-- dump date 20140619_010142 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1104320000001 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104320000002 FCD domain; Region: FCD; pfam07729 1104320000003 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104320000004 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1104320000005 tetramerization interface [polypeptide binding]; other site 1104320000006 NAD(P) binding site [chemical binding]; other site 1104320000007 catalytic residues [active] 1104320000008 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104320000009 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1104320000010 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1104320000011 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320000012 Walker A/P-loop; other site 1104320000013 ATP binding site [chemical binding]; other site 1104320000014 Q-loop/lid; other site 1104320000015 ABC transporter signature motif; other site 1104320000016 Walker B; other site 1104320000017 D-loop; other site 1104320000018 H-loop/switch region; other site 1104320000019 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104320000020 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320000021 ABC transporter; Region: ABC_tran; pfam00005 1104320000022 Q-loop/lid; other site 1104320000023 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1104320000024 ABC transporter signature motif; other site 1104320000025 Walker B; other site 1104320000026 D-loop; other site 1104320000027 H-loop/switch region; other site 1104320000028 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104320000029 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104320000030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000031 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104320000032 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000033 dimer interface [polypeptide binding]; other site 1104320000034 conserved gate region; other site 1104320000035 putative PBP binding loops; other site 1104320000036 ABC-ATPase subunit interface; other site 1104320000037 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104320000038 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1104320000039 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104320000040 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1104320000041 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 1104320000042 E3 interaction surface; other site 1104320000043 lipoyl attachment site [posttranslational modification]; other site 1104320000044 e3 binding domain; Region: E3_binding; pfam02817 1104320000045 Serine hydrolase; Region: Ser_hydrolase; cl17834 1104320000046 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320000047 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 1104320000048 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 1104320000049 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1104320000050 TPP-binding site [chemical binding]; other site 1104320000051 tetramer interface [polypeptide binding]; other site 1104320000052 heterodimer interface [polypeptide binding]; other site 1104320000053 phosphorylation loop region [posttranslational modification] 1104320000054 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1104320000055 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 1104320000056 alpha subunit interface [polypeptide binding]; other site 1104320000057 TPP binding site [chemical binding]; other site 1104320000058 heterodimer interface [polypeptide binding]; other site 1104320000059 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104320000060 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; cl01629 1104320000061 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1104320000062 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1104320000063 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104320000064 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104320000065 enoyl-CoA hydratase; Provisional; Region: PRK08138 1104320000066 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 1104320000067 substrate binding site [chemical binding]; other site 1104320000068 oxyanion hole (OAH) forming residues; other site 1104320000069 trimer interface [polypeptide binding]; other site 1104320000070 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104320000071 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104320000072 active site 1104320000073 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1104320000074 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1104320000075 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1104320000076 active site 1104320000077 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1104320000078 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320000079 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 1104320000080 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104320000081 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000082 dimer interface [polypeptide binding]; other site 1104320000083 conserved gate region; other site 1104320000084 putative PBP binding loops; other site 1104320000085 ABC-ATPase subunit interface; other site 1104320000086 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104320000087 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000088 dimer interface [polypeptide binding]; other site 1104320000089 conserved gate region; other site 1104320000090 putative PBP binding loops; other site 1104320000091 ABC-ATPase subunit interface; other site 1104320000092 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104320000093 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320000094 Walker A/P-loop; other site 1104320000095 ATP binding site [chemical binding]; other site 1104320000096 Q-loop/lid; other site 1104320000097 ABC transporter signature motif; other site 1104320000098 Walker B; other site 1104320000099 D-loop; other site 1104320000100 H-loop/switch region; other site 1104320000101 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104320000102 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320000103 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1104320000104 Walker A/P-loop; other site 1104320000105 ATP binding site [chemical binding]; other site 1104320000106 Q-loop/lid; other site 1104320000107 ABC transporter signature motif; other site 1104320000108 Walker B; other site 1104320000109 D-loop; other site 1104320000110 H-loop/switch region; other site 1104320000111 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104320000112 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104320000113 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320000114 DNA-binding site [nucleotide binding]; DNA binding site 1104320000115 FCD domain; Region: FCD; pfam07729 1104320000116 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320000117 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 1104320000118 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104320000119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000120 dimer interface [polypeptide binding]; other site 1104320000121 conserved gate region; other site 1104320000122 putative PBP binding loops; other site 1104320000123 ABC-ATPase subunit interface; other site 1104320000124 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104320000125 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000126 dimer interface [polypeptide binding]; other site 1104320000127 conserved gate region; other site 1104320000128 putative PBP binding loops; other site 1104320000129 ABC-ATPase subunit interface; other site 1104320000130 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104320000131 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320000132 Walker A/P-loop; other site 1104320000133 ATP binding site [chemical binding]; other site 1104320000134 Q-loop/lid; other site 1104320000135 ABC transporter signature motif; other site 1104320000136 Walker B; other site 1104320000137 D-loop; other site 1104320000138 H-loop/switch region; other site 1104320000139 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104320000140 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1104320000141 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320000142 Walker A/P-loop; other site 1104320000143 ATP binding site [chemical binding]; other site 1104320000144 Q-loop/lid; other site 1104320000145 ABC transporter signature motif; other site 1104320000146 Walker B; other site 1104320000147 D-loop; other site 1104320000148 H-loop/switch region; other site 1104320000149 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104320000150 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1104320000151 amidase; Provisional; Region: PRK07486 1104320000152 Amidase; Region: Amidase; cl11426 1104320000153 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1104320000154 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104320000155 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104320000156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000157 dimer interface [polypeptide binding]; other site 1104320000158 conserved gate region; other site 1104320000159 putative PBP binding loops; other site 1104320000160 ABC-ATPase subunit interface; other site 1104320000161 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000162 dimer interface [polypeptide binding]; other site 1104320000163 conserved gate region; other site 1104320000164 putative PBP binding loops; other site 1104320000165 ABC-ATPase subunit interface; other site 1104320000166 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104320000167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320000168 Walker A/P-loop; other site 1104320000169 ATP binding site [chemical binding]; other site 1104320000170 Q-loop/lid; other site 1104320000171 ABC transporter signature motif; other site 1104320000172 Walker B; other site 1104320000173 D-loop; other site 1104320000174 H-loop/switch region; other site 1104320000175 TOBE domain; Region: TOBE_2; pfam08402 1104320000176 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1104320000177 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 1104320000178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104320000179 catalytic residue [active] 1104320000180 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 1104320000181 intersubunit interface [polypeptide binding]; other site 1104320000182 active site 1104320000183 Zn2+ binding site [ion binding]; other site 1104320000184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1104320000185 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1104320000186 putative transposase OrfB; Reviewed; Region: PHA02517 1104320000187 HTH-like domain; Region: HTH_21; pfam13276 1104320000188 Integrase core domain; Region: rve; pfam00665 1104320000189 Integrase core domain; Region: rve_3; pfam13683 1104320000190 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104320000191 nucleotide binding site [chemical binding]; other site 1104320000192 Rrf2 family protein; Region: rrf2_super; TIGR00738 1104320000193 Transcriptional regulator; Region: Rrf2; pfam02082 1104320000194 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1104320000195 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1104320000196 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1104320000197 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1104320000198 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 1104320000199 metal binding site [ion binding]; metal-binding site 1104320000200 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1104320000201 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1104320000202 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1104320000203 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 1104320000204 ABC-ATPase subunit interface; other site 1104320000205 dimer interface [polypeptide binding]; other site 1104320000206 putative PBP binding regions; other site 1104320000207 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104320000208 metal binding site 2 [ion binding]; metal-binding site 1104320000209 putative DNA binding helix; other site 1104320000210 metal binding site 1 [ion binding]; metal-binding site 1104320000211 dimer interface [polypeptide binding]; other site 1104320000212 structural Zn2+ binding site [ion binding]; other site 1104320000213 FlgN protein; Region: FlgN; pfam05130 1104320000214 Rod binding protein; Region: Rod-binding; pfam10135 1104320000215 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1104320000216 potential frameshift: common BLAST hit: gi|23500847|ref|NP_700287.1| flagellar biosynthesis protein FlhA 1104320000217 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1104320000218 potential frameshift: common BLAST hit: gi|340792889|ref|YP_004758353.1| flagellar biosynthesis protein FlhA 1104320000219 FHIPEP family; Region: FHIPEP; pfam00771 1104320000220 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1104320000221 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1104320000222 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 1104320000223 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 1104320000224 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1104320000225 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 1104320000226 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 1104320000227 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 1104320000228 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 1104320000229 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1104320000230 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1104320000231 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 1104320000232 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1104320000233 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1104320000234 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1104320000235 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1104320000236 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1104320000237 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104320000238 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 1104320000239 DNA binding site [nucleotide binding] 1104320000240 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104320000241 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104320000242 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104320000243 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1104320000244 chemotaxis protein; Reviewed; Region: PRK12798 1104320000245 flagellar motor protein MotB; Validated; Region: motB; PRK05996 1104320000246 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1104320000247 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1104320000248 ligand binding site [chemical binding]; other site 1104320000249 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1104320000250 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1104320000251 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1104320000252 flagellin; Reviewed; Region: PRK12687 1104320000253 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1104320000254 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000255 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000256 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 1104320000257 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000258 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000259 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000260 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000261 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1104320000262 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1104320000263 Autotransporter beta-domain; Region: Autotransporter; smart00869 1104320000264 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1104320000265 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 1104320000266 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 1104320000267 putative ligand binding site [chemical binding]; other site 1104320000268 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1104320000269 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104320000270 Walker A/P-loop; other site 1104320000271 ATP binding site [chemical binding]; other site 1104320000272 Q-loop/lid; other site 1104320000273 ABC transporter signature motif; other site 1104320000274 Walker B; other site 1104320000275 D-loop; other site 1104320000276 H-loop/switch region; other site 1104320000277 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104320000278 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320000279 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 1104320000280 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 1104320000281 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320000282 TM-ABC transporter signature motif; other site 1104320000283 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1104320000284 HTH domain; Region: HTH_11; cl17392 1104320000285 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320000286 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104320000287 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 1104320000288 NAD(P) binding site [chemical binding]; other site 1104320000289 catalytic residues [active] 1104320000290 choline dehydrogenase; Validated; Region: PRK02106 1104320000291 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 1104320000292 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1104320000293 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 1104320000294 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1104320000295 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 1104320000296 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 1104320000297 tetramer interface [polypeptide binding]; other site 1104320000298 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 1104320000299 tetramer interface [polypeptide binding]; other site 1104320000300 active site 1104320000301 metal binding site [ion binding]; metal-binding site 1104320000302 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1104320000303 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1104320000304 NAD binding site [chemical binding]; other site 1104320000305 catalytic residues [active] 1104320000306 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1104320000307 putative substrate binding pocket [chemical binding]; other site 1104320000308 trimer interface [polypeptide binding]; other site 1104320000309 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 1104320000310 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104320000311 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1104320000312 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; cl17270 1104320000313 active site 1104320000314 ATP binding site [chemical binding]; other site 1104320000315 substrate binding site [chemical binding]; other site 1104320000316 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 1104320000317 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1104320000318 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 1104320000319 inhibitor-cofactor binding pocket; inhibition site 1104320000320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320000321 catalytic residue [active] 1104320000322 hypothetical protein; Provisional; Region: PRK07481 1104320000323 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 1104320000324 inhibitor-cofactor binding pocket; inhibition site 1104320000325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320000326 catalytic residue [active] 1104320000327 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1104320000328 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 1104320000329 motif II; other site 1104320000330 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 1104320000331 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1104320000332 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1104320000333 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104320000334 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104320000335 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1104320000336 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104320000337 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1104320000338 NAD(P) binding site [chemical binding]; other site 1104320000339 catalytic residues [active] 1104320000340 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1104320000341 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1104320000342 active site 1104320000343 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1104320000344 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_7; cd06341 1104320000345 putative ligand binding site [chemical binding]; other site 1104320000346 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 1104320000347 TM-ABC transporter signature motif; other site 1104320000348 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104320000349 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 1104320000350 TM-ABC transporter signature motif; other site 1104320000351 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104320000352 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104320000353 Walker A/P-loop; other site 1104320000354 ATP binding site [chemical binding]; other site 1104320000355 Q-loop/lid; other site 1104320000356 ABC transporter signature motif; other site 1104320000357 Walker B; other site 1104320000358 D-loop; other site 1104320000359 H-loop/switch region; other site 1104320000360 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104320000361 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104320000362 Walker A/P-loop; other site 1104320000363 ATP binding site [chemical binding]; other site 1104320000364 Q-loop/lid; other site 1104320000365 ABC transporter signature motif; other site 1104320000366 Walker B; other site 1104320000367 D-loop; other site 1104320000368 H-loop/switch region; other site 1104320000369 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 1104320000370 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1104320000371 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104320000372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320000373 DNA-binding site [nucleotide binding]; DNA binding site 1104320000374 UTRA domain; Region: UTRA; pfam07702 1104320000375 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104320000376 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104320000377 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104320000378 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104320000379 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104320000380 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000382 dimer interface [polypeptide binding]; other site 1104320000383 conserved gate region; other site 1104320000384 putative PBP binding loops; other site 1104320000385 ABC-ATPase subunit interface; other site 1104320000386 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1104320000387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320000388 Walker A/P-loop; other site 1104320000389 ATP binding site [chemical binding]; other site 1104320000390 Q-loop/lid; other site 1104320000391 ABC transporter signature motif; other site 1104320000392 Walker B; other site 1104320000393 D-loop; other site 1104320000394 H-loop/switch region; other site 1104320000395 TOBE domain; Region: TOBE_2; pfam08402 1104320000396 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1104320000397 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1104320000398 active site 1104320000399 metal binding site [ion binding]; metal-binding site 1104320000400 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1104320000401 Sulfatase; Region: Sulfatase; cl17466 1104320000402 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1104320000403 NMT1-like family; Region: NMT1_2; pfam13379 1104320000404 substrate binding pocket [chemical binding]; other site 1104320000405 membrane-bound complex binding site; other site 1104320000406 hinge residues; other site 1104320000407 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1104320000408 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1104320000409 Walker A/P-loop; other site 1104320000410 ATP binding site [chemical binding]; other site 1104320000411 Q-loop/lid; other site 1104320000412 ABC transporter signature motif; other site 1104320000413 Walker B; other site 1104320000414 D-loop; other site 1104320000415 H-loop/switch region; other site 1104320000416 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104320000417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000418 dimer interface [polypeptide binding]; other site 1104320000419 conserved gate region; other site 1104320000420 putative PBP binding loops; other site 1104320000421 ABC-ATPase subunit interface; other site 1104320000422 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1104320000423 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104320000424 nucleotide binding site [chemical binding]; other site 1104320000425 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1104320000426 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 1104320000427 N-terminal plug; other site 1104320000428 ligand-binding site [chemical binding]; other site 1104320000429 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1104320000430 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320000431 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104320000432 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_5; cd06338 1104320000433 putative ligand binding site [chemical binding]; other site 1104320000434 potential frameshift: common BLAST hit: gi|256015953|ref|YP_003105962.1| branched-chain amino acid ABC transporter permease 1104320000435 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 1104320000436 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 1104320000437 TM-ABC transporter signature motif; other site 1104320000438 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104320000439 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 1104320000440 TM-ABC transporter signature motif; other site 1104320000441 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104320000442 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104320000443 Walker A/P-loop; other site 1104320000444 ATP binding site [chemical binding]; other site 1104320000445 Q-loop/lid; other site 1104320000446 ABC transporter signature motif; other site 1104320000447 Walker B; other site 1104320000448 D-loop; other site 1104320000449 H-loop/switch region; other site 1104320000450 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104320000451 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104320000452 Walker A/P-loop; other site 1104320000453 ATP binding site [chemical binding]; other site 1104320000454 Q-loop/lid; other site 1104320000455 ABC transporter signature motif; other site 1104320000456 Walker B; other site 1104320000457 D-loop; other site 1104320000458 H-loop/switch region; other site 1104320000459 potential frameshift: common BLAST hit: gi|225686938|ref|YP_002734910.1| heavy metal translocating P-type ATPase 1104320000460 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104320000461 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1104320000462 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104320000463 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104320000464 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104320000465 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1104320000466 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 1104320000467 FeS/SAM binding site; other site 1104320000468 HemN C-terminal domain; Region: HemN_C; pfam06969 1104320000469 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1104320000470 MerR family regulatory protein; Region: MerR; pfam00376 1104320000471 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 1104320000472 P-loop; other site 1104320000473 Magnesium ion binding site [ion binding]; other site 1104320000474 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 1104320000475 P-loop; other site 1104320000476 Magnesium ion binding site [ion binding]; other site 1104320000477 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1104320000478 ParB-like nuclease domain; Region: ParB; smart00470 1104320000479 replication initiation protein RepC; Provisional; Region: PRK13824 1104320000480 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1104320000481 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1104320000482 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104320000483 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 1104320000484 substrate binding site [chemical binding]; other site 1104320000485 dimer interface [polypeptide binding]; other site 1104320000486 ATP binding site [chemical binding]; other site 1104320000487 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 1104320000488 active site 1104320000489 tetramer interface [polypeptide binding]; other site 1104320000490 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 1104320000491 TM-ABC transporter signature motif; other site 1104320000492 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320000493 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 1104320000494 TM-ABC transporter signature motif; other site 1104320000495 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1104320000496 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104320000497 Walker A/P-loop; other site 1104320000498 ATP binding site [chemical binding]; other site 1104320000499 Q-loop/lid; other site 1104320000500 ABC transporter signature motif; other site 1104320000501 Walker B; other site 1104320000502 D-loop; other site 1104320000503 H-loop/switch region; other site 1104320000504 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104320000505 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1104320000506 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 1104320000507 ligand binding site [chemical binding]; other site 1104320000508 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 1104320000509 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1104320000510 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1104320000511 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1104320000512 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 1104320000513 putative NAD(P) binding site [chemical binding]; other site 1104320000514 active site 1104320000515 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1104320000516 hydrophobic substrate binding pocket; other site 1104320000517 Isochorismatase family; Region: Isochorismatase; pfam00857 1104320000518 active site 1104320000519 conserved cis-peptide bond; other site 1104320000520 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1104320000521 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 1104320000522 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1104320000523 acyl-activating enzyme (AAE) consensus motif; other site 1104320000524 active site 1104320000525 AMP binding site [chemical binding]; other site 1104320000526 substrate binding site [chemical binding]; other site 1104320000527 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1104320000528 isochorismate synthases; Region: isochor_syn; TIGR00543 1104320000529 Condensation domain; Region: Condensation; pfam00668 1104320000530 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1104320000531 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 1104320000532 Moco binding site; other site 1104320000533 metal coordination site [ion binding]; other site 1104320000534 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1104320000535 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1104320000536 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 1104320000537 RNA polymerase sigma factor; Provisional; Region: PRK12539 1104320000538 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104320000539 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1104320000540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 1104320000541 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104320000542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320000543 DNA-binding site [nucleotide binding]; DNA binding site 1104320000544 