaction site [polypeptide binding]; other site 395491019625 putative active site [active] 395491019626 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395491019627 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 395491019628 dimer interface [polypeptide binding]; other site 395491019629 conserved gate region; other site 395491019630 putative PBP binding loops; other site 395491019631 ABC-ATPase subunit interface; other site 395491019632 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491019633 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 395491019634 dimer interface [polypeptide binding]; other site 395491019635 conserved gate region; other site 395491019636 putative PBP binding loops; other site 395491019637 ABC-ATPase subunit interface; other site 395491019638 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_16; cd08502 395491019639 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491019640 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 395491019641 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395491019642 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 395491019643 ligand binding site [chemical binding]; other site 395491019644 regulator interaction site; other site 395491019645 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 395491019646 ANTAR domain; Region: ANTAR; cl04297 395491019647 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 395491019648 dimer interface [polypeptide binding]; other site 395491019649 conserved gate region; other site 395491019650 putative PBP binding loops; other site 395491019651 ABC-ATPase subunit interface; other site 395491019652 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491019653 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 395491019654 dimer interface [polypeptide binding]; other site 395491019655 conserved gate region; other site 395491019656 putative PBP binding loops; other site 395491019657 ABC-ATPase subunit interface; other site 395491019658 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 395491019659 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491019660 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 395491019661 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395491019662 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491019663 Walker A/P-loop; other site 395491019664 ATP binding site [chemical binding]; other site 395491019665 Q-loop/lid; other site 395491019666 ABC transporter signature motif; other site 395491019667 Walker B; other site 395491019668 D-loop; other site 395491019669 H-loop/switch region; other site 395491019670 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491019671 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491019672 Walker A/P-loop; other site 395491019673 ATP binding site [chemical binding]; other site 395491019674 Q-loop/lid; other site 395491019675 ABC transporter signature motif; other site 395491019676 Walker B; other site 395491019677 D-loop; other site 395491019678 H-loop/switch region; other site 395491019679 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491019680 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 395491019681 substrate binding site [chemical binding]; other site 395491019682 multimerization interface [polypeptide binding]; other site 395491019683 ATP binding site [chemical binding]; other site 395491019684 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 395491019685 thiamine phosphate binding site [chemical binding]; other site 395491019686 active site 395491019687 pyrophosphate binding site [ion binding]; other site 395491019688 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 395491019689 dimer interface [polypeptide binding]; other site 395491019690 substrate binding site [chemical binding]; other site 395491019691 ATP binding site [chemical binding]; other site 395491019692 Predicted acetyltransferase [General function prediction only]; Region: COG3153 395491019693 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395491019694 Coenzyme A binding pocket [chemical binding]; other site 395491019695 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 395491019696 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 395491019697 substrate binding site [chemical binding]; other site 395491019698 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491019699 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491019700 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 395491019701 dimer interface [polypeptide binding]; other site 395491019702 conserved gate region; other site 395491019703 putative PBP binding loops; other site 395491019704 ABC-ATPase subunit interface; other site 395491019705 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 395491019706 dimer interface [polypeptide binding]; other site 395491019707 conserved gate region; other site 395491019708 putative PBP binding loops; other site 395491019709 ABC-ATPase subunit interface; other site 395491019710 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491019711 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491019712 Walker A/P-loop; other site 395491019713 ATP binding site [chemical binding]; other site 395491019714 Q-loop/lid; other site 395491019715 ABC transporter signature motif; other site 395491019716 Walker B; other site 395491019717 D-loop; other site 395491019718 H-loop/switch region; other site 395491019719 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491019720 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491019721 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491019722 Walker A/P-loop; other site 395491019723 ATP binding site [chemical binding]; other site 395491019724 Q-loop/lid; other site 395491019725 ABC transporter signature motif; other site 395491019726 Walker B; other site 395491019727 D-loop; other site 395491019728 H-loop/switch region; other site 395491019729 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491019730 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; cl16911 395491019731 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; cl09155 395491019732 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 395491019733 Helix-turn-helix domains; Region: HTH; cl00088 395491019734 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 395491019735 dimerization interface [polypeptide binding]; other site 395491019736 Sulfatase; Region: Sulfatase; cl10460 395491019737 choline-sulfatase; Region: chol_sulfatase; TIGR03417 395491019738 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 395491019739 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395491019740 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 395491019741 hypothetical protein; Provisional; Region: PRK06102 395491019742 Amidase; Region: Amidase; cl11426 395491019743 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 395491019744 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 395491019745 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491019746 Helix-turn-helix domains; Region: HTH; cl00088 395491019747 short chain dehydrogenase; Provisional; Region: PRK06701 395491019748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491019749 NAD(P) binding site [chemical binding]; other site 395491019750 active site 395491019751 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395491019752 Helix-turn-helix domains; Region: HTH; cl00088 395491019753 Bacterial transcriptional regulator; Region: IclR; pfam01614 395491019754 dihydroorotase; Provisional; Region: PRK09237 395491019755 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_B; cd01307 395491019756 active site 395491019757 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 395491019758 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491019759 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491019760 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491019761 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 395491019762 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 395491019763 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 395491019764 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase; Region: RhaD_aldol-ADH; TIGR02632 395491019765 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; cl00214 395491019766 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 395491019767 putative NAD(P) binding site [chemical binding]; other site 395491019768 active site 395491019769 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395491019770 Helix-turn-helix domains; Region: HTH; cl00088 395491019771 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491019772 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 395491019773 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 395491019774 ligand binding site [chemical binding]; other site 395491019775 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395491019776 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395491019777 Walker A/P-loop; other site 395491019778 ATP binding site [chemical binding]; other site 395491019779 Q-loop/lid; other site 395491019780 ABC transporter signature motif; other site 395491019781 Walker B; other site 395491019782 D-loop; other site 395491019783 H-loop/switch region; other site 395491019784 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395491019785 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 395491019786 TM-ABC transporter signature motif; other site 395491019787 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 395491019788 TM-ABC transporter signature motif; other site 395491019789 Domain of unknown function (DUF718); Region: DUF718; cl01281 395491019790 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 395491019791 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 395491019792 N- and C-terminal domain interface [polypeptide binding]; other site 395491019793 putative active site [active] 395491019794 putative MgATP binding site [chemical binding]; other site 395491019795 catalytic site [active] 395491019796 metal binding site [ion binding]; metal-binding site 395491019797 putative carbohydrate binding site [chemical binding]; other site 395491019798 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395491019799 transcriptional regulator EutR; Provisional; Region: PRK10130 395491019800 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491019801 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491019802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491019803 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 395491019804 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 395491019805 N-terminal plug; other site 395491019806 ligand-binding site [chemical binding]; other site 395491019807 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 395491019808 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395491019809 Walker A/P-loop; other site 395491019810 ATP binding site [chemical binding]; other site 395491019811 Q-loop/lid; other site 395491019812 ABC transporter signature motif; other site 395491019813 Walker B; other site 395491019814 D-loop; other site 395491019815 H-loop/switch region; other site 395491019816 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 395491019817 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 395491019818 intersubunit interface [polypeptide binding]; other site 395491019819 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 395491019820 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 395491019821 ABC-ATPase subunit interface; other site 395491019822 dimer interface [polypeptide binding]; other site 395491019823 putative