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1104320000545 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1104320000546 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1104320000547 putative ligand binding site [chemical binding]; other site 1104320000548 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 1104320000549 TM-ABC transporter signature motif; other site 1104320000550 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104320000551 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 1104320000552 TM-ABC transporter signature motif; other site 1104320000553 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104320000554 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104320000555 Walker A/P-loop; other site 1104320000556 ATP binding site [chemical binding]; other site 1104320000557 Q-loop/lid; other site 1104320000558 ABC transporter signature motif; other site 1104320000559 Walker B; other site 1104320000560 D-loop; other site 1104320000561 H-loop/switch region; other site 1104320000562 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104320000563 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104320000564 Walker A/P-loop; other site 1104320000565 ATP binding site [chemical binding]; other site 1104320000566 Q-loop/lid; other site 1104320000567 ABC transporter signature motif; other site 1104320000568 Walker B; other site 1104320000569 D-loop; other site 1104320000570 H-loop/switch region; other site 1104320000571 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 1104320000572 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320000573 active site 1104320000574 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1104320000575 classical (c) SDRs; Region: SDR_c; cd05233 1104320000576 NAD(P) binding site [chemical binding]; other site 1104320000577 active site 1104320000578 classical (c) SDRs; Region: SDR_c; cd05233 1104320000579 NAD(P) binding site [chemical binding]; other site 1104320000580 active site 1104320000581 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1104320000582 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 1104320000583 tetramer interface [polypeptide binding]; other site 1104320000584 TPP-binding site [chemical binding]; other site 1104320000585 heterodimer interface [polypeptide binding]; other site 1104320000586 phosphorylation loop region [posttranslational modification] 1104320000587 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1104320000588 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 1104320000589 alpha subunit interface [polypeptide binding]; other site 1104320000590 TPP binding site [chemical binding]; other site 1104320000591 heterodimer interface [polypeptide binding]; other site 1104320000592 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104320000593 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1104320000594 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 1104320000595 E3 interaction surface; other site 1104320000596 lipoyl attachment site [posttranslational modification]; other site 1104320000597 e3 binding domain; Region: E3_binding; pfam02817 1104320000598 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104320000599 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1104320000600 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1104320000601 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1104320000602 shikimate binding site; other site 1104320000603 NAD(P) binding site [chemical binding]; other site 1104320000604 magnesium-transporting ATPase; Provisional; Region: PRK15122 1104320000605 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1104320000606 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104320000607 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104320000608 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1104320000609 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1104320000610 MgtC family; Region: MgtC; pfam02308 1104320000611 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 1104320000612 ATP binding site [chemical binding]; other site 1104320000613 Mg2+ binding site [ion binding]; other site 1104320000614 G-X-G motif; other site 1104320000615 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1104320000616 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 1104320000617 active site 1104320000618 phosphorylation site [posttranslational modification] 1104320000619 intermolecular recognition site; other site 1104320000620 dimerization interface [polypeptide binding]; other site 1104320000621 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 1104320000622 dimerization interface [polypeptide binding]; other site 1104320000623 DNA binding residues [nucleotide binding] 1104320000624 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 1104320000625 Response regulator receiver domain; Region: Response_reg; pfam00072 1104320000626 active site 1104320000627 phosphorylation site [posttranslational modification] 1104320000628 intermolecular recognition site; other site 1104320000629 dimerization interface [polypeptide binding]; other site 1104320000630 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 1104320000631 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 1104320000632 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104320000633 active site 1104320000634 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1104320000635 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104320000636 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1104320000637 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1104320000638 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 1104320000639 putative dimer interface [polypeptide binding]; other site 1104320000640 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1104320000641 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 1104320000642 tetramer interface [polypeptide binding]; other site 1104320000643 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320000644 catalytic residue [active] 1104320000645 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1104320000646 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 1104320000647 active site 1104320000648 dimer interface [polypeptide binding]; other site 1104320000649 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1104320000650 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 1104320000651 active site 1104320000652 FMN binding site [chemical binding]; other site 1104320000653 substrate binding site [chemical binding]; other site 1104320000654 3Fe-4S cluster binding site [ion binding]; other site 1104320000655 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 1104320000656 domain interface; other site 1104320000657 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1104320000658 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1104320000659 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 1104320000660 active site 1104320000661 catalytic triad [active] 1104320000662 oxyanion hole [active] 1104320000663 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1104320000664 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 1104320000665 ATP binding site [chemical binding]; other site 1104320000666 Walker A motif; other site 1104320000667 hexamer interface [polypeptide binding]; other site 1104320000668 Walker B motif; other site 1104320000669 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1104320000670 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1104320000671 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1104320000672 VirB7 interaction site; other site 1104320000673 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1104320000674 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1104320000675 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1104320000676 Type IV secretion system proteins; Region: T4SS; pfam07996 1104320000677 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 1104320000678 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1104320000679 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1104320000680 TrbC/VIRB2 family; Region: TrbC; cl01583 1104320000681 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104320000682 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104320000683 catalytic residue [active] 1104320000684 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1104320000685 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104320000686 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104320000687 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104320000688 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1104320000689 active site 1104320000690 tetramer interface; other site 1104320000691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 1104320000692 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1104320000693 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1104320000694 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 1104320000695 putative active site [active] 1104320000696 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 1104320000697 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1104320000698 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1104320000699 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 1104320000700 ferrochelatase; Reviewed; Region: hemH; PRK00035 1104320000701 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 1104320000702 C-terminal domain interface [polypeptide binding]; other site 1104320000703 active site 1104320000704 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 1104320000705 active site 1104320000706 N-terminal domain interface [polypeptide binding]; other site 1104320000707 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 1104320000708 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1104320000709 hypothetical protein; Provisional; Region: PRK07546 1104320000710 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1104320000711 substrate-cofactor binding pocket; other site 1104320000712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320000713 homodimer interface [polypeptide binding]; other site 1104320000714 catalytic residue [active] 1104320000715 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1104320000716 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1104320000717 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1104320000718 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1104320000719 active site 1104320000720 Zn binding site [ion binding]; other site 1104320000721 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1104320000722 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 1104320000723 active site 1104320000724 phosphorylation site [posttranslational modification] 1104320000725 intermolecular recognition site; other site 1104320000726 dimerization interface [polypeptide binding]; other site 1104320000727 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 1104320000728 Walker A motif; other site 1104320000729 ATP binding site [chemical binding]; other site 1104320000730 Walker B motif; other site 1104320000731 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1104320000732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1104320000733 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 1104320000734 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1104320000735 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1104320000736 active site 1104320000737 intersubunit interface [polypeptide binding]; other site 1104320000738 catalytic residue [active] 1104320000739 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 1104320000740 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1104320000741 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1104320000742 active site residue [active] 1104320000743 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1104320000744 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104320000745 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000746 dimer interface [polypeptide binding]; other site 1104320000747 conserved gate region; other site 1104320000748 putative PBP binding loops; other site 1104320000749 ABC-ATPase subunit interface; other site 1104320000750 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1104320000751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320000752 Walker A/P-loop; other site 1104320000753 ATP binding site [chemical binding]; other site 1104320000754 Q-loop/lid; other site 1104320000755 ABC transporter signature motif; other site 1104320000756 Walker B; other site 1104320000757 D-loop; other site 1104320000758 H-loop/switch region; other site 1104320000759 TOBE domain; Region: TOBE; cl01440 1104320000760 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1104320000761 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1104320000762 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 1104320000763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320000764 LysR family transcriptional regulator; Provisional; Region: PRK14997 1104320000765 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 1104320000766 putative effector binding pocket; other site 1104320000767 dimerization interface [polypeptide binding]; other site 1104320000768 amidase; Provisional; Region: PRK08310 1104320000769 indole-3-acetamide amidohydrolase; Region: PLN02722 1104320000770 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1104320000771 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1104320000772 dimer interface [polypeptide binding]; other site 1104320000773 active site 1104320000774 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104320000775 catalytic residues [active] 1104320000776 substrate binding site [chemical binding]; other site 1104320000777 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1104320000778 Chain length determinant protein; Region: Wzz; pfam02706 1104320000779 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1104320000780 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 1104320000781 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1104320000782 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1104320000783 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1104320000784 active site 1104320000785 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1104320000786 O-Antigen ligase; Region: Wzy_C; pfam04932 1104320000787 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320000788 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320000789 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320000790 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320000791 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104320000792 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1104320000793 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104320000794 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1104320000795 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104320000796 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320000797 Walker A/P-loop; other site 1104320000798 ATP binding site [chemical binding]; other site 1104320000799 Q-loop/lid; other site 1104320000800 ABC transporter signature motif; other site 1104320000801 Walker B; other site 1104320000802 D-loop; other site 1104320000803 H-loop/switch region; other site 1104320000804 TOBE domain; Region: TOBE_2; pfam08402 1104320000805 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104320000806 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000807 dimer interface [polypeptide binding]; other site 1104320000808 conserved gate region; other site 1104320000809 putative PBP binding loops; other site 1104320000810 ABC-ATPase subunit interface; other site 1104320000811 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320000812 dimer interface [polypeptide binding]; other site 1104320000813 conserved gate region; other site 1104320000814 putative PBP binding loops; other site 1104320000815 ABC-ATPase subunit interface; other site 1104320000816 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1104320000817 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1104320000818 potential frameshift: common BLAST hit: gi|225685978|ref|YP_002733950.1| drug resistance transporter, EmrB/QacA subfamily protein 1104320000819 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1104320000820 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 1104320000821 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320000822 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1104320000823 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320000824 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104320000825 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104320000826 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1104320000827 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1104320000828 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 1104320000829 DNA binding residues [nucleotide binding] 1104320000830 dimerization interface [polypeptide binding]; other site 1104320000831 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 1104320000832 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1104320000833 potential frameshift: common BLAST hit: gi|256014912|ref|YP_003104921.1| flagellar motor switch protein G 1104320000834 FliG C-terminal domain; Region: FliG_C; pfam01706 1104320000835 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 1104320000836 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1104320000837 potential frameshift: common BLAST hit: gi|225685986|ref|YP_002733958.1| Flagellar motor switch protein fliM 1104320000838 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1104320000839 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 1104320000840 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1104320000841 flagellar motor protein MotA; Validated; Region: PRK09110 1104320000842 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1104320000843 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1104320000844 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 1104320000845 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1104320000846 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1104320000847 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 1104320000848 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1104320000849 Walker A motif; other site 1104320000850 ATP binding site [chemical binding]; other site 1104320000851 Walker B motif; other site 1104320000852 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 1104320000853 active site 1104320000854 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1104320000855 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1104320000856 Ligand binding site; other site 1104320000857 Putative Catalytic site; other site 1104320000858 DXD motif; other site 1104320000859 Peptidase family M48; Region: Peptidase_M48; cl12018 1104320000860 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 1104320000861 putative active site [active] 1104320000862 YdjC motif; other site 1104320000863 Mg binding site [ion binding]; other site 1104320000864 putative homodimer interface [polypeptide binding]; other site 1104320000865 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1104320000866 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1104320000867 Helix-turn-helix domain; Region: HTH_18; pfam12833 1104320000868 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320000869 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 1104320000870 D-galactonate transporter; Region: 2A0114; TIGR00893 1104320000871 putative substrate translocation pore; other site 1104320000872 putative aldolase; Validated; Region: PRK08130 1104320000873 intersubunit interface [polypeptide binding]; other site 1104320000874 active site 1104320000875 Zn2+ binding site [ion binding]; other site 1104320000876 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104320000877 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1104320000878 putative NAD(P) binding site [chemical binding]; other site 1104320000879 active site 1104320000880 putative substrate binding site [chemical binding]; other site 1104320000881 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104320000882 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1104320000883 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104320000884 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1104320000885 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 1104320000886 Metal-binding active site; metal-binding site 1104320000887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1104320000888 potential frameshift: common BLAST hit: gi|340791908|ref|YP_004757372.1| 3-hydroxyisobutyrate dehydrogenase family protein 1104320000889 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1104320000890 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1104320000891 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 1104320000892 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 1104320000893 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1104320000894 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1104320000895 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 1104320000896 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 1104320000897 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1104320000898 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK06005 1104320000899 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 1104320000900 potential frameshift: common BLAST hit: gi|340791915|ref|YP_004757379.1| flagellar P-ring protein 1104320000901 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1104320000902 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1104320000903 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1104320000904 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1104320000905 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1104320000906 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1104320000907 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1104320000908 FliP family; Region: FliP; cl00593 1104320000909 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; cl02042 1104320000910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320000911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320000912 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1104320000913 putative dimerization interface [polypeptide binding]; other site 1104320000914 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104320000915 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1104320000916 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1104320000917 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 1104320000918 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 1104320000919 active site 2 [active] 1104320000920 active site 1 [active] 1104320000921 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1104320000922 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1104320000923 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000924 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000925 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000926 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000927 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000928 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000929 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104320000930 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1104320000931 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1104320000932 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1104320000933 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1104320000934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1104320000935 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1104320000936 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320000937 DNA-binding site [nucleotide binding]; DNA binding site 1104320000938 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1104320000939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320000940 transcriptional activator TtdR; Provisional; Region: PRK09801 1104320000941 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 1104320000942 putative effector binding pocket; other site 1104320000943 dimerization interface [polypeptide binding]; other site 1104320000944 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1104320000945 FAD binding domain; Region: FAD_binding_4; pfam01565 1104320000946 FAD binding domain; Region: FAD_binding_4; pfam01565 1104320000947 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1104320000948 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1104320000949 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 1104320000950 Cysteine-rich domain; Region: CCG; pfam02754 1104320000951 Cysteine-rich domain; Region: CCG; pfam02754 1104320000952 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 1104320000953 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104320000954 active site 1104320000955 catalytic tetrad [active] 1104320000956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104320000957 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1104320000958 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1104320000959 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1104320000960 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1104320000961 dimer interface [polypeptide binding]; other site 1104320000962 motif 1; other site 1104320000963 motif 2; other site 1104320000964 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1104320000965 active site 1104320000966 motif 3; other site 1104320000967 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 1104320000968 anticodon binding site; other site 1104320000969 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 1104320000970 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1104320000971 motif 1; other site 1104320000972 dimer interface [polypeptide binding]; other site 1104320000973 active site 1104320000974 motif 2; other site 1104320000975 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1104320000976 active site 1104320000977 motif 3; other site 1104320000978 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 1104320000979 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1104320000980 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1104320000981 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 1104320000982 putative substrate translocation pore; other site 1104320000983 Predicted membrane protein [Function unknown]; Region: COG2259 1104320000984 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1104320000985 Class II fumarases; Region: Fumarase_classII; cd01362 1104320000986 active site 1104320000987 tetramer interface [polypeptide binding]; other site 1104320000988 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1104320000989 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 1104320000990 ring oligomerisation interface [polypeptide binding]; other site 1104320000991 ATP/Mg binding site [chemical binding]; other site 1104320000992 stacking interactions; other site 1104320000993 hinge regions; other site 1104320000994 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 1104320000995 oligomerisation interface [polypeptide binding]; other site 1104320000996 mobile loop; other site 1104320000997 roof hairpin; other site 1104320000998 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1104320000999 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1104320001000 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 1104320001001 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1104320001002 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1104320001003 active site 1104320001004 Riboflavin kinase; Region: Flavokinase; smart00904 1104320001005 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1104320001006 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104320001007 active site 1104320001008 HIGH motif; other site 1104320001009 nucleotide binding site [chemical binding]; other site 1104320001010 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1104320001011 active site 1104320001012 KMSKS motif; other site 1104320001013 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1104320001014 tRNA binding surface [nucleotide binding]; other site 1104320001015 anticodon binding site; other site 1104320001016 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1104320001017 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 1104320001018 nucleoside/Zn binding site; other site 1104320001019 dimer interface [polypeptide binding]; other site 1104320001020 catalytic motif [active] 1104320001021 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1104320001022 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 1104320001023 RNA binding surface [nucleotide binding]; other site 1104320001024 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1104320001025 active site 1104320001026 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1104320001027 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 1104320001028 S-adenosylmethionine binding site [chemical binding]; other site 1104320001029 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104320001030 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1104320001031 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104320001032 potential frameshift: common BLAST hit: gi|340791965|ref|YP_004757429.1| zinc protease 1104320001033 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104320001034 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104320001035 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104320001036 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1104320001037 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1104320001038 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1104320001039 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1104320001040 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1104320001041 TrkA-N domain; Region: TrkA_N; pfam02254 1104320001042 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1104320001043 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104320001044 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1104320001045 active site 1104320001046 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 1104320001047 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1104320001048 putative acyl-acceptor binding pocket; other site 1104320001049 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1104320001050 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1104320001051 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 1104320001052 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1104320001053 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1104320001054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 1104320001055 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1104320001056 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 1104320001057 ATP binding site [chemical binding]; other site 1104320001058 Mg2+ binding site [ion binding]; other site 1104320001059 G-X-G motif; other site 1104320001060 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 1104320001061 ATP binding site [chemical binding]; other site 1104320001062 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1104320001063 benzoate transport; Region: 2A0115; TIGR00895 1104320001064 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 1104320001065 putative substrate translocation pore; other site 1104320001066 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104320001067 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104320001068 active site 1104320001069 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104320001070 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1104320001071 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104320001072 enoyl-CoA hydratase; Provisional; Region: PRK08138 1104320001073 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 1104320001074 substrate binding site [chemical binding]; other site 1104320001075 oxyanion hole (OAH) forming residues; other site 1104320001076 trimer interface [polypeptide binding]; other site 1104320001077 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1104320001078 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1104320001079 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104320001080 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104320001081 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104320001082 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1104320001083 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104320001084 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1104320001085 Old yellow enzyme (OYE)-related FMN binding domain, group 2. 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_2_FMN; cd04733 1104320001086 putative active site [active] 1104320001087 putative FMN binding site [chemical binding]; other site 1104320001088 putative substrate binding site [chemical binding]; other site 1104320001089 putative catalytic residue [active] 1104320001090 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg7; cd04786 1104320001091 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104320001092 DNA binding residues [nucleotide binding] 1104320001093 putative dimer interface [polypeptide binding]; other site 1104320001094 sensor protein QseC; Provisional; Region: PRK10337 1104320001095 HAMP domain; Region: HAMP; pfam00672 1104320001096 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 1104320001097 dimer interface [polypeptide binding]; other site 1104320001098 phosphorylation site [posttranslational modification] 1104320001099 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 1104320001100 Mg2+ binding site [ion binding]; other site 1104320001101 G-X-G motif; other site 1104320001102 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104320001103 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 1104320001104 active site 1104320001105 phosphorylation site [posttranslational modification] 1104320001106 intermolecular recognition site; other site 1104320001107 dimerization interface [polypeptide binding]; other site 1104320001108 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 1104320001109 DNA binding site [nucleotide binding] 1104320001110 Uncharacterized conserved protein [Function unknown]; Region: COG5591 1104320001111 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1104320001112 potential frameshift: common BLAST hit: gi|225686084|ref|YP_002734056.1| oxidoreductase FAD-binding 1104320001113 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1104320001114 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1104320001115 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1104320001116 Flavodoxin; Region: Flavodoxin_1; pfam00258 1104320001117 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 1104320001118 FAD binding pocket [chemical binding]; other site 1104320001119 FAD binding motif [chemical binding]; other site 1104320001120 catalytic residues [active] 1104320001121 NAD binding pocket [chemical binding]; other site 1104320001122 phosphate binding motif [ion binding]; other site 1104320001123 beta-alpha-beta structure motif; other site 1104320001124 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1104320001125 ApbE family; Region: ApbE; pfam02424 1104320001126 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1104320001127 GAF domain; Region: GAF; pfam01590 1104320001128 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104320001129 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104320001130 metal binding site [ion binding]; metal-binding site 1104320001131 active site 1104320001132 I-site; other site 1104320001133 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 1104320001134 glutathionine S-transferase; Provisional; Region: PRK10542 1104320001135 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 1104320001136 C-terminal domain interface [polypeptide binding]; other site 1104320001137 GSH binding site (G-site) [chemical binding]; other site 1104320001138 dimer interface [polypeptide binding]; other site 1104320001139 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1104320001140 dimer interface [polypeptide binding]; other site 1104320001141 N-terminal domain interface [polypeptide binding]; other site 1104320001142 substrate binding pocket (H-site) [chemical binding]; other site 1104320001143 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1104320001144 dimer interface [polypeptide binding]; other site 1104320001145 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320001146 metal binding site [ion binding]; metal-binding site 1104320001147 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1104320001148 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 1104320001149 N-terminal plug; other site 1104320001150 ligand-binding site [chemical binding]; other site 1104320001151 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104320001152 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1104320001153 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104320001154 potential frameshift: common BLAST hit: gi|340792760|ref|YP_004758224.1| ribose ABC transporter periplasmic D-ribose-binding protein 1104320001155 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104320001156 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104320001157 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1104320001158 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104320001159 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104320001160 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104320001161 Walker A/P-loop; other site 1104320001162 ATP binding site [chemical binding]; other site 1104320001163 Q-loop/lid; other site 1104320001164 ABC transporter signature motif; other site 1104320001165 Walker B; other site 1104320001166 D-loop; other site 1104320001167 H-loop/switch region; other site 1104320001168 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104320001169 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 1104320001170 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320001171 TM-ABC transporter signature motif; other site 1104320001172 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320001173 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 1104320001174 TM-ABC transporter signature motif; other site 1104320001175 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 1104320001176 homotrimer interaction site [polypeptide binding]; other site 1104320001177 putative active site [active] 1104320001178 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1104320001179 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1104320001180 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 1104320001181 Moco binding site; other site 1104320001182 metal coordination site [ion binding]; other site 1104320001183 Predicted esterase [General function prediction only]; Region: COG0400 1104320001184 putative hydrolase; Provisional; Region: PRK11460 1104320001185 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1104320001186 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 1104320001187 structural tetrad; other site 1104320001188 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1104320001189 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 1104320001190 P-loop, Walker A motif; other site 1104320001191 Base recognition motif; other site 1104320001192 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1104320001193 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1104320001194 MarR family; Region: MarR_2; cl17246 1104320001195 transcriptional regulator SlyA; Provisional; Region: PRK03573 1104320001196 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104320001197 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104320001198 DNA binding site [nucleotide binding] 1104320001199 domain linker motif; other site 1104320001200 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 1104320001201 putative dimerization interface [polypeptide binding]; other site 1104320001202 putative ligand binding site [chemical binding]; other site 1104320001203 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1104320001204 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1104320001205 putative ligand binding site [chemical binding]; other site 1104320001206 NAD binding site [chemical binding]; other site 1104320001207 catalytic site [active] 1104320001208 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1104320001209 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1104320001210 catalytic triad [active] 1104320001211 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1104320001212 classical (c) SDRs; Region: SDR_c; cd05233 1104320001213 NAD(P) binding site [chemical binding]; other site 1104320001214 active site 1104320001215 potential frameshift: common BLAST hit: gi|256015739|ref|YP_003105748.1| GGDEF domain-containing protein 1104320001216 PAS fold; Region: PAS_7; pfam12860 1104320001217 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104320001218 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104320001219 metal binding site [ion binding]; metal-binding site 1104320001220 active site 1104320001221 I-site; other site 1104320001222 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 1104320001223 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 1104320001224 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1104320001225 Beta-lactamase; Region: Beta-lactamase; pfam00144 1104320001226 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1104320001227 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 1104320001228 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1104320001229 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1104320001230 ligand binding site [chemical binding]; other site 1104320001231 homodimer interface [polypeptide binding]; other site 1104320001232 NAD(P) binding site [chemical binding]; other site 1104320001233 trimer interface B [polypeptide binding]; other site 1104320001234 trimer interface A [polypeptide binding]; other site 1104320001235 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1104320001236 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1104320001237 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1104320001238 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1104320001239 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1104320001240 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1104320001241 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1104320001242 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 1104320001243 motif II; other site 1104320001244 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 1104320001245 putative active site [active] 1104320001246 putative catalytic site [active] 1104320001247 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 1104320001248 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1104320001249 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1104320001250 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 1104320001251 TPR motif; other site 1104320001252 binding surface 1104320001253 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 1104320001254 binding surface 1104320001255 TPR motif; other site 1104320001256 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 1104320001257 binding surface 1104320001258 TPR motif; other site 1104320001259 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 1104320001260 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320001261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001262 dimer interface [polypeptide binding]; other site 1104320001263 conserved gate region; other site 1104320001264 ABC-ATPase subunit interface; other site 1104320001265 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1104320001266 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1104320001267 Walker A/P-loop; other site 1104320001268 ATP binding site [chemical binding]; other site 1104320001269 Q-loop/lid; other site 1104320001270 ABC transporter signature motif; other site 1104320001271 Walker B; other site 1104320001272 D-loop; other site 1104320001273 H-loop/switch region; other site 1104320001274 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1104320001275 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104320001276 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104320001277 choline dehydrogenase; Validated; Region: PRK02106 1104320001278 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104320001279 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104320001280 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 1104320001281 TM-ABC transporter signature motif; other site 1104320001282 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 1104320001283 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320001284 TM-ABC transporter signature motif; other site 1104320001285 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104320001286 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104320001287 Walker A/P-loop; other site 1104320001288 ATP binding site [chemical binding]; other site 1104320001289 Q-loop/lid; other site 1104320001290 ABC transporter signature motif; other site 1104320001291 Walker B; other site 1104320001292 D-loop; other site 1104320001293 H-loop/switch region; other site 1104320001294 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104320001295 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104320001296 Walker A/P-loop; other site 1104320001297 ATP binding site [chemical binding]; other site 1104320001298 Q-loop/lid; other site 1104320001299 ABC transporter signature motif; other site 1104320001300 Walker B; other site 1104320001301 D-loop; other site 1104320001302 H-loop/switch region; other site 1104320001303 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1104320001304 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 1104320001305 putative ligand binding site [chemical binding]; other site 1104320001306 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320001307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320001308 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1104320001309 dimerization interface [polypeptide binding]; other site 1104320001310 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104320001311 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1104320001312 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320001313 hypothetical protein; Provisional; Region: PRK06148 1104320001314 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; cl17270 1104320001315 active site 1104320001316 substrate binding site [chemical binding]; other site 1104320001317 ATP binding site [chemical binding]; other site 1104320001318 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104320001319 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 1104320001320 inhibitor-cofactor binding pocket; inhibition site 1104320001321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320001322 catalytic residue [active] 1104320001323 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1104320001324 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 1104320001325 substrate binding pocket [chemical binding]; other site 1104320001326 membrane-bound complex binding site; other site 1104320001327 hinge residues; other site 1104320001328 D-aminopeptidase; Reviewed; Region: PRK13128 1104320001329 Beta-lactamase; Region: Beta-lactamase; pfam00144 1104320001330 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 1104320001331 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 1104320001332 thiamine pyrophosphate protein; Validated; Region: PRK08199 1104320001333 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1104320001334 PYR/PP interface [polypeptide binding]; other site 1104320001335 dimer interface [polypeptide binding]; other site 1104320001336 TPP binding site [chemical binding]; other site 1104320001337 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104320001338 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 1104320001339 TPP-binding site [chemical binding]; other site 1104320001340 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104320001341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320001342 DNA-binding site [nucleotide binding]; DNA binding site 1104320001343 FCD domain; Region: FCD; pfam07729 1104320001344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1104320001345 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1104320001346 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320001347 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320001348 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 1104320001349 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1104320001350 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1104320001351 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1104320001352 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1104320001353 active site 1104320001354 intersubunit interface [polypeptide binding]; other site 1104320001355 catalytic residue [active] 1104320001356 potential frameshift: common BLAST hit: gi|340792709|ref|YP_004758173.1| sugar ABC transporter periplasmic sugar-binding protein 1104320001357 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1104320001358 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104320001359 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1104320001360 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 1104320001361 putative ligand binding site [chemical binding]; other site 1104320001362 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104320001363 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104320001364 Walker A/P-loop; other site 1104320001365 ATP binding site [chemical binding]; other site 1104320001366 Q-loop/lid; other site 1104320001367 ABC transporter signature motif; other site 1104320001368 Walker B; other site 1104320001369 D-loop; other site 1104320001370 H-loop/switch region; other site 1104320001371 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104320001372 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 1104320001373 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 1104320001374 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320001375 TM-ABC transporter signature motif; other site 1104320001376 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1104320001377 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 1104320001378 homodimer interface [polypeptide binding]; other site 1104320001379 substrate-cofactor binding pocket; other site 1104320001380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320001381 catalytic residue [active] 1104320001382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 1104320001383 urocanate hydratase; Provisional; Region: PRK05414 1104320001384 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 1104320001385 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1104320001386 active sites [active] 1104320001387 tetramer interface [polypeptide binding]; other site 1104320001388 imidazolonepropionase; Validated; Region: PRK09356 1104320001389 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 1104320001390 active site 1104320001391 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1104320001392 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 1104320001393 active site 1104320001394 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1104320001395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320001396 DNA-binding site [nucleotide binding]; DNA binding site 1104320001397 UTRA domain; Region: UTRA; pfam07702 1104320001398 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1104320001399 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 1104320001400 inhibitor-cofactor binding pocket; inhibition site 1104320001401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320001402 catalytic residue [active] 1104320001403 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1104320001404 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 1104320001405 non-specific DNA binding site [nucleotide binding]; other site 1104320001406 salt bridge; other site 1104320001407 sequence-specific DNA binding site [nucleotide binding]; other site 1104320001408 Cupin domain; Region: Cupin_2; pfam07883 1104320001409 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1104320001410 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104320001411 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104320001412 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1104320001413 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1104320001414 active site 1104320001415 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104320001416 dimer interface [polypeptide binding]; other site 1104320001417 substrate binding site [chemical binding]; other site 1104320001418 catalytic residues [active] 1104320001419 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104320001420 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 1104320001421 putative DNA binding site [nucleotide binding]; other site 1104320001422 putative Zn2+ binding site [ion binding]; other site 1104320001423 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320001424 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104320001425 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1104320001426 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1104320001427 phosphate binding site [ion binding]; other site 1104320001428 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1104320001429 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 1104320001430 putative molybdopterin cofactor binding site [chemical binding]; other site 1104320001431 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 1104320001432 putative molybdopterin cofactor binding site; other site 1104320001433 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104320001434 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320001435 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320001436 putative membrane fusion protein; Region: TIGR02828 1104320001437 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104320001438 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320001439 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320001440 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104320001441 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104320001442 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320001443 DNA-binding site [nucleotide binding]; DNA binding site 1104320001444 UTRA domain; Region: UTRA; pfam07702 1104320001445 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1104320001446 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 1104320001447 dimer interface [polypeptide binding]; other site 1104320001448 active site 1104320001449 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 1104320001450 dimer interface [polypeptide binding]; other site 1104320001451 active site 1104320001452 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1104320001453 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 1104320001454 active site 1104320001455 dimer interface [polypeptide binding]; other site 1104320001456 hypothetical protein; Provisional; Region: PRK02947 1104320001457 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 1104320001458 putative active site [active] 1104320001459 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1104320001460 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1104320001461 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1104320001462 putative active site [active] 1104320001463 putative substrate binding site [chemical binding]; other site 1104320001464 putative cosubstrate binding site; other site 1104320001465 catalytic site [active] 1104320001466 aldehyde dehydrogenase family 7 member; Region: PLN02315 1104320001467 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1104320001468 tetrameric interface [polypeptide binding]; other site 1104320001469 NAD binding site [chemical binding]; other site 1104320001470 catalytic residues [active] 1104320001471 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1104320001472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1104320001473 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1104320001474 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 1104320001475 putative Zn2+ binding site [ion binding]; other site 1104320001476 putative DNA binding site [nucleotide binding]; other site 1104320001477 dimerization interface [polypeptide binding]; other site 1104320001478 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 1104320001479 dimerization interface [polypeptide binding]; other site 1104320001480 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1104320001481 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104320001482 potential frameshift: common BLAST hit: gi|256015665|ref|YP_003105674.1| RNA-binding S1 domain-containing protein 1104320001483 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 1104320001484 RNA binding site [nucleotide binding]; other site 1104320001485 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1104320001486 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1104320001487 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1104320001488 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 1104320001489 dimerization interface [polypeptide binding]; other site 1104320001490 putative DNA binding site [nucleotide binding]; other site 1104320001491 putative Zn2+ binding site [ion binding]; other site 1104320001492 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1104320001493 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 1104320001494 FMN binding site [chemical binding]; other site 1104320001495 active site 1104320001496 substrate binding site [chemical binding]; other site 1104320001497 catalytic residue [active] 1104320001498 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104320001499 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1104320001500 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320001501 Arginase family; Region: Arginase; cd09989 1104320001502 agmatinase; Region: agmatinase; TIGR01230 1104320001503 active site 1104320001504 Mn binding site [ion binding]; other site 1104320001505 oligomer interface [polypeptide binding]; other site 1104320001506 ornithine cyclodeaminase; Validated; Region: PRK07589 1104320001507 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1104320001508 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 1104320001509 apolar tunnel; other site 1104320001510 heme binding site [chemical binding]; other site 1104320001511 dimerization interface [polypeptide binding]; other site 1104320001512 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 1104320001513 putative deacylase active site [active] 1104320001514 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1104320001515 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 1104320001516 catalytic residues [active] 1104320001517 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 1104320001518 binding surface 1104320001519 TPR motif; other site 1104320001520 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1104320001521 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1104320001522 tartrate dehydrogenase; Region: TTC; TIGR02089 1104320001523 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1104320001524 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1104320001525 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1104320001526 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1104320001527 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 1104320001528 DNA binding site [nucleotide binding] 1104320001529 active site 1104320001530 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 1104320001531 putative substrate translocation pore; other site 1104320001532 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1104320001533 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1104320001534 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104320001535 MarR family; Region: MarR; pfam01047 1104320001536 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1104320001537 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1104320001538 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1104320001539 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 1104320001540 substrate binding site [chemical binding]; other site 1104320001541 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1104320001542 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 1104320001543 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 1104320001544 dimer interface [polypeptide binding]; other site 1104320001545 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320001546 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1104320001547 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1104320001548 active site 1104320001549 Zn binding site [ion binding]; other site 1104320001550 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1104320001551 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1104320001552 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 1104320001553 Divalent cation transporter; Region: MgtE; pfam01769 1104320001554 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1104320001555 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1104320001556 G1 box; other site 1104320001557 putative GEF interaction site [polypeptide binding]; other site 1104320001558 GTP/Mg2+ binding site [chemical binding]; other site 1104320001559 Switch I region; other site 1104320001560 G2 box; other site 1104320001561 G3 box; other site 1104320001562 Switch II region; other site 1104320001563 G4 box; other site 1104320001564 G5 box; other site 1104320001565 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 1104320001566 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 1104320001567 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1104320001568 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1104320001569 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1104320001570 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1104320001571 AMP binding site [chemical binding]; other site 1104320001572 metal binding site [ion binding]; metal-binding site 1104320001573 active site 1104320001574 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1104320001575 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 1104320001576 intersubunit interface [polypeptide binding]; other site 1104320001577 active site 1104320001578 zinc binding site [ion binding]; other site 1104320001579 Na+ binding site [ion binding]; other site 1104320001580 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1104320001581 triosephosphate isomerase; Provisional; Region: PRK14565 1104320001582 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 1104320001583 substrate binding site [chemical binding]; other site 1104320001584 dimer interface [polypeptide binding]; other site 1104320001585 catalytic triad [active] 1104320001586 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104320001587 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1104320001588 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104320001589 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1104320001590 PCI domain; Region: PCI; cl02111 1104320001591 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1104320001592 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1104320001593 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 1104320001594 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104320001595 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1104320001596 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1104320001597 putative N- and C-terminal domain interface [polypeptide binding]; other site 1104320001598 putative active site [active] 1104320001599 MgATP binding site [chemical binding]; other site 1104320001600 catalytic site [active] 1104320001601 metal binding site [ion binding]; metal-binding site 1104320001602 putative xylulose binding site [chemical binding]; other site 1104320001603 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 1104320001604 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104320001605 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104320001606 Walker A/P-loop; other site 1104320001607 ATP binding site [chemical binding]; other site 1104320001608 Q-loop/lid; other