PBP binding regions; other site 395491019824 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 395491019825 ABC-ATPase subunit interface; other site 395491019826 dimer interface [polypeptide binding]; other site 395491019827 putative PBP binding regions; other site 395491019828 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 395491019829 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 395491019830 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 395491019831 FAD binding pocket [chemical binding]; other site 395491019832 FAD binding motif [chemical binding]; other site 395491019833 phosphate binding motif [ion binding]; other site 395491019834 NAD binding pocket [chemical binding]; other site 395491019835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491019836 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 395491019837 choline dehydrogenase; Validated; Region: PRK02106 395491019838 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395491019839 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395491019840 TM-ABC transporter signature motif; other site 395491019841 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395491019842 TM-ABC transporter signature motif; other site 395491019843 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395491019844 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395491019845 Walker A/P-loop; other site 395491019846 ATP binding site [chemical binding]; other site 395491019847 Q-loop/lid; other site 395491019848 ABC transporter signature motif; other site 395491019849 Walker B; other site 395491019850 D-loop; other site 395491019851 H-loop/switch region; other site 395491019852 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395491019853 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395491019854 Walker A/P-loop; other site 395491019855 ATP binding site [chemical binding]; other site 395491019856 Q-loop/lid; other site 395491019857 ABC transporter signature motif; other site 395491019858 Walker B; other site 395491019859 D-loop; other site 395491019860 H-loop/switch region; other site 395491019861 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395491019862 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395491019863 putative ligand binding site [chemical binding]; other site 395491019864 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 395491019865 MatE; Region: MatE; cl10513 395491019866 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 395491019867 active site 395491019868 Protein of unknown function (DUF1616); Region: DUF1616; cl01959 395491019869 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491019870 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395491019871 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 395491019872 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 395491019873 Ligand binding site; other site 395491019874 Putative Catalytic site; other site 395491019875 DXD motif; other site 395491019876 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395491019877 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 395491019878 SLBB domain; Region: SLBB; pfam10531 395491019879 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395491019880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491019881 Helix-turn-helix domains; Region: HTH; cl00088 395491019882 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 395491019883 dimerization interface [polypeptide binding]; other site 395491019884 Cupin domain; Region: Cupin_2; cl09118 395491019885 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 395491019886 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395491019887 FAD binding site [chemical binding]; other site 395491019888 substrate binding pocket [chemical binding]; other site 395491019889 catalytic base [active] 395491019890 Predicted membrane protein [Function unknown]; Region: COG3918 395491019891 mercuric reductase; Validated; Region: PRK06370 395491019892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491019893 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491019894 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395491019895 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395491019896 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395491019897 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 395491019898 inhibitor binding site; inhibition site 395491019899 catalytic Zn binding site [ion binding]; other site 395491019900 structural Zn binding site [ion binding]; other site 395491019901 NADP binding site [chemical binding]; other site 395491019902 tetramer interface [polypeptide binding]; other site 395491019903 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 395491019904 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 395491019905 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395491019906 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491019907 K+-transporting ATPase, c chain; Region: KdpC; cl00944 395491019908 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 395491019909 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 395491019910 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 395491019911 Ligand Binding Site [chemical binding]; other site 395491019912 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395491019913 GAF domain; Region: GAF; cl15785 395491019914 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 395491019915 dimer interface [polypeptide binding]; other site 395491019916 phosphorylation site [posttranslational modification] 395491019917 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 395491019918 ATP binding site [chemical binding]; other site 395491019919 Mg2+ binding site [ion binding]; other site 395491019920 G-X-G motif; other site 395491019921 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395491019922 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 395491019923 active site 395491019924 phosphorylation site [posttranslational modification] 395491019925 intermolecular recognition site; other site 395491019926 dimerization interface [polypeptide binding]; other site 395491019927 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 395491019928 DNA binding site [nucleotide binding] 395491019929 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 395491019930 active site 395491019931 phosphorylation site [posttranslational modification] 395491019932 Porin subfamily; Region: Porin_2; pfam02530 395491019933 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 395491019934 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395491019935 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395491019936 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 395491019937 dimer interface [polypeptide binding]; other site 395491019938 conserved gate region; other site 395491019939 putative PBP binding loops; other site 395491019940 ABC-ATPase subunit interface; other site 395491019941 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 395491019942 dimer interface [polypeptide binding]; other site 395491019943 conserved gate region; other site 395491019944 putative PBP binding loops; other site 395491019945 ABC-ATPase subunit interface; other site 395491019946 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 395491019947 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 395491019948 Walker A/P-loop; other site 395491019949 ATP binding site [chemical binding]; other site 395491019950 Q-loop/lid; other site 395491019951 ABC transporter signature motif; other site 395491019952 Walker B; other site 395491019953 D-loop; other site 395491019954 H-loop/switch region; other site 395491019955 TOBE-like domain; Region: TOBE_3; pfam12857 395491019956 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 395491019957 peptidase T; Region: peptidase-T; TIGR01882 395491019958 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 395491019959 metal binding site [ion binding]; metal-binding site 395491019960 dimer interface [polypeptide binding]; other site 395491019961 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 395491019962 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395491019963 active site 395491019964 metal binding site [ion binding]; metal-binding site 395491019965 hexamer interface [polypeptide binding]; other site 395491019966 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395491019967 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395491019968 Walker A/P-loop; other site 395491019969 ATP binding site [chemical binding]; other site 395491019970 Q-loop/lid; other site 395491019971 ABC transporter signature motif; other site 395491019972 Walker B; other site 395491019973 D-loop; other site 395491019974 H-loop/switch region; other site 395491019975 TOBE domain; Region: TOBE_2; cl01440 395491019976 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491019977 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 395491019978 dimer interface [polypeptide binding]; other site 395491019979 conserved gate region; other site 395491019980 putative PBP binding loops; other site 395491019981 ABC-ATPase subunit interface; other site 395491019982 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 395491019983 dimer interface [polypeptide binding]; other site 395491019984 conserved gate region; other site 395491019985 putative PBP binding loops; other site 395491019986 ABC-ATPase subunit interface; other site 395491019987 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491019988 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 395491019989 hypothetical protein; Provisional; Region: PRK05968 395491019990 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 395491019991 homodimer interface [polypeptide binding]; other site 395491019992 substrate-cofactor binding pocket; other site 395491019993 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395491019994 catalytic residue [active] 395491019995 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395491019996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491019997 DNA-binding site [nucleotide binding]; DNA binding site 395491019998 FCD domain; Region: FCD; cl11656 395491019999 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 395491020000 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491020001 substrate binding pocket [chemical binding]; other site 395491020002 catalytic triad [active] 395491020003 short chain dehydrogenase; Provisional; Region: PRK06482 395491020004 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395491020005 NADP binding site [chemical binding]; other site 395491020006 active site 395491020007 steroid binding site; other site 395491020008 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491020009 Helix-turn-helix domains; Region: HTH; cl00088 395491020010 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 395491020011 putative effector binding pocket; other site 395491020012 putative dimerization interface [polypeptide binding]; other site 395491020013 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395491020014 Helix-turn-helix domains; Region: HTH; cl00088 395491020015 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 395491020016 dimerization interface [polypeptide binding]; other site 395491020017 substrate binding pocket [chemical binding]; other site 395491020018 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395491020019 putative catalytic site [active] 395491020020 putative metal binding site [ion binding]; other site 395491020021 putative phosphate binding site [ion binding]; other site 395491020022 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 395491020023 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 395491020024 putative active site [active] 395491020025 catalytic site [active] 395491020026 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 395491020027 putative active site [active] 395491020028 catalytic site [active] 395491020029 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395491020030 Fe-S cluster binding site [ion binding]; other site 395491020031 active site 395491020032 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491020033 PAS fold; Region: PAS_4; pfam08448 395491020034 GAF domain; Region: GAF_2; pfam13185 395491020035 GAF domain; Region: GAF; cl15785 395491020036 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 395491020037 dimer interface [polypeptide binding]; other site 395491020038 phosphorylation site [posttranslational modification] 395491020039 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 395491020040 ATP binding site [chemical binding]; other site 395491020041 Mg2+ binding site [ion binding]; other site 395491020042 G-X-G motif; other site 395491020043 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395491020044 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 395491020045 active site 395491020046 phosphorylation site [posttranslational modification] 395491020047 intermolecular recognition site; other site 395491020048 dimerization interface [polypeptide binding]; other site 395491020049 Response regulator receiver domain; Region: Response_reg; pfam00072 395491020050 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 395491020051 active site 395491020052 phosphorylation site [posttranslational modification] 395491020053 intermolecular recognition site; other site 395491020054 dimerization interface [polypeptide binding]; other site 395491020055 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 395491020056 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 395491020057 glutathione s-transferase; Provisional; Region: PTZ00057 395491020058 GSH binding site (G-site) [chemical binding]; other site 395491020059 C-terminal domain interface [polypeptide binding]; other site 395491020060 dimer interface [polypeptide binding]; other site 395491020061 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 395491020062 dimer interface [polypeptide binding]; other site 395491020063 N-terminal domain interface [polypeptide binding]; other site 395491020064 substrate binding pocket (H-site) [chemical binding]; other site 395491020065 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 395491020066 nucleotide binding site [chemical binding]; other site 395491020067 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 395491020068 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 395491020069 active site 395491020070 DNA binding site [nucleotide binding] 395491020071 Int/Topo IB signature motif; other site 395491020072 catalytic residues [active] 395491020073 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 395491020074 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 395491020075 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 395491020076 active site 395491020077 catalytic site [active] 395491020078 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491020079 classical (c) SDRs; Region: SDR_c; cd05233 395491020080 NAD(P) binding site [chemical binding]; other site 395491020081 active site 395491020082 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395491020083 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 395491020084 putative binding site; other site 395491020085 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395491020086 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 395491020087 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 395491020088 putative substrate translocation pore; other site 395491020089 Sulfatase; Region: Sulfatase; cl10460 395491020090 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395491020091 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 395491020092 dimer interface [polypeptide binding]; other site 395491020093 conserved gate region; other site 395491020094 putative PBP binding loops; other site 395491020095 ABC-ATPase subunit interface; other site 395491020096 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395491020097 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 395491020098 dimer interface [polypeptide binding]; other site 395491020099 putative PBP binding loops; other site 395491020100 ABC-ATPase subunit interface; other site 395491020101 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395491020102 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 395491020103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491020104 Helix-turn-helix domains; Region: HTH; cl00088 395491020105 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 395491020106 dimerization interface [polypeptide binding]; other site 395491020107 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395491020108 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395491020109 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 395491020110 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395491020111 dimer interface [polypeptide binding]; other site 395491020112 active site 395491020113 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491020114 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395491020115 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 395491020116 Helix-turn-helix domains; Region: HTH; cl00088 395491020117 Bacterial transcriptional regulator; Region: IclR; pfam01614 395491020118 Predicted transcriptional regulator [Transcription]; Region: COG4189 395491020119 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 395491020120 dimerization interface [polypeptide binding]; other site 395491020121 putative DNA binding site [nucleotide binding]; other site 395491020122 putative Zn2+ binding site [ion binding]; other site 395491020123 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 395491020124 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 395491020125 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 395491020126 substrate binding site [chemical binding]; other site 395491020127 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491020128 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491020129 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 395491020130 dimer interface [polypeptide binding]; other site 395491020131 conserved gate region; other site 395491020132 putative PBP binding loops; other site 395491020133 ABC-ATPase subunit interface; other site 395491020134 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 395491020135 dimer interface [polypeptide binding]; other site 395491020136 conserved gate region; other site 395491020137 putative PBP binding loops; other site 395491020138 ABC-ATPase subunit interface; other site 395491020139 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395491020140 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491020141 Walker A/P-loop; other site 395491020142 ATP binding site [chemical binding]; other site 395491020143 Q-loop/lid; other site 395491020144 ABC transporter signature motif; other site 395491020145 Walker B; other site 395491020146 D-loop; other site 395491020147 H-loop/switch region; other site 395491020148 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491020149 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395491020150 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491020151 Walker A/P-loop; other site 395491020152 ATP binding site [chemical binding]; other site 395491020153 Q-loop/lid; other site 395491020154 ABC transporter signature motif; other site 395491020155 Walker B; other site 395491020156 D-loop; other site 395491020157 H-loop/switch region; other site 395491020158 CHASE domain; Region: CHASE; cl01369 395491020159 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491020160 metal binding site [ion binding]; metal-binding site 395491020161 active site 395491020162 I-site; other site 395491020163 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395491020164 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 395491020165 MobA/MobL family; Region: MobA_MobL; pfam03389 395491020166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491020167 Family description; Region: UvrD_C_2; cl15862 395491020168 HipA N-terminal domain; Region: Couple_hipA; cl11853 395491020169 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395491020170 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395491020171 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 395491020172 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 395491020173 non-specific DNA binding site [nucleotide binding]; other site 395491020174 salt bridge; other site 395491020175 sequence-specific DNA binding site [nucleotide binding]; other site 395491020176 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 395491020177 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 395491020178 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 395491020179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395491020180 metal binding site [ion binding]; metal-binding site 395491020181 active site 395491020182 I-site; other site 395491020183 Staphylococcal nuclease homologues; Region: SNc; smart00318 395491020184 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 395491020185 Catalytic site; other site 395491020186 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 395491020187 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 395491020188 ligand binding site [chemical binding]; other site 395491020189 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395491020190 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 395491020191 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 395491020192 potential catalytic triad [active] 395491020193 conserved cys residue [active] 395491020194 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 395491020195 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 395491020196 active site 1 [active] 395491020197 dimer interface [polypeptide binding]; other site 395491020198 hexamer interface [polypeptide binding]; other site 395491020199 active site 2 [active] 395491020200 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 395491020201 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 395491020202 catalytic residues [active] 395491020203 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395491020204 classical (c) SDRs; Region: SDR_c; cd05233 395491020205 NAD(P) binding site [chemical binding]; other site 395491020206 active site 395491020207 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491020208 active site 395491020209 metal binding site [ion binding]; metal-binding site 395491020210 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491020211 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395491020212 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 395491020213 putative molybdopterin cofactor binding site [chemical binding]; other site 395491020214 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 395491020215 putative molybdopterin cofactor binding site; other site 395491020216 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 395491020217 DNA binding site [nucleotide binding] 395491020218 Predicted ATPase [General function prediction only]; Region: COG3903 395491020219 Predicted ATPase [General function prediction only]; Region: COG3903 395491020220 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395491020221 