site 1104320001609 ABC transporter signature motif; other site 1104320001610 Walker B; other site 1104320001611 D-loop; other site 1104320001612 H-loop/switch region; other site 1104320001613 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104320001614 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 1104320001615 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320001616 TM-ABC transporter signature motif; other site 1104320001617 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1104320001618 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104320001619 ligand binding site [chemical binding]; other site 1104320001620 dimerization interface [polypeptide binding]; other site 1104320001621 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104320001622 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1104320001623 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104320001624 hypothetical protein; Validated; Region: PRK08238 1104320001625 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104320001626 hypothetical protein; Validated; Region: PRK08238 1104320001627 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1104320001628 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1104320001629 FAD binding domain; Region: FAD_binding_4; pfam01565 1104320001630 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1104320001631 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104320001632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320001633 NAD(P) binding site [chemical binding]; other site 1104320001634 active site 1104320001635 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1104320001636 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 1104320001637 inhibitor-cofactor binding pocket; inhibition site 1104320001638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320001639 catalytic residue [active] 1104320001640 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1104320001641 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104320001642 Protein of unknown function DUF91; Region: DUF91; cl00709 1104320001643 Uncharacterized conserved protein [Function unknown]; Region: COG3586 1104320001644 Protein of unknown function DUF45; Region: DUF45; pfam01863 1104320001645 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1104320001646 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1104320001647 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 1104320001648 ATP binding site [chemical binding]; other site 1104320001649 putative Mg++ binding site [ion binding]; other site 1104320001650 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1104320001651 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1104320001652 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1104320001653 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1104320001654 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1104320001655 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1104320001656 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1104320001657 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1104320001658 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1104320001659 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 1104320001660 FMN binding site [chemical binding]; other site 1104320001661 substrate binding site [chemical binding]; other site 1104320001662 putative catalytic residue [active] 1104320001663 ATP-dependent DNA ligase; Validated; Region: PRK09247 1104320001664 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1104320001665 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 1104320001666 ATP binding site [chemical binding]; other site 1104320001667 putative Mg++ binding site [ion binding]; other site 1104320001668 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 1104320001669 nucleotide binding region [chemical binding]; other site 1104320001670 ATP-binding site [chemical binding]; other site 1104320001671 DEAD/H associated; Region: DEAD_assoc; pfam08494 1104320001672 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1104320001673 putative active site [active] 1104320001674 putative metal binding site [ion binding]; other site 1104320001675 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 1104320001676 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1104320001677 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1104320001678 Sel1-like repeats; Region: SEL1; smart00671 1104320001679 Sel1-like repeats; Region: SEL1; smart00671 1104320001680 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104320001681 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1104320001682 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104320001683 DNA binding residues [nucleotide binding] 1104320001684 putative dimer interface [polypeptide binding]; other site 1104320001685 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 1104320001686 camphor resistance protein CrcB; Provisional; Region: PRK14225 1104320001687 camphor resistance protein CrcB; Provisional; Region: PRK14233 1104320001688 potential frameshift: common BLAST hit: gi|340792595|ref|YP_004758059.1| HlyD family secretion protein 1104320001689 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320001690 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320001691 potential frameshift: common BLAST hit: gi|256015580|ref|YP_003105589.1| putative multidrug efflux protein 1104320001692 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104320001693 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104320001694 mannonate dehydratase; Region: uxuA; TIGR00695 1104320001695 mannonate dehydratase; Provisional; Region: PRK03906 1104320001696 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104320001697 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320001698 DNA-binding site [nucleotide binding]; DNA binding site 1104320001699 FCD domain; Region: FCD; pfam07729 1104320001700 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1104320001701 glucuronate isomerase; Reviewed; Region: PRK02925 1104320001702 Glucuronate isomerase; Region: UxaC; cl00829 1104320001703 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1104320001704 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1104320001705 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1104320001706 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1104320001707 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1104320001708 hypothetical protein; Provisional; Region: PRK11622 1104320001709 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1104320001710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320001711 Walker A/P-loop; other site 1104320001712 ATP binding site [chemical binding]; other site 1104320001713 Q-loop/lid; other site 1104320001714 ABC transporter signature motif; other site 1104320001715 Walker B; other site 1104320001716 D-loop; other site 1104320001717 H-loop/switch region; other site 1104320001718 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001719 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001720 putative PBP binding loops; other site 1104320001721 ABC-ATPase subunit interface; other site 1104320001722 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104320001723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001724 dimer interface [polypeptide binding]; other site 1104320001725 conserved gate region; other site 1104320001726 putative PBP binding loops; other site 1104320001727 ABC-ATPase subunit interface; other site 1104320001728 potential frameshift: common BLAST hit: gi|256015571|ref|YP_003105580.1| hydrolase, UxaA family 1104320001729 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1104320001730 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1104320001731 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; cl17802 1104320001732 nickel responsive regulator; Provisional; Region: PRK02967 1104320001733 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1104320001734 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1104320001735 potential frameshift: common BLAST hit: gi|340792583|ref|YP_004758047.1| nickel ABC transporter nickel-binding protein 1104320001736 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 1104320001737 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320001738 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320001739 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 1104320001740 nickel transporter permease NikB; Provisional; Region: PRK10352 1104320001741 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001742 dimer interface [polypeptide binding]; other site 1104320001743 conserved gate region; other site 1104320001744 putative PBP binding loops; other site 1104320001745 ABC-ATPase subunit interface; other site 1104320001746 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 1104320001747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001748 dimer interface [polypeptide binding]; other site 1104320001749 conserved gate region; other site 1104320001750 putative PBP binding loops; other site 1104320001751 ABC-ATPase subunit interface; other site 1104320001752 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 1104320001753 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320001754 Walker A/P-loop; other site 1104320001755 ATP binding site [chemical binding]; other site 1104320001756 Q-loop/lid; other site 1104320001757 ABC transporter signature motif; other site 1104320001758 Walker B; other site 1104320001759 D-loop; other site 1104320001760 H-loop/switch region; other site 1104320001761 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 1104320001762 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320001763 Walker A/P-loop; other site 1104320001764 ATP binding site [chemical binding]; other site 1104320001765 Q-loop/lid; other site 1104320001766 ABC transporter signature motif; other site 1104320001767 Walker B; other site 1104320001768 D-loop; other site 1104320001769 H-loop/switch region; other site 1104320001770 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104320001771 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104320001772 active site 1104320001773 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320001774 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 1104320001775 putative dimerization interface [polypeptide binding]; other site 1104320001776 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1104320001777 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1104320001778 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1104320001779 FAD binding site [chemical binding]; other site 1104320001780 substrate binding site [chemical binding]; other site 1104320001781 catalytic residues [active] 1104320001782 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1104320001783 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1104320001784 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 1104320001785 dimer interface [polypeptide binding]; other site 1104320001786 active site 1104320001787 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1104320001788 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 1104320001789 substrate binding site [chemical binding]; other site 1104320001790 oxyanion hole (OAH) forming residues; other site 1104320001791 trimer interface [polypeptide binding]; other site 1104320001792 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1104320001793 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104320001794 Predicted transcriptional regulator [Transcription]; Region: COG2932 1104320001795 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 1104320001796 Catalytic site [active] 1104320001797 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1104320001798 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1104320001799 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104320001800 active site 1104320001801 nucleotide binding site [chemical binding]; other site 1104320001802 HIGH motif; other site 1104320001803 KMSKS motif; other site 1104320001804 tellurite resistance protein terB; Region: terB; cd07176 1104320001805 putative metal binding site [ion binding]; other site 1104320001806 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1104320001807 active site clefts [active] 1104320001808 zinc binding site [ion binding]; other site 1104320001809 dimer interface [polypeptide binding]; other site 1104320001810 Eukaryotic translation initiation factor 3 subunit 8 N-terminus; Region: eIF-3c_N; pfam05470 1104320001811 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320001812 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 1104320001813 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104320001814 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001815 dimer interface [polypeptide binding]; other site 1104320001816 conserved gate region; other site 1104320001817 putative PBP binding loops; other site 1104320001818 ABC-ATPase subunit interface; other site 1104320001819 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104320001820 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001821 dimer interface [polypeptide binding]; other site 1104320001822 conserved gate region; other site 1104320001823 putative PBP binding loops; other site 1104320001824 ABC-ATPase subunit interface; other site 1104320001825 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104320001826 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320001827 Walker A/P-loop; other site 1104320001828 ATP binding site [chemical binding]; other site 1104320001829 Q-loop/lid; other site 1104320001830 ABC transporter signature motif; other site 1104320001831 Walker B; other site 1104320001832 D-loop; other site 1104320001833 H-loop/switch region; other site 1104320001834 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104320001835 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320001836 Walker A/P-loop; other site 1104320001837 ATP binding site [chemical binding]; other site 1104320001838 Q-loop/lid; other site 1104320001839 ABC transporter signature motif; other site 1104320001840 Walker B; other site 1104320001841 D-loop; other site 1104320001842 H-loop/switch region; other site 1104320001843 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104320001844 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1104320001845 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1104320001846 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1104320001847 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1104320001848 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1104320001849 homodimer interface [polypeptide binding]; other site 1104320001850 NADP binding site [chemical binding]; other site 1104320001851 substrate binding site [chemical binding]; other site 1104320001852 phosphogluconate dehydratase; Validated; Region: PRK09054 1104320001853 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1104320001854 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1104320001855 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 1104320001856 putative active site [active] 1104320001857 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1104320001858 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1104320001859 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1104320001860 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1104320001861 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1104320001862 putative NAD(P) binding site [chemical binding]; other site 1104320001863 active site 1104320001864 drug efflux system protein MdtG; Provisional; Region: PRK09874 1104320001865 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 1104320001866 putative substrate translocation pore; other site 1104320001867 Predicted membrane protein [Function unknown]; Region: COG4541 1104320001868 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1104320001869 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104320001870 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 1104320001871 putative DNA binding site [nucleotide binding]; other site 1104320001872 putative Zn2+ binding site [ion binding]; other site 1104320001873 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320001874 Hint domain; Region: Hint_2; pfam13403 1104320001875 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104320001876 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1104320001877 hypothetical protein; Reviewed; Region: PRK12275 1104320001878 four helix bundle protein; Region: TIGR02436 1104320001879 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1104320001880 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1104320001881 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 1104320001882 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320001883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320001884 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 1104320001885 dimerization interface [polypeptide binding]; other site 1104320001886 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1104320001887 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 1104320001888 generic binding surface II; other site 1104320001889 generic binding surface I; other site 1104320001890 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 1104320001891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1104320001892 RNA methyltransferase, RsmE family; Region: TIGR00046 1104320001893 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104320001894 MarR family; Region: MarR_2; pfam12802 1104320001895 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1104320001896 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1104320001897 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1104320001898 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1104320001899 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320001900 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320001901 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 1104320001902 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1104320001903 putative ligand binding residues [chemical binding]; other site 1104320001904 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1104320001905 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 1104320001906 ABC-ATPase subunit interface; other site 1104320001907 dimer interface [polypeptide binding]; other site 1104320001908 putative PBP binding regions; other site 1104320001909 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1104320001910 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1104320001911 Walker A/P-loop; other site 1104320001912 ATP binding site [chemical binding]; other site 1104320001913 Q-loop/lid; other site 1104320001914 ABC transporter signature motif; other site 1104320001915 Walker B; other site 1104320001916 D-loop; other site 1104320001917 H-loop/switch region; other site 1104320001918 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1104320001919 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1104320001920 MlrC C-terminus; Region: MlrC_C; pfam07171 1104320001921 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 1104320001922 homotrimer interaction site [polypeptide binding]; other site 1104320001923 putative active site [active] 1104320001924 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104320001925 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001926 dimer interface [polypeptide binding]; other site 1104320001927 conserved gate region; other site 1104320001928 putative PBP binding loops; other site 1104320001929 ABC-ATPase subunit interface; other site 1104320001930 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001931 dimer interface [polypeptide binding]; other site 1104320001932 conserved gate region; other site 1104320001933 putative PBP binding loops; other site 1104320001934 ABC-ATPase subunit interface; other site 1104320001935 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104320001936 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1104320001937 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1104320001938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320001939 NAD(P) binding site [chemical binding]; other site 1104320001940 active site 1104320001941 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104320001942 Walker A/P-loop; other site 1104320001943 ATP binding site [chemical binding]; other site 1104320001944 ABC transporter; Region: ABC_tran; pfam00005 1104320001945 Q-loop/lid; other site 1104320001946 ABC transporter signature motif; other site 1104320001947 Walker B; other site 1104320001948 D-loop; other site 1104320001949 H-loop/switch region; other site 1104320001950 TOBE domain; Region: TOBE; pfam03459 1104320001951 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104320001952 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104320001953 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 1104320001954 putative active site [active] 1104320001955 potential frameshift: common BLAST hit: gi|340792522|ref|YP_004757986.1| amino acid processing enzyme-like protein 1104320001956 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1104320001957 catalytic residue [active] 1104320001958 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 1104320001959 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1104320001960 active site 1104320001961 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104320001962 dimer interface [polypeptide binding]; other site 1104320001963 substrate binding site [chemical binding]; other site 1104320001964 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1104320001965 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1104320001966 Walker A/P-loop; other site 1104320001967 ATP binding site [chemical binding]; other site 1104320001968 Q-loop/lid; other site 1104320001969 ABC transporter signature motif; other site 1104320001970 Walker B; other site 1104320001971 D-loop; other site 1104320001972 H-loop/switch region; other site 1104320001973 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 1104320001974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320001975 dimer interface [polypeptide binding]; other site 1104320001976 conserved gate region; other site 1104320001977 putative PBP binding loops; other site 1104320001978 ABC-ATPase subunit interface; other site 1104320001979 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1104320001980 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1104320001981 EamA-like transporter family; Region: EamA; pfam00892 1104320001982 BA14K-like protein; Region: BA14K; pfam07886 1104320001983 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1104320001984 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1104320001985 putative active site [active] 1104320001986 metal binding site [ion binding]; metal-binding site 1104320001987 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1104320001988 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1104320001989 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1104320001990 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104320001991 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104320001992 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 1104320001993 putative active site [active] 1104320001994 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1104320001995 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104320001996 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104320001997 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1104320001998 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1104320001999 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1104320002000 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 1104320002001 lipoyl attachment site [posttranslational modification]; other site 1104320002002 glycine dehydrogenase; Provisional; Region: PRK05367 1104320002003 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 1104320002004 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104320002005 catalytic residue [active] 1104320002006 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 1104320002007 tetramer interface [polypeptide binding]; other site 1104320002008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320002009 catalytic residue [active] 1104320002010 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1104320002011 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 1104320002012 putative DNA binding site [nucleotide binding]; other site 1104320002013 putative Zn2+ binding site [ion binding]; other site 1104320002014 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320002015 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1104320002016 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1104320002017 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1104320002018 Glutamate binding site [chemical binding]; other site 1104320002019 NAD binding site [chemical binding]; other site 1104320002020 catalytic residues [active] 1104320002021 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 1104320002022 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1104320002023 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1104320002024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002025 dimer interface [polypeptide binding]; other site 1104320002026 conserved gate region; other site 1104320002027 putative PBP binding loops; other site 1104320002028 ABC-ATPase subunit interface; other site 1104320002029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002030 dimer interface [polypeptide binding]; other site 1104320002031 conserved gate region; other site 1104320002032 putative PBP binding loops; other site 1104320002033 ABC-ATPase subunit interface; other site 1104320002034 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104320002035 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320002036 Walker A/P-loop; other site 1104320002037 ATP binding site [chemical binding]; other site 1104320002038 Q-loop/lid; other site 1104320002039 ABC transporter signature motif; other site 1104320002040 Walker B; other site 1104320002041 D-loop; other site 1104320002042 H-loop/switch region; other site 1104320002043 TOBE domain; Region: TOBE_2; pfam08402 1104320002044 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104320002045 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 1104320002046 active site 1104320002047 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1104320002048 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1104320002049 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1104320002050 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1104320002051 PYR/PP interface [polypeptide binding]; other site 1104320002052 dimer interface [polypeptide binding]; other site 1104320002053 TPP binding site [chemical binding]; other site 1104320002054 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104320002055 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; cl01629 1104320002056 TPP-binding site [chemical binding]; other site 1104320002057 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104320002058 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 1104320002059 substrate binding site [chemical binding]; other site 1104320002060 ATP binding site [chemical binding]; other site 1104320002061 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1104320002062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1104320002063 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104320002064 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104320002065 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 1104320002066 putative active site [active] 1104320002067 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320002068 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320002069 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104320002070 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 1104320002071 HTH DNA binding domain; Region: HTH_13; pfam11972 1104320002072 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1104320002073 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320002074 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 1104320002075 dimerization interface [polypeptide binding]; other site 1104320002076 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1104320002077 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1104320002078 dimer interface [polypeptide binding]; other site 1104320002079 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1104320002080 catalytic triad [active] 1104320002081 peroxidatic and resolving cysteines [active] 1104320002082 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1104320002083 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1104320002084 metabolite-proton symporter; Region: 2A0106; TIGR00883 1104320002085 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 1104320002086 putative substrate translocation pore; other site 1104320002087 multicopper oxidase; Provisional; Region: PRK10965 1104320002088 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1104320002089 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1104320002090 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1104320002091 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1104320002092 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 1104320002093 E-class dimer interface [polypeptide binding]; other site 1104320002094 P-class dimer interface [polypeptide binding]; other site 1104320002095 active site 1104320002096 Cu2+ binding site [ion binding]; other site 1104320002097 Zn2+ binding site [ion binding]; other site 1104320002098 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104320002099 FAD dependent oxidoreductase; Region: DAO; pfam01266 1104320002100 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104320002101 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104320002102 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1104320002103 Walker A/P-loop; other site 1104320002104 ATP binding site [chemical binding]; other site 1104320002105 Q-loop/lid; other site 1104320002106 ABC transporter signature motif; other site 1104320002107 Walker B; other site 1104320002108 D-loop; other site 1104320002109 H-loop/switch region; other site 1104320002110 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1104320002111 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1104320002112 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1104320002113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002114 dimer interface [polypeptide binding]; other site 1104320002115 conserved gate region; other site 1104320002116 putative PBP binding loops; other site 1104320002117 ABC-ATPase subunit interface; other site 1104320002118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002119 dimer interface [polypeptide binding]; other site 1104320002120 conserved gate region; other site 1104320002121 putative PBP binding loops; other site 1104320002122 ABC-ATPase subunit interface; other site 1104320002123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 1104320002124 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1104320002125 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 1104320002126 active site 1104320002127 homopentamer interface [polypeptide binding]; other site 1104320002128 dimer interface [polypeptide binding]; other site 1104320002129 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104320002130 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104320002131 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002132 dimer interface [polypeptide binding]; other site 1104320002133 conserved gate region; other site 1104320002134 putative PBP binding loops; other site 1104320002135 ABC-ATPase subunit interface; other site 1104320002136 potential frameshift: common BLAST hit: gi|256015459|ref|YP_003105468.1| sugar ABC transporter permease 1104320002137 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104320002138 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104320002139 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002140 dimer interface [polypeptide binding]; other site 1104320002141 conserved gate region; other site 1104320002142 putative PBP binding loops; other site 1104320002143 ABC-ATPase subunit interface; other