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 395491020222 active site 395491020223 phosphorylation site [posttranslational modification] 395491020224 intermolecular recognition site; other site 395491020225 dimerization interface [polypeptide binding]; other site 395491020226 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 395491020227 DNA binding residues [nucleotide binding] 395491020228 dimerization interface [polypeptide binding]; other site 395491020229 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395491020230 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 395491020231 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395491020232 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395491020233 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395491020234 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 395491020235 Nitronate monooxygenase; Region: NMO; pfam03060 395491020236 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 395491020237 FMN binding site [chemical binding]; other site 395491020238 substrate binding site [chemical binding]; other site 395491020239 putative catalytic residue [active] 395491020240 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395491020241 classical (c) SDRs; Region: SDR_c; cd05233 395491020242 NAD(P) binding site [chemical binding]; other site 395491020243 active site 395491020244 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_1; cd02199 395491020245 homotrimer interaction site [polypeptide binding]; other site 395491020246 putative active site [active] 395491020247 enoyl-CoA hydratase; Provisional; Region: PRK07468 395491020248 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 395491020249 substrate binding site [chemical binding]; other site 395491020250 oxyanion hole (OAH) forming residues; other site 395491020251 trimer interface [polypeptide binding]; other site 395491020252 Isochorismatase family; Region: Isochorismatase; pfam00857 395491020253 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 395491020254 catalytic triad [active] 395491020255 conserved cis-peptide bond; other site 395491020256 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395491020257 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 395491020258 dimer interface [polypeptide binding]; other site 395491020259 NADP binding site [chemical binding]; other site 395491020260 catalytic residues [active] 395491020261 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491020262 D-cysteine desulfhydrase; Validated; Region: PRK03910 395491020263 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 395491020264 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395491020265 catalytic residue [active] 395491020266 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395491020267 classical (c) SDRs; Region: SDR_c; cd05233 395491020268 NAD(P) binding site [chemical binding]; other site 395491020269 active site 395491020270 Epoxide hydrolase N terminus; Region: EHN; pfam06441 395491020271 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395491020272 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_16; cd07263 395491020273 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395491020274 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491020275 Helix-turn-helix domains; Region: HTH; cl00088 395491020276 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_2; cd08471 395491020277 putative effector binding pocket; other site 395491020278 putative dimerization interface [polypeptide binding]; other site 395491020279 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395491020280 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 395491020281 active site 395491020282 phosphorylation site [posttranslational modification] 395491020283 intermolecular recognition site; other site 395491020284 dimerization interface [polypeptide binding]; other site 395491020285 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 395491020286 DNA binding residues [nucleotide binding] 395491020287 dimerization interface [polypeptide binding]; other site 395491020288 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020289 PAS fold; Region: PAS_3; pfam08447 395491020290 putative active site [active] 395491020291 heme pocket [chemical binding]; other site 395491020292 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020293 PAS fold; Region: PAS_3; pfam08447 395491020294 putative active site [active] 395491020295 heme pocket [chemical binding]; other site 395491020296 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020297 putative diguanylate cyclase; Provisional; Region: PRK09776 395491020298 putative active site [active] 395491020299 heme pocket [chemical binding]; other site 395491020300 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395491020301 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 395491020302 dimer interface [polypeptide binding]; other site 395491020303 phosphorylation site [posttranslational modification] 395491020304 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 395491020305 ATP binding site [chemical binding]; other site 395491020306 Mg2+ binding site [ion binding]; other site 395491020307 G-X-G motif; other site 395491020308 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 395491020309 Response regulator receiver domain; Region: Response_reg; pfam00072 395491020310 active site 395491020311 phosphorylation site [posttranslational modification] 395491020312 intermolecular recognition site; other site 395491020313 dimerization interface [polypeptide binding]; other site 395491020314 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020315 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395491020316 putative active site [active] 395491020317 heme pocket [chemical binding]; other site 395491020318 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020319 putative active site [active] 395491020320 heme pocket [chemical binding]; other site 395491020321 hypothetical protein; Provisional; Region: PRK13560 395491020322 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020323 putative active site [active] 395491020324 heme pocket [chemical binding]; other site 395491020325 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020326 putative active site [active] 395491020327 heme pocket [chemical binding]; other site 395491020328 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020329 putative active site [active] 395491020330 heme pocket [chemical binding]; other site 395491020331 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395491020332 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 395491020333 dimer interface [polypeptide binding]; other site 395491020334 phosphorylation site [posttranslational modification] 395491020335 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 395491020336 ATP binding site [chemical binding]; other site 395491020337 Mg2+ binding site [ion binding]; other site 395491020338 G-X-G motif; other site 395491020339 Epoxide hydrolase N terminus; Region: EHN; pfam06441 395491020340 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395491020341 Transglycosylase; Region: Transgly; cl07896 395491020342 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395491020343 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491020344 BA14K-like protein; Region: BA14K; pfam07886 395491020345 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395491020346 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395491020347 Protein of unknown function (DUF421); Region: DUF421; cl00990 395491020348 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395491020349 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395491020350 dinuclear metal binding motif [ion binding]; other site 395491020351 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 395491020352 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491020353 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491020354 short chain dehydrogenase; Provisional; Region: PRK06181 395491020355 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 395491020356 putative NAD(P) binding site [chemical binding]; other site 395491020357 active site 395491020358 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 395491020359 K+ potassium transporter; Region: K_trans; cl15781 395491020360 alpha-galactosidase; Provisional; Region: PRK15076 395491020361 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 395491020362 NAD binding site [chemical binding]; other site 395491020363 sugar binding site [chemical binding]; other site 395491020364 divalent metal binding site [ion binding]; other site 395491020365 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 395491020366 dimer interface [polypeptide binding]; other site 395491020367 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 395491020368 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491020369 Walker A/P-loop; other site 395491020370 ATP binding site [chemical binding]; other site 395491020371 Q-loop/lid; other site 395491020372 ABC transporter signature motif; other site 395491020373 Walker B; other site 395491020374 D-loop; other site 395491020375 H-loop/switch region; other site 395491020376 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491020377 Walker A/P-loop; other site 395491020378 ATP binding site [chemical binding]; other site 395491020379 Q-loop/lid; other site 395491020380 ABC transporter signature motif; other site 395491020381 Walker B; other site 395491020382 D-loop; other site 395491020383 H-loop/switch region; other site 395491020384 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 395491020385 dimer interface [polypeptide binding]; other site 395491020386 conserved gate region; other site 395491020387 putative PBP binding loops; other site 395491020388 ABC-ATPase subunit interface; other site 395491020389 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491020390 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 395491020391 dimer interface [polypeptide binding]; other site 395491020392 conserved gate region; other site 395491020393 putative PBP binding loops; other site 395491020394 ABC-ATPase subunit interface; other site 395491020395 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_4; cd08500 395491020396 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491020397 alpha-galactosidase; Provisional; Region: PRK15076 395491020398 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 395491020399 NAD binding site [chemical binding]; other site 395491020400 sugar binding site [chemical binding]; other site 395491020401 divalent metal binding site [ion binding]; other site 395491020402 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 395491020403 dimer interface [polypeptide binding]; other site 395491020404 Cupin domain; Region: Cupin_2; cl09118 395491020405 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395491020406 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491020407 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395491020408 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 395491020409 S-adenosylmethionine binding site [chemical binding]; other site 395491020410 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491020411 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395491020412 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395491020413 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395491020414 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491020415 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395491020416 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 395491020417 ligand binding site [chemical binding]; other site 395491020418 flexible hinge region; other site 395491020419 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395491020420 non-specific DNA binding site [nucleotide binding]; other site 395491020421 salt bridge; other site 395491020422 sequence-specific DNA binding site [nucleotide binding]; other site 395491020423 Predicted membrane protein [Function unknown]; Region: COG4280 395491020424 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 395491020425 active site 395491020426 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491020427 Helix-turn-helix domains; Region: HTH; cl00088 395491020428 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 395491020429 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395491020430 Sulfatase; Region: Sulfatase; cl10460 395491020431 Sulfatase; Region: Sulfatase; cl10460 395491020432 Response regulator receiver domain; Region: Response_reg; pfam00072 395491020433 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 395491020434 active site 395491020435 phosphorylation site [posttranslational modification] 395491020436 intermolecular recognition site; other site 395491020437 dimerization interface [polypeptide binding]; other site 395491020438 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395491020439 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 395491020440 active site 395491020441 phosphorylation site [posttranslational modification] 395491020442 intermolecular recognition site; other site 395491020443 dimerization interface [polypeptide binding]; other site 395491020444 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 395491020445 DNA binding residues [nucleotide binding] 395491020446 dimerization interface [polypeptide binding]; other site 395491020447 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395491020448 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; cl00080 395491020449 dimer interface [polypeptide binding]; other site 395491020450 phosphorylation site [posttranslational modification] 395491020451 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 395491020452 ATP binding site [chemical binding]; other site 395491020453 Mg2+ binding site [ion binding]; other site 395491020454 G-X-G motif; other site 395491020455 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395491020456 Sulfatase; Region: Sulfatase; cl10460 395491020457 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 395491020458 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 395491020459 motif II; other site 395491020460 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 395491020461 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 395491020462 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 395491020463 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 395491020464 TPR motif; other site 395491020465 binding surface 395491020466 Uncharacterized conserved protein [Function unknown]; Region: COG5361 395491020467 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 395491020468 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 395491020469 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 395491020470 active sites [active] 395491020471 tetramer interface [polypeptide binding]; other site 395491020472 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 395491020473 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491020474 Walker A/P-loop; other site 395491020475 ATP binding site [chemical binding]; other site 395491020476 Q-loop/lid; other site 395491020477 ABC transporter signature motif; other site 395491020478 Walker B; other site 395491020479 D-loop; other site 395491020480 H-loop/switch region; other site 395491020481 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 395491020482 dimer interface [polypeptide binding]; other site 395491020483 conserved gate region; other site 395491020484 putative PBP binding loops; other site 395491020485 ABC-ATPase subunit interface; other site 395491020486 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 395491020487 dimer interface [polypeptide binding]; other site 395491020488 conserved gate region; other site 395491020489 putative PBP binding loops; other site 395491020490 ABC-ATPase subunit interface; other site 395491020491 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 395491020492 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491020493 substrate binding pocket [chemical binding]; other site 395491020494 membrane-bound complex binding site; other site 395491020495 hinge residues; other site 395491020496 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395491020497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491020498 DNA-binding site [nucleotide binding]; DNA binding site 395491020499 UTRA domain; Region: UTRA; cl01230 395491020500 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491020501 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 395491020502 ligand binding site [chemical binding]; other site 395491020503 flexible hinge region; other site 395491020504 Helix-turn-helix domains; Region: HTH; cl00088 395491020505 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491020506 DNA-binding site [nucleotide binding]; DNA binding site 395491020507 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395491020508 UTRA domain; Region: UTRA; cl01230 395491020509 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 395491020510 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_E; cd01313 395491020511 active site 395491020512 imidazolonepropionase; Validated; Region: PRK09356 395491020513 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 395491020514 active site 395491020515 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 395491020516 active sites [active] 395491020517 tetramer interface [polypeptide binding]; other site 395491020518 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395491020519 urocanate hydratase; Provisional; Region: PRK05414 395491020520 HutD; Region: HutD; cl01532 395491020521 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 395491020522 HSP70 interaction site [polypeptide binding]; other site 395491020523 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395491020524 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395491020525 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395491020526 PAS fold; Region: PAS_4; pfam08448 395491020527 hypothetical protein; Provisional; Region: PRK13559 395491020528 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020529 putative active site [active] 395491020530 heme pocket [chemical binding]; other site 395491020531 Histidine kinase; Region: HisKA_2; cl06527 395491020532 hypothetical protein; Provisional; Region: PRK13559 395491020533 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020534 putative active site [active] 395491020535 heme pocket [chemical binding]; other site 395491020536 Histidine kinase; Region: HisKA_2; cl06527 395491020537 response regulator; Provisional; Region: PRK13435 395491020538 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 395491020539 active site 395491020540 phosphorylation site [posttranslational modification] 395491020541 intermolecular recognition site; other site 395491020542 dimerization interface [polypeptide binding]; other site 395491020543 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491020544 Walker A motif; other site 395491020545 ATP binding site [chemical binding]; other site 395491020546 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491020547 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 395491020548 active site 395491020549 phosphorylation site [posttranslational modification] 395491020550 intermolecular recognition site; other site 395491020551 dimerization interface [polypeptide binding]; other site 395491020552 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491020553 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 395491020554 LssY C-terminus; Region: LssY_C; pfam14067 395491020555 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395491020556 ligand binding site [chemical binding]; other site 395491020557 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 395491020558 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 395491020559 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 395491020560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 395491020561 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 395491020562 TolB amino-terminal domain; Region: TolB_N; cl00639 395491020563 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 395491020564 TPR motif; other site 395491020565 binding surface 395491020566 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 395491020567 binding surface 395491020568 TPR motif; other site 395491020569 Uncharacterized conserved protein [Function unknown]; Region: COG5361 395491020570 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 395491020571 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 395491020572 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395491020573 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395491020574 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395491020575 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 395491020576 putative DNA binding site [nucleotide binding]; other site 395491020577 putative homodimer interface [polypeptide binding]; other site 395491020578 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395491020579 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 395491020580 DNA binding site [nucleotide binding] 395491020581 heterodimer interface [polypeptide binding]; other site 395491020582 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395491020583 Protein of unknown function (DUF497); Region: DUF497; cl01108 395491020584 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 395491020585 Protein of unknown function (DUF983); Region: DUF983; cl02211 395491020586 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395491020587 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491020588 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395491020589 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 395491020590 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 395491020591 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 395491020592 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 395491020593 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 395491020594 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 395491020595 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 395491020596 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 395491020597 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 395491020598 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491020599 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395491020600 conserved cys residue [active] 395491020601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395491020602 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 395491020603 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395491020604 active site 395491020605 DNA binding site [nucleotide binding] 395491020606 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 395491020607 DNA binding site [nucleotide binding] 395491020608 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395491020609 PAS fold; Region: PAS_4; pfam08448 395491020610 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395491020611 DDE superfamily endonuclease; Region: DDE_4; cl15789 395491020612 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 395491020613 active site 395491020614 response regulator; Provisional; Region: PRK13435 395491020615 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; cl09944 395491020616 HipA N-terminal domain; Region: Couple_hipA; cl11853 395491020617 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395491020618 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395491020619 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 395491020620 non-specific DNA binding site [nucleotide binding]; other site 395491020621 salt bridge; other site 395491020622 sequence-specific DNA binding site [nucleotide binding]; other site 395491020623 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491020624 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 395491020625 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395491020626 active site 395491020627 DNA binding site [nucleotide binding] 395491020628 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 395491020629 DNA binding site [nucleotide binding] 395491020630 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 395491020631 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 395491020632 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395491020633 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 395491020634 ligand binding site [chemical binding]; other site 395491020635 flexible hinge region; other site 395491020636 Helix-turn-helix domains; Region: HTH; cl00088 395491020637 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 395491020638 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491020639 Low affinity iron permease; Region: Iron_permease; cl12096 395491020640 Helix-turn-helix domains; Region: HTH; cl00088 395491020641 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 395491020642 Ligand Binding Site [chemical binding]; other site 395491020643 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 395491020644 Ligand Binding Site [chemical binding]; other site 395491020645 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 395491020646 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 395491020647 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395491020648 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 395491020649 putative DNA binding site [nucleotide binding]; other site 395491020650 putative homodimer interface [polypeptide binding]; other site 395491020651 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395491020652 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 395491020653 putative homodimer interface [polypeptide binding]; other site 395491020654 putative DNA binding site [nucleotide binding]; other site 395491020655 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395491020656 Helix-turn-helix domains; Region: HTH; cl00088 395491020657 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 395491020658 dimerization interface [polypeptide binding]; other site 395491020659 substrate binding pocket [chemical binding]; other site 395491020660 Helix-turn-helix domains; Region: HTH; cl00088 395491020661 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 395491020662 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 395491020663 Cell division protein 48 (CDC48), domain 2; Region: CDC48_2; cl08380 395491020664 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 395491020665 Walker A motif; other site 395491020666 ATP binding site [chemical binding]; other site 395491020667 Walker B motif; other site 395491020668 arginine finger; other site 395491020669 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 395491020670 Walker A motif; other site 395491020671 ATP binding site [chemical binding]; other site 395491020672 Walker B motif; other site 395491020673 arginine finger; other site 395491020674 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 395491020675 Sterile alpha motif; Region: SAM; smart00454 395491020676 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 395491020677 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 395491020678 cyclase homology domain; Region: CHD; cd07302 395491020679 nucleotidyl binding site; other site 395491020680 metal binding site [ion binding]; metal-binding site 395491020681 dimer interface [polypeptide binding]; other site 395491020682 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491020683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395491020684 Helix-turn-helix domains; Region: HTH; cl00088 395491020685 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 395491020686 dimerization interface [polypeptide binding]; other site 395491020687 substrate binding pocket [chemical binding]; other site 395491020688 Arc-like DNA binding domain; Region: Arc; pfam03869 395491020689 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 395491020690 additional DNA contacts [nucleotide binding]; other site 395491020691 mismatch recognition site; other site 395491020692 active site 395491020693 zinc binding site [ion binding]; other site 395491020694 DNA intercalation site [nucleotide binding]; other site 395491020695 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 395491020696 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; cl16911 395491020697 cofactor binding site; other site 395491020698 DNA binding site [nucleotide binding] 395491020699 substrate interaction site [chemical binding]; other site 395491020700 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; cl16911 395491020701 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 395491020702 GIY-YIG motif/motif A; other site 395491020703 active site 395491020704 catalytic site [active] 395491020705 metal binding site [ion binding]; metal-binding site 395491020706 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 395491020707 RES domain; Region: RES; cl02411 395491020708 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 395491020709 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 395491020710 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 395491020711 Helix-turn-helix domains; Region: HTH; cl00088 395491020712 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 395491020713 dimerization interface [polypeptide binding]; other site 395491020714 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395491020715 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 395491020716 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395491020717 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 395491020718 heterodimer interface [polypeptide binding]; other site 395491020719 multimer interface [polypeptide binding]; other site 395491020720 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 395491020721 active site 395491020722 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 395491020723 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 395491020724 heterodimer interface [polypeptide binding]; other site 395491020725 active site 395491020726 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 395491020727 tetramer interface [polypeptide binding]; other site 395491020728 Predicted transcriptional regulator [Transcription]; Region: COG2944 395491020729 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 395491020730 non-specific DNA binding site [nucleotide binding]; other site 395491020731 salt bridge; other site 395491020732 sequence-specific DNA binding site [nucleotide binding]; other site 395491020733 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 395491020734 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 395491020735 NADP binding site [chemical binding]; other site 395491020736 homodimer interface [polypeptide binding]; other site 395491020737 active site 395491020738 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 395491020739 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395491020740 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395491020741 shikimate binding site; other site 395491020742 NAD(P) binding site [chemical binding]; other site 395491020743 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395491020744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491020745 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395491020746 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395491020747 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395491020748 Walker A/P-loop; other site 395491020749 ATP binding site [chemical binding]; other site 395491020750 Q-loop/lid; other site 395491020751 ABC transporter signature motif; other site 395491020752 Walker B; other site 395491020753 D-loop; other site 395491020754 H-loop/switch region; other site 395491020755 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395491020756 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 395491020757 dimer interface [polypeptide binding]; other site 395491020758 conserved gate region; other site 395491020759 putative PBP binding loops; other site 395491020760 ABC-ATPase subunit interface; other site 395491020761 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 395491020762 dimer interface [polypeptide binding]; other site 395491020763 conserved gate region; other site 395491020764 putative PBP binding loops; other site 395491020765 ABC-ATPase subunit interface; other site 395491020766 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 395491020767 trimer interface [polypeptide binding]; other site 395491020768 active site 395491020769 dimer interface [polypeptide binding]; other site 395491020770 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395491020771 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 395491020772 substrate binding pocket [chemical binding]; other site 395491020773 membrane-bound complex binding site; other site 395491020774 hinge residues; other site 395491020775 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395491020776 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 395491020777 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 395491020778 dimer interface [polypeptide binding]; other site 395491020779 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 395491020780 active site 395491020781 Fe binding site [ion binding]; other site 395491020782 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491020783 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491020784 DNA-binding site [nucleotide binding]; DNA binding site 395491020785 FCD domain; Region: FCD; cl11656 395491020786 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395491020787 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395491020788 DNA-binding site [nucleotide binding]; DNA binding site 395491020789 FCD domain; Region: FCD; cl11656 395491020790 cyclase homology domain; Region: CHD; cd07302 395491020791 TPR repeat; Region: TPR_11; pfam13414 395491020792 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 395491020793 binding surface 395491020794 TPR motif; other site 395491020795 TPR repeat; Region: TPR_11; pfam13414 395491020796 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 395491020797 binding surface 395491020798 TPR motif; other site 395491020799 TPR repeat; Region: TPR_11; pfam13414 395491020800 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 395491020801 binding surface 395491020802 TPR motif; other site 395491020803 TPR repeat; Region: TPR_11; pfam13414 395491020804 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 395491020805 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395491020806 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491020807 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395491020808 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 395491020809 NodB motif; other site 395491020810 putative