site 1104320002144 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1104320002145 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104320002146 Walker A/P-loop; other site 1104320002147 ATP binding site [chemical binding]; other site 1104320002148 Q-loop/lid; other site 1104320002149 ABC transporter signature motif; other site 1104320002150 Walker B; other site 1104320002151 D-loop; other site 1104320002152 H-loop/switch region; other site 1104320002153 TOBE domain; Region: TOBE_2; pfam08402 1104320002154 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 1104320002155 putative transporter; Provisional; Region: PRK10504 1104320002156 putative substrate translocation pore; other site 1104320002157 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 1104320002158 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1104320002159 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 1104320002160 S-adenosylmethionine binding site [chemical binding]; other site 1104320002161 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1104320002162 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1104320002163 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104320002164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320002165 Walker A/P-loop; other site 1104320002166 ATP binding site [chemical binding]; other site 1104320002167 Q-loop/lid; other site 1104320002168 ABC transporter signature motif; other site 1104320002169 Walker B; other site 1104320002170 D-loop; other site 1104320002171 H-loop/switch region; other site 1104320002172 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002173 dimer interface [polypeptide binding]; other site 1104320002174 conserved gate region; other site 1104320002175 putative PBP binding loops; other site 1104320002176 ABC-ATPase subunit interface; other site 1104320002177 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104320002178 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 1104320002179 substrate binding pocket [chemical binding]; other site 1104320002180 membrane-bound complex binding site; other site 1104320002181 hinge residues; other site 1104320002182 5-oxoprolinase; Region: PLN02666 1104320002183 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1104320002184 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1104320002185 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1104320002186 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 1104320002187 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1104320002188 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1104320002189 Walker A/P-loop; other site 1104320002190 ATP binding site [chemical binding]; other site 1104320002191 Q-loop/lid; other site 1104320002192 ABC transporter signature motif; other site 1104320002193 Walker B; other site 1104320002194 D-loop; other site 1104320002195 H-loop/switch region; other site 1104320002196 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 1104320002197 ABC-ATPase subunit interface; other site 1104320002198 dimer interface [polypeptide binding]; other site 1104320002199 putative PBP binding regions; other site 1104320002200 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1104320002201 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 1104320002202 ABC-ATPase subunit interface; other site 1104320002203 dimer interface [polypeptide binding]; other site 1104320002204 putative PBP binding regions; other site 1104320002205 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1104320002206 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1104320002207 putative ligand binding residues [chemical binding]; other site 1104320002208 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1104320002209 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104320002210 NAD binding site [chemical binding]; other site 1104320002211 catalytic residues [active] 1104320002212 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 1104320002213 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1104320002214 FAD binding domain; Region: FAD_binding_2; pfam00890 1104320002215 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1104320002216 aminotransferase; Provisional; Region: PRK13356 1104320002217 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1104320002218 homodimer interface [polypeptide binding]; other site 1104320002219 substrate-cofactor binding pocket; other site 1104320002220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320002221 catalytic residue [active] 1104320002222 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104320002223 EamA-like transporter family; Region: EamA; pfam00892 1104320002224 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1104320002225 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1104320002226 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 1104320002227 nucleoside/Zn binding site; other site 1104320002228 dimer interface [polypeptide binding]; other site 1104320002229 catalytic motif [active] 1104320002230 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1104320002231 transmembrane helices; other site 1104320002232 TrkA-C domain; Region: TrkA_C; pfam02080 1104320002233 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 1104320002234 TrkA-C domain; Region: TrkA_C; pfam02080 1104320002235 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 1104320002236 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1104320002237 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104320002238 Walker A/P-loop; other site 1104320002239 ATP binding site [chemical binding]; other site 1104320002240 Q-loop/lid; other site 1104320002241 ABC transporter signature motif; other site 1104320002242 Walker B; other site 1104320002243 D-loop; other site 1104320002244 H-loop/switch region; other site 1104320002245 TOBE domain; Region: TOBE_2; pfam08402 1104320002246 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104320002247 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002248 dimer interface [polypeptide binding]; other site 1104320002249 conserved gate region; other site 1104320002250 ABC-ATPase subunit interface; other site 1104320002251 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1104320002252 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002253 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104320002254 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104320002255 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1104320002256 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 1104320002257 active site 1104320002258 dimer interface [polypeptide binding]; other site 1104320002259 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1104320002260 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 1104320002261 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 1104320002262 active site 1104320002263 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104320002264 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104320002265 Walker A/P-loop; other site 1104320002266 ATP binding site [chemical binding]; other site 1104320002267 Q-loop/lid; other site 1104320002268 ABC transporter signature motif; other site 1104320002269 Walker B; other site 1104320002270 D-loop; other site 1104320002271 H-loop/switch region; other site 1104320002272 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104320002273 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104320002274 Walker A/P-loop; other site 1104320002275 ATP binding site [chemical binding]; other site 1104320002276 Q-loop/lid; other site 1104320002277 ABC transporter signature motif; other site 1104320002278 Walker B; other site 1104320002279 D-loop; other site 1104320002280 H-loop/switch region; other site 1104320002281 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104320002282 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 1104320002283 TM-ABC transporter signature motif; other site 1104320002284 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320002285 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 1104320002286 TM-ABC transporter signature motif; other site 1104320002287 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104320002288 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104320002289 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 1104320002290 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1104320002291 tetramer interface [polypeptide binding]; other site 1104320002292 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1104320002293 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 1104320002294 heterodimer interface [polypeptide binding]; other site 1104320002295 active site 1104320002296 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1104320002297 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1104320002298 active site 1104320002299 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1104320002300 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1104320002301 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1104320002302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320002303 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 1104320002304 dimerization interface [polypeptide binding]; other site 1104320002305 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1104320002306 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1104320002307 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104320002308 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1104320002309 Cupin domain; Region: Cupin_2; cl17218 1104320002310 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320002311 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1104320002312 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1104320002313 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104320002314 Coenzyme A transferase; Region: CoA_trans; cl17247 1104320002315 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1104320002316 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1104320002317 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 1104320002318 dimer interface [polypeptide binding]; other site 1104320002319 active site 1104320002320 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1104320002321 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1104320002322 active site 1104320002323 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320002324 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104320002325 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1104320002326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320002327 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 1104320002328 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104320002329 substrate binding pocket [chemical binding]; other site 1104320002330 membrane-bound complex binding site; other site 1104320002331 hinge residues; other site 1104320002332 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 1104320002333 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104320002334 substrate binding pocket [chemical binding]; other site 1104320002335 membrane-bound complex binding site; other site 1104320002336 hinge residues; other site 1104320002337 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104320002338 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104320002339 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104320002340 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320002341 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104320002342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320002343 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1104320002344 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104320002345 active site 1104320002346 catalytic site [active] 1104320002347 substrate binding site [chemical binding]; other site 1104320002348 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1104320002349 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1104320002350 DNA polymerase IV; Provisional; Region: PRK02794 1104320002351 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1104320002352 active site 1104320002353 DNA binding site [nucleotide binding] 1104320002354 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1104320002355 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1104320002356 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 1104320002357 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1104320002358 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 1104320002359 active site 1104320002360 phosphorylation site [posttranslational modification] 1104320002361 intermolecular recognition site; other site 1104320002362 dimerization interface [polypeptide binding]; other site 1104320002363 response regulator PleD; Reviewed; Region: pleD; PRK09581 1104320002364 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 1104320002365 active site 1104320002366 phosphorylation site [posttranslational modification] 1104320002367 intermolecular recognition site; other site 1104320002368 dimerization interface [polypeptide binding]; other site 1104320002369 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 1104320002370 active site 1104320002371 phosphorylation site [posttranslational modification] 1104320002372 intermolecular recognition site; other site 1104320002373 dimerization interface [polypeptide binding]; other site 1104320002374 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104320002375 metal binding site [ion binding]; metal-binding site 1104320002376 active site 1104320002377 I-site; other site 1104320002378 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1104320002379 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104320002380 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 1104320002381 putative substrate translocation pore; other site 1104320002382 hypothetical protein; Provisional; Region: PRK05978 1104320002383 ribonuclease R; Region: RNase_R; TIGR02063 1104320002384 RNB domain; Region: RNB; pfam00773 1104320002385 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1104320002386 RNA binding site [nucleotide binding]; other site 1104320002387 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1104320002388 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 1104320002389 active site 1104320002390 interdomain interaction site; other site 1104320002391 putative metal-binding site [ion binding]; other site 1104320002392 nucleotide binding site [chemical binding]; other site 1104320002393 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 1104320002394 domain I; other site 1104320002395 DNA binding groove [nucleotide binding] 1104320002396 phosphate binding site [ion binding]; other site 1104320002397 domain II; other site 1104320002398 domain III; other site 1104320002399 nucleotide binding site [chemical binding]; other site 1104320002400 catalytic site [active] 1104320002401 domain IV; other site 1104320002402 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1104320002403 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1104320002404 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1104320002405 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1104320002406 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1104320002407 DNA protecting protein DprA; Region: dprA; TIGR00732 1104320002408 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1104320002409 dihydroorotase; Validated; Region: PRK09059 1104320002410 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 1104320002411 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 1104320002412 active site 1104320002413 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1104320002414 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104320002415 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104320002416 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104320002417 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104320002418 active site 1104320002419 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1104320002420 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1104320002421 metal-dependent hydrolase; Provisional; Region: PRK00685 1104320002422 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1104320002423 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1104320002424 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1104320002425 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1104320002426 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 1104320002427 Mg2+ binding site [ion binding]; other site 1104320002428 G-X-G motif; other site 1104320002429 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 1104320002430 anchoring element; other site 1104320002431 dimer interface [polypeptide binding]; other site 1104320002432 ATP binding site [chemical binding]; other site 1104320002433 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 1104320002434 active site 1104320002435 metal binding site [ion binding]; metal-binding site 1104320002436 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1104320002437 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104320002438 EamA-like transporter family; Region: EamA; pfam00892 1104320002439 lipoate-protein ligase B; Provisional; Region: PRK14341 1104320002440 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 1104320002441 PAS domain; Region: PAS_9; pfam13426 1104320002442 putative active site [active] 1104320002443 heme pocket [chemical binding]; other site 1104320002444 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 1104320002445 PAS fold; Region: PAS_3; pfam08447 1104320002446 putative active site [active] 1104320002447 heme pocket [chemical binding]; other site 1104320002448 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1104320002449 HWE histidine kinase; Region: HWE_HK; pfam07536 1104320002450 BA14K-like protein; Region: BA14K; pfam07886 1104320002451 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1104320002452 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1104320002453 Predicted integral membrane protein [Function unknown]; Region: COG0392 1104320002454 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1104320002455 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1104320002456 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1104320002457 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1104320002458 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1104320002459 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1104320002460 Substrate binding site; other site 1104320002461 Mg++ binding site; other site 1104320002462 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 1104320002463 active site 1104320002464 substrate binding site [chemical binding]; other site 1104320002465 CoA binding site [chemical binding]; other site 1104320002466 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1104320002467 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 1104320002468 glutaminase active site [active] 1104320002469 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 1104320002470 dimer interface [polypeptide binding]; other site 1104320002471 active site 1104320002472 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 1104320002473 dimer interface [polypeptide binding]; other site 1104320002474 active site 1104320002475 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1104320002476 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 1104320002477 generic binding surface II; other site 1104320002478 ssDNA binding site; other site 1104320002479 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 1104320002480 ATP binding site [chemical binding]; other site 1104320002481 putative Mg++ binding site [ion binding]; other site 1104320002482 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 1104320002483 nucleotide binding region [chemical binding]; other site 1104320002484 ATP-binding site [chemical binding]; other site 1104320002485 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1104320002486 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1104320002487 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1104320002488 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 1104320002489 ATP binding site [chemical binding]; other site 1104320002490 putative Mg++ binding site [ion binding]; other site 1104320002491 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 1104320002492 nucleotide binding region [chemical binding]; other site 1104320002493 ATP-binding site [chemical binding]; other site 1104320002494 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1104320002495 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 1104320002496 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 1104320002497 active site 1104320002498 metal binding site [ion binding]; metal-binding site 1104320002499 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1104320002500 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 1104320002501 catalytic residues [active] 1104320002502 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104320002503 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 1104320002504 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1104320002505 Uncharacterized conserved protein [Function unknown]; Region: COG3785 1104320002506 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 1104320002507 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1104320002508 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1104320002509 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1104320002510 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1104320002511 NADP binding site [chemical binding]; other site 1104320002512 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104320002513 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1104320002514 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104320002515 Walker A/P-loop; other site 1104320002516 ATP binding site [chemical binding]; other site 1104320002517 Q-loop/lid; other site 1104320002518 ABC transporter signature motif; other site 1104320002519 Walker B; other site 1104320002520 D-loop; other site 1104320002521 H-loop/switch region; other site 1104320002522 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104320002523 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320002524 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 1104320002525 TM-ABC transporter signature motif; other site 1104320002526 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320002527 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 1104320002528 TM-ABC transporter signature motif; other site 1104320002529 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1104320002530 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 1104320002531 putative ligand binding site [chemical binding]; other site 1104320002532 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1104320002533 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1104320002534 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 1104320002535 FeS/SAM binding site; other site 1104320002536 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1104320002537 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1104320002538 heme binding site [chemical binding]; other site 1104320002539 ferroxidase pore; other site 1104320002540 ferroxidase diiron center [ion binding]; other site 1104320002541 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1104320002542 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 1104320002543 Predicted transcriptional regulator [Transcription]; Region: COG1959 1104320002544 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 1104320002545 putative deacylase active site [active] 1104320002546 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104320002547 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1104320002548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1104320002549 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1104320002550 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1104320002551 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1104320002552 yecA family protein; Region: ygfB_yecA; TIGR02292 1104320002553 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1104320002554 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104320002555 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320002556 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1104320002557 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 1104320002558 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1104320002559 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1104320002560 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1104320002561 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1104320002562 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1104320002563 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1104320002564 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 1104320002565 active site 1104320002566 Cellulose synthase-like protein; Region: PLN02893 1104320002567 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1104320002568 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1104320002569 NAD binding site [chemical binding]; other site 1104320002570 homodimer interface [polypeptide binding]; other site 1104320002571 active site 1104320002572 substrate binding site [chemical binding]; other site 1104320002573 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104320002574 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1104320002575 NAD binding site [chemical binding]; other site 1104320002576 putative substrate binding site 2 [chemical binding]; other site 1104320002577 putative substrate binding site 1 [chemical binding]; other site 1104320002578 active site 1104320002579 Predicted integral membrane protein [Function unknown]; Region: COG5455 1104320002580 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104320002581 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1104320002582 peptide binding site [polypeptide binding]; other site 1104320002583 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104320002584 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1104320002585 peptide binding site [polypeptide binding]; other site 1104320002586 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1104320002587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002588 dimer interface [polypeptide binding]; other site 1104320002589 conserved gate region; other site 1104320002590 putative PBP binding loops; other site 1104320002591 ABC-ATPase subunit interface; other site 1104320002592 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1104320002593 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002594 dimer interface [polypeptide binding]; other site 1104320002595 conserved gate region; other site 1104320002596 ABC-ATPase subunit interface; other site 1104320002597 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1104320002598 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320002599 Walker A/P-loop; other site 1104320002600 ATP binding site [chemical binding]; other site 1104320002601 Q-loop/lid; other site 1104320002602 ABC transporter signature motif; other site 1104320002603 Walker B; other site 1104320002604 D-loop; other site 1104320002605 H-loop/switch region; other site 1104320002606 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104320002607 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320002608 Walker A/P-loop; other site 1104320002609 ATP binding site [chemical binding]; other site 1104320002610 Q-loop/lid; other site 1104320002611 ABC transporter signature motif; other site 1104320002612 Walker B; other site 1104320002613 D-loop; other site 1104320002614 H-loop/switch region; other site 1104320002615 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104320002616 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1104320002617 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1104320002618 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104320002619 benzoate transport; Region: 2A0115; TIGR00895 1104320002620 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 1104320002621 putative substrate translocation pore; other site 1104320002622 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 1104320002623 homodimer interface [polypeptide binding]; other site 1104320002624 homotetramer interface [polypeptide binding]; other site 1104320002625 active site pocket [active] 1104320002626 cleavage site 1104320002627 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1104320002628 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104320002629 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1104320002630 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 1104320002631 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1104320002632 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104320002633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104320002634 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104320002635 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1104320002636 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 1104320002637 E3 interaction surface; other site 1104320002638 lipoyl attachment site [posttranslational modification]; other site 1104320002639 e3 binding domain; Region: E3_binding; pfam02817 1104320002640 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104320002641 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1104320002642 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 1104320002643 alpha subunit interface [polypeptide binding]; other site 1104320002644 TPP binding site [chemical binding]; other site 1104320002645 heterodimer interface [polypeptide binding]; other site 1104320002646 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104320002647 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1104320002648 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1104320002649 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 1104320002650 tetramer interface [polypeptide binding]; other site 1104320002651 TPP-binding site [chemical binding]; other site 1104320002652 heterodimer interface [polypeptide binding]; other site 1104320002653 phosphorylation loop region [posttranslational modification] 1104320002654 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1104320002655 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104320002656 Walker A/P-loop; other site 1104320002657 ATP binding site [chemical binding]; other site 1104320002658 Q-loop/lid; other site 1104320002659 ABC transporter signature motif; other site 1104320002660 Walker B; other site 1104320002661 D-loop; other site 1104320002662 H-loop/switch region; other site 1104320002663 TOBE domain; Region: TOBE_2; pfam08402 1104320002664 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320002665 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320002666 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104320002667 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002668 dimer interface [polypeptide binding]; other site 1104320002669 conserved gate region; other site 1104320002670 putative PBP binding loops; other site 1104320002671 ABC-ATPase subunit interface; other site 1104320002672 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1104320002673 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002674 dimer interface [polypeptide binding]; other site 1104320002675 conserved gate region; other site 1104320002676 putative PBP binding loops; other site 1104320002677 ABC-ATPase subunit interface; other site 1104320002678 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104320002679 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104320002680 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104320002681 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104320002682 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104320002683 nucleotide binding site [chemical binding]; other site 1104320002684 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104320002685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320002686 DNA-binding site [nucleotide binding]; DNA binding site 1104320002687 UTRA domain; Region: UTRA; pfam07702 1104320002688 Predicted outer membrane lipoprotein [Function unknown]; Region: COG4890 1104320002689 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1104320002690 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1104320002691 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1104320002692 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1104320002693 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 1104320002694 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320002695 Walker A/P-loop; other site 1104320002696 ATP binding site [chemical binding]; other site 1104320002697 Q-loop/lid; other site 1104320002698 ABC transporter signature motif; other site 1104320002699 Walker B; other site 1104320002700 D-loop; other site 1104320002701 H-loop/switch region; other site 1104320002702 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 1104320002703 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104320002704 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1104320002705 Walker A/P-loop; other site 1104320002706 ATP binding site [chemical binding]; other site 1104320002707 Q-loop/lid; other site 1104320002708 ABC transporter signature motif; other site 1104320002709 Walker B; other site 1104320002710 D-loop; other site 1104320002711 H-loop/switch region; other site 1104320002712 Predicted transcriptional regulators [Transcription]; Region: COG1510 1104320002713 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 1104320002714 dimerization interface [polypeptide binding]; other site 1104320002715 putative DNA binding site [nucleotide binding]; other site 1104320002716 putative Zn2+ binding site [ion binding]; other site 1104320002717 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1104320002718 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1104320002719 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12596 1104320002720 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1104320002721 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104320002722 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1104320002723 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1104320002724 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1104320002725 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104320002726 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1104320002727 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1104320002728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1104320002729 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1104320002730 Nitroreductase-like family 4. 