active site [active] 395491020811 putative catalytic site [active] 395491020812 putative Zn binding site [ion binding]; other site 395491020813 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395491020814 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 395491020815 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 395491020816 catalytic loop [active] 395491020817 iron binding site [ion binding]; other site 395491020818 cyclase homology domain; Region: CHD; cd07302 395491020819 nucleotidyl binding site; other site 395491020820 metal binding site [ion binding]; metal-binding site 395491020821 dimer interface [polypeptide binding]; other site 395491020822 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; cl16911 395491020823 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395491020824 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 395491020825 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 395491020826 putative ion selectivity filter; other site 395491020827 putative pore gating glutamate residue; other site 395491020828 putative H+/Cl- coupling transport residue; other site 395491020829 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 395491020830 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 395491020831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491020832 Predicted transcriptional regulator [Transcription]; Region: COG1959 395491020833 Helix-turn-helix domains; Region: HTH; cl00088 395491020834 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395491020835 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491020836 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 395491020837 Walker A/P-loop; other site 395491020838 ATP binding site [chemical binding]; other site 395491020839 Q-loop/lid; other site 395491020840 ABC transporter signature motif; other site 395491020841 Walker B; other site 395491020842 D-loop; other site 395491020843 H-loop/switch region; other site 395491020844 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 395491020845 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 395491020846 Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to...; Region: TUDOR; cd04508 395491020847 dimethylated arginine/lysine binding site [chemical binding]; other site 395491020848 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395491020849 active site 395491020850 Isochorismatase family; Region: Isochorismatase; pfam00857 395491020851 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 395491020852 catalytic triad [active] 395491020853 conserved cis-peptide bond; other site 395491020854 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 395491020855 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 395491020856 homodimer interface [polypeptide binding]; other site 395491020857 NAD binding pocket [chemical binding]; other site 395491020858 ATP binding pocket [chemical binding]; other site 395491020859 Mg binding site [ion binding]; other site 395491020860 active-site loop [active] 395491020861 Domain of unknown function (DUF305); Region: DUF305; cl15795 395491020862 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 395491020863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491020864 NAD(P) binding site [chemical binding]; other site 395491020865 active site 395491020866 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395491020867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491020868 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395491020869 cyclase homology domain; Region: CHD; cd07302 395491020870 nucleotidyl binding site; other site 395491020871 metal binding site [ion binding]; metal-binding site 395491020872 dimer interface [polypeptide binding]; other site 395491020873 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395491020874 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491020875 Walker A/P-loop; other site 395491020876 ATP binding site [chemical binding]; other site 395491020877 Q-loop/lid; other site 395491020878 ABC transporter signature motif; other site 395491020879 Walker B; other site 395491020880 D-loop; other site 395491020881 H-loop/switch region; other site 395491020882 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491020883 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395491020884 Walker A/P-loop; other site 395491020885 ATP binding site [chemical binding]; other site 395491020886 Q-loop/lid; other site 395491020887 ABC transporter signature motif; other site 395491020888 Walker B; other site 395491020889 D-loop; other site 395491020890 H-loop/switch region; other site 395491020891 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395491020892 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_4; cd08500 395491020893 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395491020894 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395491020895 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 395491020896 dimer interface [polypeptide binding]; other site 395491020897 conserved gate region; other site 395491020898 putative PBP binding loops; other site 395491020899 ABC-ATPase subunit interface; other site 395491020900 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 395491020901 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395491020902 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 395491020903 dimer interface [polypeptide binding]; other site 395491020904 conserved gate region; other site 395491020905 putative PBP binding loops; other site 395491020906 ABC-ATPase subunit interface; other site 395491020907 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 395491020908 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 395491020909 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 395491020910 putative ADP-binding pocket [chemical binding]; other site 395491020911 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 395491020912 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 395491020913 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491020914 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 395491020915 Walker A/P-loop; other site 395491020916 ATP binding site [chemical binding]; other site 395491020917 Q-loop/lid; other site 395491020918 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491020919 ABC transporter signature motif; other site 395491020920 Walker B; other site 395491020921 D-loop; other site 395491020922 H-loop/switch region; other site 395491020923 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 395491020924 ligand binding site [chemical binding]; other site 395491020925 flexible hinge region; other site 395491020926 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395491020927 metabolite-proton symporter; Region: 2A0106; TIGR00883 395491020928 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 395491020929 putative substrate translocation pore; other site 395491020930 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 395491020931 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395491020932 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 395491020933 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395491020934 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 395491020935 D-pathway; other site 395491020936 Putative ubiquinol binding site [chemical binding]; other site 395491020937 Low-spin heme (heme b) binding site [chemical binding]; other site 395491020938 Putative water exit pathway; other site 395491020939 Binuclear center (heme o3/CuB) [ion binding]; other site 395491020940 K-pathway; other site 395491020941 Putative proton exit pathway; other site 395491020942 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 395491020943 Subunit I/III interface [polypeptide binding]; other site 395491020944 Subunit III/IV interface [polypeptide binding]; other site 395491020945 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 395491020946 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 395491020947 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020948 PAS domain; Region: PAS_9; pfam13426 395491020949 putative active site [active] 395491020950 heme pocket [chemical binding]; other site 395491020951 PAS domain S-box; Region: sensory_box; TIGR00229 395491020952 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395491020953 putative active site [active] 395491020954 heme pocket [chemical binding]; other site 395491020955 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 395491020956 dimer interface [polypeptide binding]; other site 395491020957 phosphorylation site [posttranslational modification] 395491020958 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 395491020959 ATP binding site [chemical binding]; other site 395491020960 Mg2+ binding site [ion binding]; other site 395491020961 G-X-G motif; other site 395491020962 Response regulator receiver domain; Region: Response_reg; pfam00072 395491020963 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 395491020964 active site 395491020965 phosphorylation site [posttranslational modification] 395491020966 intermolecular recognition site; other site 395491020967 dimerization interface [polypeptide binding]; other site 395491020968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 395491020969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491020970 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395491020971 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395491020972 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491020973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491020974 Walker A/P-loop; other site 395491020975 ATP binding site [chemical binding]; other site 395491020976 Q-loop/lid; other site 395491020977 ABC transporter signature motif; other site 395491020978 Walker B; other site 395491020979 D-loop; other site 395491020980 H-loop/switch region; other site 395491020981 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395491020982 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395491020983 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 395491020984 Walker A/P-loop; other site 395491020985 ATP binding site [chemical binding]; other site 395491020986 Q-loop/lid; other site 395491020987 ABC transporter signature motif; other site 395491020988 Walker B; other site 395491020989 D-loop; other site 395491020990 H-loop/switch region; other site 395491020991 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395491020992 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395491020993 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491020994 DNA binding site [nucleotide binding] 395491020995 domain linker motif; other site 395491020996 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395491020997 ligand binding site [chemical binding]; other site 395491020998 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395491020999 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 395491021000 putative substrate translocation pore; other site 395491021001 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 395491021002 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 395491021003 putative substrate translocation pore; other site 395491021004 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395491021005 Helix-turn-helix domains; Region: HTH; cl00088 395491021006 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395491021007 response regulator; Provisional; Region: PRK13435 395491021008 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; cl09944 395491021009 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395491021010 