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_4; cd02140 1104320002731 dimer interface [polypeptide binding]; other site 1104320002732 FMN binding site [chemical binding]; other site 1104320002733 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 1104320002734 MPT binding site; other site 1104320002735 trimer interface [polypeptide binding]; other site 1104320002736 biotin synthase; Region: bioB; TIGR00433 1104320002737 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 1104320002738 FeS/SAM binding site; other site 1104320002739 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1104320002740 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1104320002741 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1104320002742 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104320002743 catalytic residue [active] 1104320002744 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1104320002745 AAA domain; Region: AAA_26; pfam13500 1104320002746 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1104320002747 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 1104320002748 inhibitor-cofactor binding pocket; inhibition site 1104320002749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320002750 catalytic residue [active] 1104320002751 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 1104320002752 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 1104320002753 dimer interface [polypeptide binding]; other site 1104320002754 active site 1104320002755 CoA binding pocket [chemical binding]; other site 1104320002756 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 1104320002757 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1104320002758 proposed active site lysine [active] 1104320002759 conserved cys residue [active] 1104320002760 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1104320002761 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 1104320002762 active site 1104320002763 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1104320002764 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1104320002765 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 1104320002766 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320002767 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 1104320002768 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320002769 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104320002770 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1104320002771 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1104320002772 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104320002773 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1104320002774 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104320002775 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 1104320002776 active site 1104320002777 phosphorylation site [posttranslational modification] 1104320002778 intermolecular recognition site; other site 1104320002779 dimerization interface [polypeptide binding]; other site 1104320002780 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 1104320002781 DNA binding site [nucleotide binding] 1104320002782 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320002783 HAMP domain; Region: HAMP; pfam00672 1104320002784 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 1104320002785 dimer interface [polypeptide binding]; other site 1104320002786 phosphorylation site [posttranslational modification] 1104320002787 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 1104320002788 ATP binding site [chemical binding]; other site 1104320002789 Mg2+ binding site [ion binding]; other site 1104320002790 G-X-G motif; other site 1104320002791 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1104320002792 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320002793 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320002794 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 1104320002795 putative substrate translocation pore; other site 1104320002796 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1104320002797 MarR family; Region: MarR_2; pfam12802 1104320002798 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; cl17432 1104320002799 NMT1/THI5 like; Region: NMT1; pfam09084 1104320002800 substrate binding pocket [chemical binding]; other site 1104320002801 membrane-bound complex binding site; other site 1104320002802 hinge residues; other site 1104320002803 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1104320002804 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1104320002805 Walker A/P-loop; other site 1104320002806 ATP binding site [chemical binding]; other site 1104320002807 Q-loop/lid; other site 1104320002808 ABC transporter signature motif; other site 1104320002809 Walker B; other site 1104320002810 D-loop; other site 1104320002811 H-loop/switch region; other site 1104320002812 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104320002813 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002814 dimer interface [polypeptide binding]; other site 1104320002815 conserved gate region; other site 1104320002816 putative PBP binding loops; other site 1104320002817 ABC-ATPase subunit interface; other site 1104320002818 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1104320002819 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1104320002820 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104320002821 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1104320002822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320002823 H-loop/switch region; other site 1104320002824 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104320002825 Walker A/P-loop; other site 1104320002826 ATP binding site [chemical binding]; other site 1104320002827 ABC transporter; Region: ABC_tran; pfam00005 1104320002828 Q-loop/lid; other site 1104320002829 ABC transporter signature motif; other site 1104320002830 Walker B; other site 1104320002831 D-loop; other site 1104320002832 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1104320002833 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104320002834 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320002835 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 1104320002836 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104320002837 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1104320002838 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104320002839 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104320002840 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104320002841 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320002842 DNA-binding site [nucleotide binding]; DNA binding site 1104320002843 FCD domain; Region: FCD; pfam07729 1104320002844 Predicted transporter component [General function prediction only]; Region: COG2391 1104320002845 Sulphur transport; Region: Sulf_transp; pfam04143 1104320002846 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1104320002847 Predicted transporter component [General function prediction only]; Region: COG2391 1104320002848 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 1104320002849 dimerization interface [polypeptide binding]; other site 1104320002850 putative DNA binding site [nucleotide binding]; other site 1104320002851 putative Zn2+ binding site [ion binding]; other site 1104320002852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 1104320002853 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 1104320002854 active site 1104320002855 catalytic residues [active] 1104320002856 metal binding site [ion binding]; metal-binding site 1104320002857 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1104320002858 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1104320002859 ligand binding site [chemical binding]; other site 1104320002860 NAD binding site [chemical binding]; other site 1104320002861 tetramer interface [polypeptide binding]; other site 1104320002862 catalytic site [active] 1104320002863 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1104320002864 L-serine binding site [chemical binding]; other site 1104320002865 ACT domain interface; other site 1104320002866 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1104320002867 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104320002868 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320002869 potential frameshift: common BLAST hit: gi|23500199|ref|NP_699639.1| acetyl-CoA synthetase 1104320002870 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1104320002871 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1104320002872 acyl-activating enzyme (AAE) consensus motif; other site 1104320002873 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1104320002874 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1104320002875 active site 1104320002876 CoA binding site [chemical binding]; other site 1104320002877 AMP binding site [chemical binding]; other site 1104320002878 potential frameshift: common BLAST hit: gi|225686255|ref|YP_002734227.1| 3-hydroxyacyl-CoA dehydrogenase type-2 1104320002879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320002880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320002881 active site 1104320002882 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1104320002883 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 1104320002884 dimer interface [polypeptide binding]; other site 1104320002885 active site 1104320002886 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104320002887 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104320002888 active site 1104320002889 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1104320002890 SelR domain; Region: SelR; pfam01641 1104320002891 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1104320002892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320002893 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 1104320002894 putative dimerization interface [polypeptide binding]; other site 1104320002895 putative substrate binding pocket [chemical binding]; other site 1104320002896 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 1104320002897 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104320002898 putative substrate translocation pore; other site 1104320002899 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1104320002900 potential frameshift: common BLAST hit: gi|163844609|ref|YP_001622264.1| glycerol kinase 1104320002901 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1104320002902 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1104320002903 nucleotide binding site [chemical binding]; other site 1104320002904 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1104320002905 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1104320002906 nucleotide binding site [chemical binding]; other site 1104320002907 potential frameshift: common BLAST hit: gi|256015225|ref|YP_003105234.1| uracil-xanthine permease 1104320002908 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1104320002909 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1104320002910 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1104320002911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320002912 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1104320002913 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1104320002914 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1104320002915 Chain length determinant protein; Region: Wzz; cl15801 1104320002916 AAA domain; Region: AAA_31; pfam13614 1104320002917 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1104320002918 G3 box; other site 1104320002919 Switch II region; other site 1104320002920 G4 box; other site 1104320002921 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104320002922 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 1104320002923 DNA binding residues [nucleotide binding] 1104320002924 dimerization interface [polypeptide binding]; other site 1104320002925 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104320002926 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 1104320002927 ligand binding site [chemical binding]; other site 1104320002928 flexible hinge region; other site 1104320002929 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 1104320002930 putative switch regulator; other site 1104320002931 non-specific DNA interactions [nucleotide binding]; other site 1104320002932 DNA binding site [nucleotide binding] 1104320002933 sequence specific DNA binding site [nucleotide binding]; other site 1104320002934 putative cAMP binding site [chemical binding]; other site 1104320002935 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 1104320002936 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1104320002937 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1104320002938 putative active site cavity [active] 1104320002939 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1104320002940 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104320002941 nucleotide binding site [chemical binding]; other site 1104320002942 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104320002943 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320002944 DNA-binding site [nucleotide binding]; DNA binding site 1104320002945 FCD domain; Region: FCD; pfam07729 1104320002946 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320002947 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 1104320002948 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104320002949 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002950 dimer interface [polypeptide binding]; other site 1104320002951 conserved gate region; other site 1104320002952 putative PBP binding loops; other site 1104320002953 ABC-ATPase subunit interface; other site 1104320002954 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104320002955 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320002956 dimer interface [polypeptide binding]; other site 1104320002957 conserved gate region; other site 1104320002958 putative PBP binding loops; other site 1104320002959 ABC-ATPase subunit interface; other site 1104320002960 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1104320002961 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1104320002962 inhibitor site; inhibition site 1104320002963 active site 1104320002964 dimer interface [polypeptide binding]; other site 1104320002965 catalytic residue [active] 1104320002966 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104320002967 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320002968 Walker A/P-loop; other site 1104320002969 ATP binding site [chemical binding]; other site 1104320002970 Q-loop/lid; other site 1104320002971 ABC transporter signature motif; other site 1104320002972 Walker B; other site 1104320002973 D-loop; other site 1104320002974 H-loop/switch region; other site 1104320002975 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104320002976 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1104320002977 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320002978 Walker A/P-loop; other site 1104320002979 ATP binding site [chemical binding]; other site 1104320002980 Q-loop/lid; other site 1104320002981 ABC transporter signature motif; other site 1104320002982 Walker B; other site 1104320002983 D-loop; other site 1104320002984 H-loop/switch region; other site 1104320002985 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104320002986 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320002987 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320002988 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320002989 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320002990 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1104320002991 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 1104320002992 NAD binding site [chemical binding]; other site 1104320002993 catalytic Zn binding site [ion binding]; other site 1104320002994 substrate binding site [chemical binding]; other site 1104320002995 structural Zn binding site [ion binding]; other site 1104320002996 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104320002997 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104320002998 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104320002999 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1104320003000 tetramerization interface [polypeptide binding]; other site 1104320003001 NAD(P) binding site [chemical binding]; other site 1104320003002 catalytic residues [active] 1104320003003 choline dehydrogenase; Validated; Region: PRK02106 1104320003004 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104320003005 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1104320003006 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1104320003007 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1104320003008 shikimate binding site; other site 1104320003009 NAD(P) binding site [chemical binding]; other site 1104320003010 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1104320003011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320003012 NAD(P) binding site [chemical binding]; other site 1104320003013 active site 1104320003014 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104320003015 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104320003016 Walker A/P-loop; other site 1104320003017 ATP binding site [chemical binding]; other site 1104320003018 Q-loop/lid; other site 1104320003019 ABC transporter signature motif; other site 1104320003020 Walker B; other site 1104320003021 D-loop; other site 1104320003022 H-loop/switch region; other site 1104320003023 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104320003024 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 1104320003025 TM-ABC transporter signature motif; other site 1104320003026 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104320003027 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104320003028 Walker A/P-loop; other site 1104320003029 ATP binding site [chemical binding]; other site 1104320003030 Q-loop/lid; other site 1104320003031 ABC transporter signature motif; other site 1104320003032 Walker B; other site 1104320003033 D-loop; other site 1104320003034 H-loop/switch region; other site 1104320003035 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320003036 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 1104320003037 TM-ABC transporter signature motif; other site 1104320003038 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104320003039 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104320003040 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1104320003041 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1104320003042 NAD(P) binding site [chemical binding]; other site 1104320003043 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104320003044 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320003045 DNA-binding site [nucleotide binding]; DNA binding site 1104320003046 FCD domain; Region: FCD; pfam07729 1104320003047 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1104320003048 Cytochrome P450; Region: p450; cl12078 1104320003049 acetate kinase; Provisional; Region: PRK07058 1104320003050 propionate/acetate kinase; Provisional; Region: PRK12379 1104320003051 putative phosphoketolase; Provisional; Region: PRK05261 1104320003052 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 1104320003053 TPP-binding site; other site 1104320003054 XFP C-terminal domain; Region: XFP_C; pfam09363 1104320003055 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1104320003056 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1104320003057 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1104320003058 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1104320003059 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 1104320003060 GMP synthase; Reviewed; Region: guaA; PRK00074 1104320003061 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1104320003062 AMP/PPi binding site [chemical binding]; other site 1104320003063 candidate oxyanion hole; other site 1104320003064 catalytic triad [active] 1104320003065 potential glutamine specificity residues [chemical binding]; other site 1104320003066 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 1104320003067 ATP Binding subdomain [chemical binding]; other site 1104320003068 Ligand Binding sites [chemical binding]; other site 1104320003069 Dimerization subdomain; other site 1104320003070 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 1104320003071 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 1104320003072 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 1104320003073 CoenzymeA binding site [chemical binding]; other site 1104320003074 subunit interaction site [polypeptide binding]; other site 1104320003075 PHB binding site; other site 1104320003076 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1104320003077 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1104320003078 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1104320003079 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1104320003080 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1104320003081 tetramer interface [polypeptide binding]; other site 1104320003082 heme binding pocket [chemical binding]; other site 1104320003083 NADPH binding site [chemical binding]; other site 1104320003084 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1104320003085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320003086 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 1104320003087 dimerization interface [polypeptide binding]; other site 1104320003088 Cytochrome c [Energy production and conversion]; Region: COG3258 1104320003089 Cytochrome c; Region: Cytochrom_C; pfam00034 1104320003090 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1104320003091 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1104320003092 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1104320003093 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1104320003094 active site 1104320003095 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1104320003096 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 1104320003097 putative ion selectivity filter; other site 1104320003098 putative pore gating glutamate residue; other site 1104320003099 putative H+/Cl- coupling transport residue; other site 1104320003100 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 1104320003101 putative active site pocket [active] 1104320003102 cleavage site 1104320003103 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1104320003104 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 1104320003105 active site 1104320003106 substrate binding site [chemical binding]; other site 1104320003107 metal binding site [ion binding]; metal-binding site 1104320003108 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1104320003109 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1104320003110 Substrate binding site; other site 1104320003111 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1104320003112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320003113 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1104320003114 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1104320003115 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1104320003116 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 1104320003117 acid-resistance protein; Provisional; Region: PRK10208 1104320003118 glutaminase; Reviewed; Region: PRK12356 1104320003119 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1104320003120 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1104320003121 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 1104320003122 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104320003123 catalytic residue [active] 1104320003124 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 1104320003125 Predicted membrane protein [Function unknown]; Region: COG4803 1104320003126 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104320003127 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320003128 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104320003129 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104320003130 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1104320003131 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104320003132 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003133 dimer interface [polypeptide binding]; other site 1104320003134 conserved gate region; other site 1104320003135 putative PBP binding loops; other site 1104320003136 ABC-ATPase subunit interface; other site 1104320003137 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003138 dimer interface [polypeptide binding]; other site 1104320003139 conserved gate region; other site 1104320003140 putative PBP binding loops; other site 1104320003141 ABC-ATPase subunit interface; other site 1104320003142 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104320003143 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1104320003144 Walker A/P-loop; other site 1104320003145 ATP binding site [chemical binding]; other site 1104320003146 Q-loop/lid; other site 1104320003147 ABC transporter signature motif; other site 1104320003148 Walker B; other site 1104320003149 D-loop; other site 1104320003150 H-loop/switch region; other site 1104320003151 TOBE domain; Region: TOBE_2; pfam08402 1104320003152 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1104320003153 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104320003154 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 1104320003155 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1104320003156 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1104320003157 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 1104320003158 Switch I; other site 1104320003159 Switch II; other site 1104320003160 septum formation inhibitor; Reviewed; Region: minC; PRK05177 1104320003161 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1104320003162 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1104320003163 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1104320003164 dimer interface [polypeptide binding]; other site 1104320003165 putative radical transfer pathway; other site 1104320003166 diiron center [ion binding]; other site 1104320003167 tyrosyl radical; other site 1104320003168 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1104320003169 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1104320003170 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1104320003171 active site 1104320003172 dimer interface [polypeptide binding]; other site 1104320003173 catalytic residues [active] 1104320003174 effector binding site; other site 1104320003175 R2 peptide binding site; other site 1104320003176 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1104320003177 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 1104320003178 catalytic residues [active] 1104320003179 Transmembrane secretion effector; Region: MFS_3; pfam05977 1104320003180 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 1104320003181 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 1104320003182 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320003183 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320003184 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104320003185 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 1104320003186 conserved cys residue [active] 1104320003187 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1104320003188 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104320003189 Walker A/P-loop; other site 1104320003190 ATP binding site [chemical binding]; other site 1104320003191 Q-loop/lid; other site 1104320003192 ABC transporter signature motif; other site 1104320003193 Walker B; other site 1104320003194 D-loop; other site 1104320003195 H-loop/switch region; other site 1104320003196 TOBE domain; Region: TOBE_2; pfam08402 1104320003197 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104320003198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003199 dimer interface [polypeptide binding]; other site 1104320003200 conserved gate region; other site 1104320003201 putative PBP binding loops; other site 1104320003202 ABC-ATPase subunit interface; other site 1104320003203 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104320003204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003205 dimer interface [polypeptide binding]; other site 1104320003206 conserved gate region; other site 1104320003207 putative PBP binding loops; other site 1104320003208 ABC-ATPase subunit interface; other site 1104320003209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003210 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104320003211 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104320003212 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104320003213 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104320003214 DNA binding site [nucleotide binding] 1104320003215 domain linker motif; other site 1104320003216 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 1104320003217 ligand binding site [chemical binding]; other site 1104320003218 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 1104320003219 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 1104320003220 ligand binding site [chemical binding]; other site 1104320003221 flexible hinge region; other site 1104320003222 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1104320003223 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1104320003224 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 1104320003225 putative substrate translocation pore; other site 1104320003226 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1104320003227 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1104320003228 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1104320003229 [4Fe-4S] binding site [ion binding]; other site 1104320003230 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 1104320003231 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 1104320003232 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 1104320003233 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1104320003234 molybdopterin cofactor binding site; other site 1104320003235 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1104320003236 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; cl00470 1104320003237 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1104320003238 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1104320003239 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1104320003240 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1104320003241 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 1104320003242 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1104320003243 Flavoprotein; Region: Flavoprotein; pfam02441 1104320003244 potential frameshift: common BLAST hit: gi|17989302|ref|NP_541935.1| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase 1104320003245 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1104320003246 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1104320003247 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1104320003248 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1104320003249 Peptidase family U32; Region: Peptidase_U32; pfam01136 1104320003250 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1104320003251 putative protease; Provisional; Region: PRK15447 1104320003252 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1104320003253 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1104320003254 Walker A/P-loop; other site 1104320003255 ATP binding site [chemical binding]; other site 1104320003256 Q-loop/lid; other site 1104320003257 ABC transporter signature motif; other site 1104320003258 Walker B; other site 1104320003259 D-loop; other site 1104320003260 H-loop/switch region; other site 1104320003261 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104320003262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003263 dimer interface [polypeptide binding]; other site 1104320003264 conserved gate region; other site 1104320003265 putative PBP binding loops; other site 1104320003266 ABC-ATPase subunit interface; other site 1104320003267 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1104320003268 NMT1-like family; Region: NMT1_2; pfam13379 1104320003269 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 1104320003270 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1104320003271 pseudoazurin; Region: pseudoazurin; TIGR02375 1104320003272 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104320003273 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 1104320003274 ligand binding site [chemical binding]; other site 1104320003275 flexible hinge region; other site 1104320003276 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 1104320003277 putative switch regulator; other site 1104320003278 non-specific DNA interactions [nucleotide binding]; other site 1104320003279 DNA binding site [nucleotide binding] 1104320003280 sequence specific DNA binding site [nucleotide binding]; other site 1104320003281 putative cAMP binding site [chemical binding]; other site 1104320003282 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1104320003283 ApbE family; Region: ApbE; pfam02424 1104320003284 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 1104320003285 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1104320003286 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104320003287 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104320003288 Walker A/P-loop; other site 1104320003289 ATP binding site [chemical binding]; other site 1104320003290 Q-loop/lid; other site 1104320003291 ABC transporter signature motif; other site 1104320003292 Walker B; other site 1104320003293 D-loop; other site 1104320003294 H-loop/switch region; other site 1104320003295 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1104320003296 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1104320003297 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1104320003298 nitrous-oxide reductase; Validated; Region: PRK02888 1104320003299 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1104320003300 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1104320003301 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1104320003302 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1104320003303 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1104320003304 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1104320003305 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1104320003306 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1104320003307 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1104320003308 RES domain; Region: RES; smart00953 1104320003309 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1104320003310 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 1104320003311 N- and C-terminal domain interface [polypeptide binding]; other site 1104320003312 active site 1104320003313 MgATP binding site [chemical binding]; other site 1104320003314 catalytic site [active] 1104320003315 metal binding site [ion binding]; metal-binding site 1104320003316 carbohydrate binding site [chemical binding]; other site 1104320003317 putative homodimer interface [polypeptide binding]; other site 1104320003318 short chain dehydrogenase; Provisional; Region: PRK08219 1104320003319 classical (c) SDRs; Region: SDR_c; cd05233 1104320003320 NAD(P) binding site [chemical binding]; other site 1104320003321 active site 1104320003322 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 1104320003323 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320003324 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 1104320003325 TM-ABC transporter signature motif; other site 1104320003326 potential frameshift: common BLAST hit: gi|340792019|ref|YP_004757483.1| galactoside transport ATB-binding protein 1104320003327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320003328 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1104320003329 Walker A/P-loop; other site 1104320003330 ATP binding site [chemical binding]; other site 1104320003331 Q-loop/lid; other site 1104320003332 ABC transporter signature motif; other site 1104320003333 Walker B; other site 1104320003334 D-loop; other site 1104320003335 H-loop/switch region; other site 1104320003336 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1104320003337 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 1104320003338 putative ligand binding site [chemical binding]; other site 1104320003339 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104320003340 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104320003341 DNA binding site [nucleotide binding] 1104320003342 domain linker motif; other site 1104320003343 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1104320003344 dimerization interface [polypeptide binding]; other site 1104320003345 ligand binding site [chemical binding]; other site 1104320003346 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 1104320003347 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104320003348 ligand binding site [chemical binding]; other site 1104320003349 flexible hinge region; other site 1104320003350 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 1104320003351 putative switch regulator; other site 1104320003352 non-specific DNA interactions [nucleotide binding]; other site 1104320003353 DNA binding site [nucleotide binding] 1104320003354 sequence specific DNA binding site [nucleotide binding]; other site 1104320003355 putative cAMP binding site [chemical binding]; other site 1104320003356 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1104320003357 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1104320003358 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1104320003359 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1104320003360 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1104320003361 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1104320003362 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1104320003363 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1104320003364 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1104320003365 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 1104320003366 CPxP motif; other site 1104320003367 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 1104320003368 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1104320003369 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 1104320003370 metal ion-dependent adhesion site (MIDAS); other site 1104320003371 MoxR-like ATPases [General function prediction only]; Region: COG0714 1104320003372 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 1104320003373 Walker A motif; other site 1104320003374 ATP binding site [chemical binding]; other site 1104320003375 Walker B motif; other site 1104320003376 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1104320003377 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1104320003378 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 1104320003379 Binuclear center (active site) [active] 1104320003380 K-pathway; other site 1104320003381 Putative proton exit pathway; other site 1104320003382 Cytochrome c; Region: Cytochrom_C; pfam00034 1104320003383 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1104320003384 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1104320003385 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1104320003386 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 1104320003387 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1104320003388 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1104320003389 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1104320003390 inhibitor site; inhibition site 1104320003391 active site 1104320003392 dimer interface [polypeptide binding]; other site 1104320003393 catalytic residue [active] 1104320003394 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104320003395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320003396 DNA-binding site [nucleotide binding]; DNA binding site 1104320003397 FCD domain; Region: FCD; pfam07729 1104320003398 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104320003399 EamA-like transporter family; Region: EamA; pfam00892 1104320003400 EamA-like transporter family; Region: EamA; cl17759 1104320003401 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1104320003402 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1104320003403 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104320003404 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104320003405 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104320003406 metal binding site [ion binding]; metal-binding site 1104320003407 active site 1104320003408 I-site; other site 1104320003409 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1104320003410 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 1104320003411 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104320003412 active site 1104320003413 catalytic site [active] 1104320003414 substrate binding site [chemical binding]; other site 1104320003415 potential frameshift: common BLAST hit: gi|161621055|ref|YP_001594941.1| amidase 1104320003416 Amidase; Region: Amidase; cl11426 1104320003417 Amidase; Region: Amidase; cl11426 1104320003418 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104320003419 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320003420 Walker A/P-loop; other site 1104320003421 ATP binding site [chemical binding]; other site 1104320003422 Q-loop/lid; other site 1104320003423 ABC transporter signature motif; other site 1104320003424 Walker B; other site 1104320003425 D-loop; other site 1104320003426 H-loop/switch region; other site 1104320003427 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104320003428 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104320003429 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320003430 Walker A/P-loop; other site 1104320003431 ATP binding site [chemical binding]; other site 1104320003432 Q-loop/lid; other site 1104320003433 ABC transporter signature motif; other site 1104320003434 Walker B; other site 1104320003435 D-loop; other site 1104320003436 H-loop/switch region; other site 1104320003437 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104320003438 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1104320003439 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003440 dimer interface [polypeptide binding]; other site 1104320003441 conserved gate region; other site 1104320003442 putative PBP binding loops; other site 1104320003443 ABC-ATPase subunit interface; other site 1104320003444 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104320003445 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003446 dimer interface [polypeptide binding]; other site 1104320003447 conserved gate region; other site 1104320003448 putative PBP binding loops; other site 1104320003449 ABC-ATPase subunit interface; other site 1104320003450 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320003451 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 1104320003452 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1104320003453 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1104320003454 putative NAD(P) binding site [chemical binding]; other site 1104320003455 active site 1104320003456 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104320003457 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1104320003458 NAD(P) binding site [chemical binding]; other site 1104320003459 catalytic residues [active] 1104320003460 catalytic residues [active] 1104320003461 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104320003462 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320003463 DNA-binding site [nucleotide binding]; DNA binding site 1104320003464 FCD domain; Region: FCD; pfam07729 1104320003465 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 1104320003466 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104320003467 putative substrate translocation pore; other site 1104320003468 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 1104320003469 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1104320003470 potential frameshift: common BLAST hit: gi|17988623|ref|NP_541256.1| translation initiation inhibitor 1104320003471 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 1104320003472 putative active site [active] 1104320003473 homotrimer interaction site [polypeptide binding]; other site 1104320003474 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 1104320003475 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1104320003476 ribonuclease P; Reviewed; Region: rnpA; PRK01313 1104320003477 membrane protein insertase; Provisional; Region: PRK01318 1104320003478 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1104320003479 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1104320003480 G1 box; other site 1104320003481 GTP/Mg2+ binding site [chemical binding]; other site 1104320003482 Switch I region; other site 1104320003483 G2 box; other site 1104320003484 G3 box; other site 1104320003485 Switch II region; other site 1104320003486 G4 box; other site 1104320003487 G5 box; other site 1104320003488 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 1104320003489 homohexameric interface [polypeptide binding]; other site 1104320003490 feedback inhibition sensing region; other site 1104320003491 nucleotide binding site [chemical binding]; other site 1104320003492 N-acetyl-L-glutamate binding site [chemical binding]; other site 1104320003493 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1104320003494 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1104320003495 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1104320003496 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1104320003497 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 1104320003498 trimer interface [polypeptide binding]; other site 1104320003499 active site 1104320003500 substrate binding site [chemical binding]; other site 1104320003501 CoA binding site [chemical binding]; other site 1104320003502 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1104320003503 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1104320003504 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1104320003505 metal binding site [ion binding]; metal-binding site 1104320003506 dimer interface [polypeptide binding]; other site 1104320003507 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1104320003508 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1104320003509 dimerization interface 3.5A [polypeptide binding]; other site 1104320003510 active site 1104320003511 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1104320003512 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1104320003513 putative active site [active] 1104320003514 substrate binding site [chemical binding]; other site 1104320003515 putative cosubstrate binding site; other site 1104320003516 catalytic site [active] 1104320003517 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1104320003518 substrate binding site [chemical binding]; other site 1104320003519 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 1104320003520 active site 1104320003521 catalytic residues [active] 1104320003522 metal binding site [ion binding]; metal-binding site 1104320003523 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1104320003524 RmuC family; Region: RmuC; pfam02646 1104320003525 Rdx family; Region: Rdx; cl01407 1104320003526 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1104320003527 catalytic site [active] 1104320003528 metal binding site [ion binding]; metal-binding site 1104320003529 GTP-binding protein LepA; Provisional; Region: PRK05433 1104320003530 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1104320003531 G1 box; other site 1104320003532 putative GEF interaction site [polypeptide binding]; other site 1104320003533 GTP/Mg2+ binding site [chemical binding]; other site 1104320003534 Switch I region; other site 1104320003535 G2 box; other site 1104320003536 G3 box; other site 1104320003537 Switch II region; other site 1104320003538 G4 box; other site 1104320003539 G5 box; other site 1104320003540 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 1104320003541 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 1104320003542 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1104320003543 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1104320003544 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1104320003545 putative NAD(P) binding site [chemical binding]; other site 1104320003546 active site 1104320003547 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 1104320003548 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104320003549 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 1104320003550 C-terminal domain interface [polypeptide binding]; other site 1104320003551 GSH binding site (G-site) [chemical binding]; other site 1104320003552 dimer interface [polypeptide binding]; other site 1104320003553 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1104320003554 N-terminal domain interface [polypeptide binding]; other site 1104320003555 dimer interface [polypeptide binding]; other site 1104320003556 substrate binding pocket (H-site) [chemical binding]; other site 1104320003557 epoxyqueuosine reductase; Region: TIGR00276 1104320003558 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1104320003559 HEAT repeat; Region: HEAT; pfam02985 1104320003560 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104320003561 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1104320003562 putative NAD(P) binding site [chemical binding]; other site 1104320003563 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1104320003564 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1104320003565 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 1104320003566 active site 1104320003567 dimer interfaces [polypeptide binding]; other site 1104320003568 catalytic residues [active] 1104320003569 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 1104320003570 glucokinase, proteobacterial type; Region: glk; TIGR00749 1104320003571 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104320003572 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104320003573 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1104320003574 Walker A/P-loop; other site 1104320003575 ATP binding site [chemical binding]; other site 1104320003576 Q-loop/lid; other site 1104320003577 ABC transporter signature motif; other site 1104320003578 Walker B; other site 1104320003579 D-loop; other site 1104320003580 H-loop/switch region; other site 1104320003581 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1104320003582 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1104320003583 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1104320003584 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 1104320003585 catalytic core [active] 1104320003586 Amidohydrolase family; Region: Amidohydro_3; pfam07969 1104320003587 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1104320003588 active site 1104320003589 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 1104320003590 putative FMN binding site [chemical binding]; other site 1104320003591 Predicted membrane protein [Function unknown]; Region: COG3714 1104320003592 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1104320003593 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1104320003594 NAD(P) binding site [chemical binding]; other site 1104320003595 catalytic residues [active] 1104320003596 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1104320003597 putative catalytic site [active] 1104320003598 putative metal binding site [ion binding]; other site 1104320003599 putative phosphate binding site [ion binding]; other site 1104320003600 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1104320003601 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1104320003602 putative active site [active] 1104320003603 catalytic site [active] 1104320003604 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1104320003605 putative active site [active] 1104320003606 catalytic site [active] 1104320003607 potential frameshift: common BLAST hit: gi|340792823|ref|YP_004758287.1| HdeD protein 1104320003608 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1104320003609 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1104320003610 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1104320003611 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1104320003612 G1 box; other site 1104320003613 putative GEF interaction site [polypeptide binding]; other site 1104320003614 GTP/Mg2+ binding site [chemical binding]; other site 1104320003615 Switch I region; other site 1104320003616 G2 box; other site 1104320003617 G3 box; other site 1104320003618 Switch II region; other site 1104320003619 G4 box; other site 1104320003620 G5 box; other site 1104320003621 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 1104320003622 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1104320003623 Flavoprotein; Region: Flavoprotein; pfam02441 1104320003624 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1104320003625 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1104320003626 ABC1 family; Region: ABC1; pfam03109 1104320003627 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 1104320003628 active site 1104320003629 ATP binding site [chemical binding]; other site 1104320003630 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1104320003631 substrate binding site [chemical binding]; other site 1104320003632 activation loop (A-loop); other site 1104320003633 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1104320003634 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 1104320003635 S-adenosylmethionine binding site [chemical binding]; other site 1104320003636 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104320003637 active site 1104320003638 hypothetical protein; Provisional; Region: PRK00736 1104320003639 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1104320003640 putative transposase OrfB; Reviewed; Region: PHA02517 1104320003641 HTH-like domain; Region: HTH_21; pfam13276 1104320003642 Integrase core domain; Region: rve; pfam00665 1104320003643 Integrase core domain; Region: rve_3; pfam13683 1104320003644 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1104320003645 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1104320003646 catalytic residues [active] 1104320003647 catalytic nucleophile [active] 1104320003648 Presynaptic Site I dimer interface [polypeptide binding]; other site 1104320003649 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1104320003650 Synaptic Flat tetramer interface [polypeptide binding]; other site 1104320003651 Synaptic Site I dimer interface [polypeptide binding]; other site 1104320003652 DNA binding site [nucleotide binding] 1104320003653 BRO family, N-terminal domain; Region: Bro-N; smart01040 1104320003654 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104320003655 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 1104320003656 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 1104320003657 active site 1104320003658 DNA binding site [nucleotide binding] 1104320003659 Int/Topo IB signature motif; other site 1104320003660 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1104320003661 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 1104320003662 hinge; other site 1104320003663 active site 1104320003664 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 1104320003665 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1104320003666 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 1104320003667 NAD binding site [chemical binding]; other site 1104320003668 dimerization interface [polypeptide binding]; other site 1104320003669 product binding site; other site 1104320003670 substrate binding site [chemical binding]; other site 1104320003671 zinc binding site [ion binding]; other site 1104320003672 catalytic residues [active] 1104320003673 hypothetical protein; Provisional; Region: PRK02853 1104320003674 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1104320003675 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1104320003676 active site 1104320003677 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 1104320003678 rRNA binding site [nucleotide binding]; other site 1104320003679 predicted 30S ribosome binding site; other site 1104320003680 Maf-like protein; Region: Maf; pfam02545 1104320003681 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 1104320003682 active site 1104320003683 dimer interface [polypeptide binding]; other site 1104320003684 zinc-binding protein; Provisional; Region: PRK01343 1104320003685 TIR domain; Region: TIR_2; pfam13676 1104320003686 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1104320003687 non-specific DNA binding site [nucleotide binding]; other site 1104320003688 salt bridge; other site 1104320003689 sequence-specific DNA binding site [nucleotide binding]; other site 1104320003690 potential frameshift: common BLAST hit: gi|225851786|ref|YP_002732019.1| elastin 1104320003691 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1104320003692 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1104320003693 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1104320003694 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1104320003695 Toprim domain; Region: Toprim_3; pfam13362 1104320003696 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1104320003697 integrase; Provisional; Region: PRK09692 1104320003698 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1104320003699 active site 1104320003700 Int/Topo IB signature motif; other site 1104320003701 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1104320003702 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 1104320003703 putative active site pocket [active] 1104320003704 metal binding site [ion binding]; metal-binding site 1104320003705 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 1104320003706 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1104320003707 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1104320003708 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1104320003709 NAD binding site [chemical binding]; other site 1104320003710 homotetramer interface [polypeptide binding]; other site 1104320003711 homodimer interface [polypeptide binding]; other site 1104320003712 active site 1104320003713 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320003714 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320003715 Uncharacterized conserved protein [Function unknown]; Region: COG3254 1104320003716 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1104320003717 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 1104320003718 active site pocket [active] 1104320003719 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1104320003720 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104320003721 Walker A/P-loop; other site 1104320003722 ATP binding site [chemical binding]; other site 1104320003723 Q-loop/lid; other site 1104320003724 ABC transporter signature motif; other site 1104320003725 Walker B; other site 1104320003726 D-loop; other site 1104320003727 H-loop/switch region; other site 1104320003728 TOBE domain; Region: TOBE_2; pfam08402 1104320003729 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104320003730 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003731 dimer interface [polypeptide binding]; other site 1104320003732 conserved gate region; other site 1104320003733 putative PBP binding loops; other site 1104320003734 ABC-ATPase subunit interface; other site 1104320003735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003736 dimer interface [polypeptide binding]; other site 1104320003737 conserved gate region; other site 1104320003738 putative PBP binding loops; other site 1104320003739 ABC-ATPase subunit interface; other site 1104320003740 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104320003741 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104320003742 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104320003743 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1104320003744 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104320003745 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1104320003746 Amidohydrolase; Region: Amidohydro_2; pfam04909 1104320003747 active site 1104320003748 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1104320003749 potential frameshift: common BLAST hit: gi|23501138|ref|NP_697265.1| sarcosine oxidase subunit alpha 1104320003750 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1104320003751 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1104320003752 potential frameshift: common BLAST hit: gi|17988003|ref|NP_540637.1| sarcosine oxidase alpha subunit 1104320003753 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1104320003754 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1104320003755 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1104320003756 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1104320003757 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104320003758 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1104320003759 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1104320003760 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1104320003761 NAD(P) binding site [chemical binding]; other site 1104320003762 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 1104320003763 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1104320003764 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003765 dimer interface [polypeptide binding]; other site 1104320003766 conserved gate region; other site 1104320003767 ABC-ATPase subunit interface; other site 1104320003768 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1104320003769 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1104320003770 Walker A/P-loop; other site 