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 395491021011 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 395491021012 putative binding site; other site 395491021013 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 395491021014 MG2 domain; Region: A2M_N; pfam01835 395491021015 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 395491021016 Alpha-2-macroglobulin family; Region: A2M; pfam00207 395491021017 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 395491021018 surface patch; other site 395491021019 thioester region; other site 395491021020 specificity defining residues; other site 395491021021 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 395491021022 Transglycosylase; Region: Transgly; cl07896 395491021023 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395491021024 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 395491021025 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 395491021026 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 395491021027 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 395491021028 active site 395491021029 catalytic site [active] 395491021030 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 395491021031 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395491021032 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395491021033 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395491021034 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395491021035 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 395491021036 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 395491021037 DNA binding residues [nucleotide binding] 395491021038 dimer interface [polypeptide binding]; other site 395491021039 copper binding site [ion binding]; other site 395491021040 RNA polymerase sigma factor; Provisional; Region: PRK12511 395491021041 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395491021042 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 395491021043 DNA binding residues [nucleotide binding] 395491021044 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395491021045 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 395491021046 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395491021047 Cytochrome C'; Region: Cytochrom_C_2; cl01610 395491021048 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 395491021049 dimerization interface [polypeptide binding]; other site 395491021050 Domain of unknown function (DUF305); Region: DUF305; cl15795 395491021051 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 395491021052 HTH DNA binding domain; Region: HTH_13; pfam11972 395491021053 replication initiation protein RepC; Provisional; Region: PRK13824 395491021054 Helix-turn-helix domains; Region: HTH; cl00088 395491021055 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395491021056 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395491021057 ParB-like nuclease domain; Region: ParBc; cl02129 395491021058 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395491021059 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395491021060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395491021061 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 395491021062 Magnesium ion binding site [ion binding]; other site 395491021063 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395491021064 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395491021065 precorrin-3B synthase; Region: CobG; TIGR02435 395491021066 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395491021067 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395491021068 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 395491021069 Precorrin-8X methylmutase; Region: CbiC; pfam02570 395491021070 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395491021071 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395491021072 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395491021073 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395491021074 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 395491021075 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 395491021076 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395491021077 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395491021078 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; cl16911 395491021079 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 395491021080 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395491021081 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395491021082 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 395491021083 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395491021084 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395491021085 DNA binding site [nucleotide binding] 395491021086 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 395491021087 putative ligand binding site [chemical binding]; other site 395491021088 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 395491021089 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 395491021090 putative di-iron ligands [ion binding]; other site 395491021091 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 395491021092 [2Fe-2S] cluster binding site [ion binding]; other site 395491021093 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 395491021094 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395491021095 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 395491021096 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395491021097 Quinolinate synthetase A protein; Region: NadA; cl00420 395491021098 L-aspartate oxidase; Provisional; Region: PRK07512 395491021099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491021100 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395491021101 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 395491021102 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 395491021103 dimerization interface [polypeptide binding]; other site 395491021104 active site 395491021105 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 395491021106 TolB amino-terminal domain; Region: TolB_N; cl00639 395491021107 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 395491021108 binding surface 395491021109 TPR motif; other site 395491021110 TPR repeat; Region: TPR_11; pfam13414 395491021111 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 395491021112 binding surface 395491021113 TPR motif; other site 395491021114 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 395491021115 YcaO-like family; Region: YcaO; pfam02624 395491021116 TfuA-like protein; Region: TfuA; pfam07812 395491021117 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395491021118 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 395491021119 non-specific DNA binding site [nucleotide binding]; other site 395491021120 salt bridge; other site 395491021121 sequence-specific DNA binding site [nucleotide binding]; other site 395491021122 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395491021123 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 395491021124 active site 395491021125 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395491021126 Helix-turn-helix domains; Region: HTH; cl00088 395491021127 Bacterial transcriptional regulator; Region: IclR; pfam01614 395491021128 short chain dehydrogenase; Provisional; Region: PRK07063 395491021129 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 395491021130 NAD binding site [chemical binding]; other site 395491021131 homotetramer interface [polypeptide binding]; other site 395491021132 homodimer interface [polypeptide binding]; other site 395491021133 active site 395491021134 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395491021135 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 395491021136 putative active site pocket [active] 395491021137 metal binding site [ion binding]; metal-binding site 395491021138 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395491021139 substrate pocket [chemical binding]; other site 395491021140 active site 395491021141 dimer interface [polypeptide binding]; other site 395491021142 proteolytic cleavage site; other site 395491021143 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395491021144 Sel1 repeat; Region: Sel1; cl02723 395491021145 Sel1 repeat; Region: Sel1; cl02723 395491021146 Sel1 repeat; Region: Sel1; cl02723 395491021147 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 395491021148 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 395491021149 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395491021150 ligand binding site [chemical binding]; other site 395491021151 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395491021152 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 395491021153 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 395491021154 cleavage site 395491021155 active site 395491021156 substrate binding sites [chemical binding]; other site 395491021157 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395491021158 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 395491021159 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 395491021160 reactive center loop; other site 395491021161 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 395491021162 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395491021163 active site 395491021164 substrate binding site [chemical binding]; other site 395491021165 activation loop (A-loop); other site 395491021166 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395491021167 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395491021168 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 395491021169 phosphopeptide binding site; other site 395491021170 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395491021171 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395491021172 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 395491021173 phosphopeptide binding site; other site 395491021174 Type II/IV secretion system protein; Region: T2SE; pfam00437 395491021175 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 395491021176 ATP binding site [chemical binding]; other site 395491021177 Walker A motif; other site 395491021178 hexamer interface [polypeptide binding]; other site 395491021179 Walker B motif; other site 395491021180 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 395491021181 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 395491021182 TadE-like protein; Region: TadE; cl10688 395491021183 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 395491021184 Type II/IV secretion system protein; Region: T2SE; pfam00437 395491021185 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 395491021186 ATP binding site [chemical binding]; other site 395491021187 Walker A motif; other site 395491021188 hexamer interface [polypeptide binding]; other site 395491021189 Walker B motif; other site 395491021190 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 395491021191 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 395491021192 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; cl00159 395491021193 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395491021194 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 395491021195 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 395491021196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395491021197 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395491021198 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395491021199 conserved cys residue [active] 395491021200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165