1104320003771 ATP binding site [chemical binding]; other site 1104320003772 Q-loop/lid; other site 1104320003773 ABC transporter signature motif; other site 1104320003774 Walker B; other site 1104320003775 D-loop; other site 1104320003776 H-loop/switch region; other site 1104320003777 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 1104320003778 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003779 dimer interface [polypeptide binding]; other site 1104320003780 conserved gate region; other site 1104320003781 putative PBP binding loops; other site 1104320003782 ABC-ATPase subunit interface; other site 1104320003783 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1104320003784 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1104320003785 DNA binding residues [nucleotide binding] 1104320003786 dimer interface [polypeptide binding]; other site 1104320003787 copper binding site [ion binding]; other site 1104320003788 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 1104320003789 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104320003790 metal-binding site [ion binding] 1104320003791 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104320003792 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 1104320003793 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1104320003794 putative active site [active] 1104320003795 heme pocket [chemical binding]; other site 1104320003796 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 1104320003797 putative active site [active] 1104320003798 heme pocket [chemical binding]; other site 1104320003799 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104320003800 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104320003801 metal binding site [ion binding]; metal-binding site 1104320003802 active site 1104320003803 I-site; other site 1104320003804 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 1104320003805 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 1104320003806 dimer interface [polypeptide binding]; other site 1104320003807 substrate binding site [chemical binding]; other site 1104320003808 ATP binding site [chemical binding]; other site 1104320003809 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104320003810 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1104320003811 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1104320003812 thiS-thiF/thiG interaction site; other site 1104320003813 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1104320003814 ThiS interaction site; other site 1104320003815 putative active site [active] 1104320003816 tetramer interface [polypeptide binding]; other site 1104320003817 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 1104320003818 active site 1104320003819 thiamine phosphate binding site [chemical binding]; other site 1104320003820 pyrophosphate binding site [ion binding]; other site 1104320003821 NMT1/THI5 like; Region: NMT1; pfam09084 1104320003822 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; cl17432 1104320003823 Putative transcription activator [Transcription]; Region: TenA; COG0819 1104320003824 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104320003825 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320003826 dimer interface [polypeptide binding]; other site 1104320003827 conserved gate region; other site 1104320003828 putative PBP binding loops; other site 1104320003829 ABC-ATPase subunit interface; other site 1104320003830 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1104320003831 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104320003832 NAD(P) binding site [chemical binding]; other site 1104320003833 catalytic residues [active] 1104320003834 potential frameshift: common BLAST hit: gi|340789826|ref|YP_004755290.1| ABC transporter HlyB/MsbA family 1104320003835 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104320003836 potential frameshift: common BLAST hit: gi|256368668|ref|YP_003106174.1| ABC transporter, HlyB/MsbA family 1104320003837 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104320003838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320003839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320003840 ABC transporter; Region: ABC_tran; pfam00005 1104320003841 Q-loop/lid; other site 1104320003842 ABC transporter signature motif; other site 1104320003843 Walker B; other site 1104320003844 D-loop; other site 1104320003845 H-loop/switch region; other site 1104320003846 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104320003847 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104320003848 DNA binding site [nucleotide binding] 1104320003849 domain linker motif; other site 1104320003850 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1104320003851 putative dimerization interface [polypeptide binding]; other site 1104320003852 putative ligand binding site [chemical binding]; other site 1104320003853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 1104320003854 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1104320003855 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1104320003856 NAD binding site [chemical binding]; other site 1104320003857 substrate binding site [chemical binding]; other site 1104320003858 catalytic Zn binding site [ion binding]; other site 1104320003859 tetramer interface [polypeptide binding]; other site 1104320003860 structural Zn binding site [ion binding]; other site 1104320003861 potential frameshift: common BLAST hit: gi|256368664|ref|YP_003106170.1| aldehyde dehydrogenase family protein 1104320003862 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1104320003863 catalytic residues [active] 1104320003864 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1104320003865 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1104320003866 GAF domain; Region: GAF; pfam01590 1104320003867 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1104320003868 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1104320003869 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104320003870 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1104320003871 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104320003872 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104320003873 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; cl17736 1104320003874 active site 1104320003875 dimerization interface [polypeptide binding]; other site 1104320003876 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 1104320003877 DNA binding residues [nucleotide binding] 1104320003878 dimerization interface [polypeptide binding]; other site 1104320003879 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104320003880 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 1104320003881 ligand binding site [chemical binding]; other site 1104320003882 flexible hinge region; other site 1104320003883 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 1104320003884 putative switch regulator; other site 1104320003885 non-specific DNA interactions [nucleotide binding]; other site 1104320003886 DNA binding site [nucleotide binding] 1104320003887 sequence specific DNA binding site [nucleotide binding]; other site 1104320003888 putative cAMP binding site [chemical binding]; other site 1104320003889 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1104320003890 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104320003891 active site 1104320003892 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1104320003893 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1104320003894 CysD dimerization site [polypeptide binding]; other site 1104320003895 G1 box; other site 1104320003896 putative GEF interaction site [polypeptide binding]; other site 1104320003897 GTP/Mg2+ binding site [chemical binding]; other site 1104320003898 Switch I region; other site 1104320003899 G2 box; other site 1104320003900 G3 box; other site 1104320003901 Switch II region; other site 1104320003902 G4 box; other site 1104320003903 G5 box; other site 1104320003904 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 1104320003905 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 1104320003906 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1104320003907 ligand-binding site [chemical binding]; other site 1104320003908 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1104320003909 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 1104320003910 Active Sites [active] 1104320003911 aminotransferase; Provisional; Region: PRK06105 1104320003912 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 1104320003913 inhibitor-cofactor binding pocket; inhibition site 1104320003914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320003915 catalytic residue [active] 1104320003916 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1104320003917 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 1104320003918 DNA binding residues [nucleotide binding] 1104320003919 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1104320003920 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1104320003921 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 1104320003922 substrate binding pocket [chemical binding]; other site 1104320003923 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 1104320003924 B12 binding site [chemical binding]; other site 1104320003925 cobalt ligand [ion binding]; other site 1104320003926 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1104320003927 BA14K-like protein; Region: BA14K; pfam07886 1104320003928 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1104320003929 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 1104320003930 active site 1104320003931 DNA binding site [nucleotide binding] 1104320003932 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1104320003933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1104320003934 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1104320003935 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 1104320003936 Active Sites [active] 1104320003937 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1104320003938 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1104320003939 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1104320003940 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 1104320003941 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1104320003942 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1104320003943 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1104320003944 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1104320003945 active site 1104320003946 SAM binding site [chemical binding]; other site 1104320003947 homodimer interface [polypeptide binding]; other site 1104320003948 hypothetical protein; Reviewed; Region: PRK12497 1104320003949 Predicted methyltransferases [General function prediction only]; Region: COG0313 1104320003950 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1104320003951 putative SAM binding site [chemical binding]; other site 1104320003952 putative homodimer interface [polypeptide binding]; other site 1104320003953 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1104320003954 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 1104320003955 FeS/SAM binding site; other site 1104320003956 HemN C-terminal domain; Region: HemN_C; pfam06969 1104320003957 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 1104320003958 active site 1104320003959 dimerization interface [polypeptide binding]; other site 1104320003960 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 1104320003961 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 1104320003962 ribonuclease PH; Reviewed; Region: rph; PRK00173 1104320003963 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1104320003964 hexamer interface [polypeptide binding]; other site 1104320003965 active site 1104320003966 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1104320003967 heat shock protein GrpE; Provisional; Region: PRK14141 1104320003968 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 1104320003969 dimer interface [polypeptide binding]; other site 1104320003970 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1104320003971 UPF0126 domain; Region: UPF0126; pfam03458 1104320003972 Predicted membrane protein [Function unknown]; Region: COG2860 1104320003973 UPF0126 domain; Region: UPF0126; pfam03458 1104320003974 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...; Region: adenosine_kinase; cd01168 1104320003975 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104320003976 substrate binding site [chemical binding]; other site 1104320003977 ATP binding site [chemical binding]; other site 1104320003978 CysZ-like protein; Reviewed; Region: PRK12768 1104320003979 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1104320003980 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104320003981 minor groove reading motif; other site 1104320003982 helix-hairpin-helix signature motif; other site 1104320003983 substrate binding pocket [chemical binding]; other site 1104320003984 active site 1104320003985 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1104320003986 Integral membrane protein [Function unknown]; Region: COG5488 1104320003987 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1104320003988 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 1104320003989 putative dimer interface [polypeptide binding]; other site 1104320003990 Uncharacterized small protein [Function unknown]; Region: COG5568 1104320003991 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 1104320003992 active site 1104320003993 phosphorylation site [posttranslational modification] 1104320003994 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1104320003995 30S subunit binding site; other site 1104320003996 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1104320003997 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1104320003998 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1104320003999 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1104320004000 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1104320004001 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1104320004002 Walker A/P-loop; other site 1104320004003 ATP binding site [chemical binding]; other site 1104320004004 Q-loop/lid; other site 1104320004005 ABC transporter signature motif; other site 1104320004006 Walker B; other site 1104320004007 D-loop; other site 1104320004008 H-loop/switch region; other site 1104320004009 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1104320004010 OstA-like protein; Region: OstA; pfam03968 1104320004011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1104320004012 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1104320004013 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1104320004014 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1104320004015 tandem repeat interface [polypeptide binding]; other site 1104320004016 oligomer interface [polypeptide binding]; other site 1104320004017 active site residues [active] 1104320004018 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 1104320004019 IHF dimer interface [polypeptide binding]; other site 1104320004020 IHF - DNA interface [nucleotide binding]; other site 1104320004021 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1104320004022 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 1104320004023 S-adenosylmethionine binding site [chemical binding]; other site 1104320004024 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1104320004025 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1104320004026 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104320004027 lipoprotein signal peptidase; Provisional; Region: PRK14795 1104320004028 lipoprotein signal peptidase; Provisional; Region: PRK14787 1104320004029 Putative hemolysin [General function prediction only]; Region: COG3176 1104320004030 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1104320004031 MutS domain I; Region: MutS_I; pfam01624 1104320004032 MutS domain II; Region: MutS_II; pfam05188 1104320004033 MutS domain III; Region: MutS_III; pfam05192 1104320004034 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1104320004035 Walker A/P-loop; other site 1104320004036 ATP binding site [chemical binding]; other site 1104320004037 Q-loop/lid; other site 1104320004038 ABC transporter signature motif; other site 1104320004039 Walker B; other site 1104320004040 D-loop; other site 1104320004041 H-loop/switch region; other site 1104320004042 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1104320004043 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1104320004044 putative NAD(P) binding site [chemical binding]; other site 1104320004045 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1104320004046 PII uridylyl-transferase; Provisional; Region: PRK05092 1104320004047 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1104320004048 metal binding triad; other site 1104320004049 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1104320004050 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104320004051 Zn2+ binding site [ion binding]; other site 1104320004052 Mg2+ binding site [ion binding]; other site 1104320004053 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 1104320004054 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 1104320004055 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1104320004056 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1104320004057 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1104320004058 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1104320004059 active site 1104320004060 HIGH motif; other site 1104320004061 dimer interface [polypeptide binding]; other site 1104320004062 KMSKS motif; other site 1104320004063 Universal stress protein family; Region: Usp; pfam00582 1104320004064 Ligand Binding Site [chemical binding]; other site 1104320004065 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1104320004066 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1104320004067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104320004068 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104320004069 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 1104320004070 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1104320004071 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 1104320004072 active site 1104320004073 phosphorylation site [posttranslational modification] 1104320004074 intermolecular recognition site; other site 1104320004075 dimerization interface [polypeptide binding]; other site 1104320004076 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1104320004077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1104320004078 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104320004079 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104320004080 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320004081 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 1104320004082 ATP binding site [chemical binding]; other site 1104320004083 Mg2+ binding site [ion binding]; other site 1104320004084 G-X-G motif; other site 1104320004085 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1104320004086 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 1104320004087 ATP binding site [chemical binding]; other site 1104320004088 putative Mg++ binding site [ion binding]; other site 1104320004089 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 1104320004090 nucleotide binding region [chemical binding]; other site 1104320004091 ATP-binding site [chemical binding]; other site 1104320004092 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1104320004093 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1104320004094 putative homodimer interface [polypeptide binding]; other site 1104320004095 putative homotetramer interface [polypeptide binding]; other site 1104320004096 putative metal binding site [ion binding]; other site 1104320004097 putative homodimer-homodimer interface [polypeptide binding]; other site 1104320004098 putative allosteric switch controlling residues; other site 1104320004099 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1104320004100 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1104320004101 substrate binding site [chemical binding]; other site 1104320004102 catalytic Zn binding site [ion binding]; other site 1104320004103 NAD binding site [chemical binding]; other site 1104320004104 structural Zn binding site [ion binding]; other site 1104320004105 dimer interface [polypeptide binding]; other site 1104320004106 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1104320004107 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104320004108 Coenzyme A binding pocket [chemical binding]; other site 1104320004109 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 1104320004110 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 1104320004111 S-formylglutathione hydrolase; Region: PLN02442 1104320004112 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1104320004113 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1104320004114 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 1104320004115 Mg2+ binding site [ion binding]; other site 1104320004116 G-X-G motif; other site 1104320004117 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 1104320004118 anchoring element; other site 1104320004119 dimer interface [polypeptide binding]; other site 1104320004120 ATP binding site [chemical binding]; other site 1104320004121 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 1104320004122 active site 1104320004123 putative metal-binding site [ion binding]; other site 1104320004124 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1104320004125 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1104320004126 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1104320004127 putative Mg++ binding site [ion binding]; other site 1104320004128 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 1104320004129 nucleotide binding region [chemical binding]; other site 1104320004130 ATP-binding site [chemical binding]; other site 1104320004131 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1104320004132 RNA binding site [nucleotide binding]; other site 1104320004133 DNA polymerase I; Region: pola; TIGR00593 1104320004134 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1104320004135 active site 1104320004136 metal binding site 1 [ion binding]; metal-binding site 1104320004137 putative 5' ssDNA interaction site; other site 1104320004138 metal binding site 3; metal-binding site 1104320004139 metal binding site 2 [ion binding]; metal-binding site 1104320004140 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1104320004141 putative DNA binding site [nucleotide binding]; other site 1104320004142 putative metal binding site [ion binding]; other site 1104320004143 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 1104320004144 active site 1104320004145 catalytic site [active] 1104320004146 substrate binding site [chemical binding]; other site 1104320004147 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1104320004148 active site 1104320004149 DNA binding site [nucleotide binding] 1104320004150 catalytic site [active] 1104320004151 hypothetical protein; Validated; Region: PRK09104 1104320004152 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1104320004153 metal binding site [ion binding]; metal-binding site 1104320004154 putative dimer interface [polypeptide binding]; other site 1104320004155 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1104320004156 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1104320004157 catalytic site [active] 1104320004158 putative active site [active] 1104320004159 putative substrate binding site [chemical binding]; other site 1104320004160 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104320004161 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104320004162 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1104320004163 Transglycosylase; Region: Transgly; pfam00912 1104320004164 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104320004165 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1104320004166 classical (c) SDRs; Region: SDR_c; cd05233 1104320004167 NAD(P) binding site [chemical binding]; other site 1104320004168 active site 1104320004169 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104320004170 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 1104320004171 putative substrate binding site [chemical binding]; other site 1104320004172 putative ATP binding site [chemical binding]; other site 1104320004173 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 1104320004174 S-adenosylmethionine binding site [chemical binding]; other site 1104320004175 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1104320004176 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 1104320004177 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 1104320004178 active site 1104320004179 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1104320004180 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1104320004181 Putative glucoamylase; Region: Glycoamylase; pfam10091 1104320004182 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1104320004183 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1104320004184 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1104320004185 Protein of unknown function, DUF608; Region: DUF608; pfam04685 1104320004186 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1104320004187 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1104320004188 Walker A/P-loop; other site 1104320004189 ATP binding site [chemical binding]; other site 1104320004190 Q-loop/lid; other site 1104320004191 ABC transporter signature motif; other site 1104320004192 Walker B; other site 1104320004193 D-loop; other site 1104320004194 H-loop/switch region; other site 1104320004195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320004196 dimer interface [polypeptide binding]; other site 1104320004197 conserved gate region; other site 1104320004198 putative PBP binding loops; other site 1104320004199 ABC-ATPase subunit interface; other site 1104320004200 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1104320004201 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320004202 dimer interface [polypeptide binding]; other site 1104320004203 conserved gate region; other site 1104320004204 putative PBP binding loops; other site 1104320004205 ABC-ATPase subunit interface; other site 1104320004206 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1104320004207 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1104320004208 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104320004209 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 1104320004210 putative active site [active] 1104320004211 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 1104320004212 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104320004213 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104320004214 active site 1104320004215 metal binding site [ion binding]; metal-binding site 1104320004216 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104320004217 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320004218 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; cl17736 1104320004219 active site 1104320004220 phosphorylation site [posttranslational modification] 1104320004221 intermolecular recognition site; other site 1104320004222 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; cl02542 1104320004223 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1104320004224 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1104320004225 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 1104320004226 catalytic residues [active] 1104320004227 central insert; other site 1104320004228 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 1104320004229 heme exporter protein CcmC; Region: ccmC; TIGR01191 1104320004230 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 1104320004231 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1104320004232 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1104320004233 Walker A/P-loop; other site 1104320004234 ATP binding site [chemical binding]; other site 1104320004235 Q-loop/lid; other site 1104320004236 ABC transporter signature motif; other site 1104320004237 Walker B; other site 1104320004238 D-loop; other site 1104320004239 H-loop/switch region; other site 1104320004240 aconitate hydratase; Validated; Region: PRK09277 1104320004241 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1104320004242 substrate binding site [chemical binding]; other site 1104320004243 ligand binding site [chemical binding]; other site 1104320004244 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 1104320004245 substrate binding site [chemical binding]; other site 1104320004246 Uncharacterized secreted protein [Function unknown]; Region: COG5429 1104320004247 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 1104320004248 potential frameshift: common BLAST hit: gi|340789717|ref|YP_004755181.1| phosphinothricin N-acetyltransferase 1104320004249 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1104320004250 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1104320004251 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1104320004252 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1104320004253 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1104320004254 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1104320004255 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104320004256 Walker A/P-loop; other site 1104320004257 ATP binding site [chemical binding]; other site 1104320004258 Q-loop/lid; other site 1104320004259 ABC transporter signature motif; other site 1104320004260 Walker B; other site 1104320004261 D-loop; other site 1104320004262 H-loop/switch region; other site 1104320004263 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 1104320004264 active site 1104320004265 catalytic triad [active] 1104320004266 oxyanion hole [active] 1104320004267 switch loop; other site 1104320004268 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1104320004269 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1104320004270 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1104320004271 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 1104320004272 aromatic arch; other site 1104320004273 DCoH dimer interaction site [polypeptide binding]; other site 1104320004274 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1104320004275 DCoH tetramer interaction site [polypeptide binding]; other site 1104320004276 substrate binding site [chemical binding]; other site 1104320004277 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1104320004278 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1104320004279 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1104320004280 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 1104320004281 FeS/SAM binding site; other site 1104320004282 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1104320004283 argininosuccinate synthase; Provisional; Region: PRK13820 1104320004284 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 1104320004285 ANP binding site [chemical binding]; other site 1104320004286 Substrate Binding Site II [chemical binding]; other site 1104320004287 Substrate Binding Site I [chemical binding]; other site 1104320004288 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1104320004289 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1104320004290 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1104320004291 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1104320004292 trimer interface [polypeptide binding]; other site 1104320004293 Haemagglutinin; Region: HIM; pfam05662 1104320004294 YadA-like C-terminal region; Region: YadA; pfam03895 1104320004295 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1104320004296 DNA Polymerase Y-family; Region: PolY_like; cd03468 1104320004297 active site 1104320004298 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1104320004299 DNA binding site [nucleotide binding] 1104320004300 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1104320004301 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1104320004302 putative active site [active] 1104320004303 putative PHP Thumb interface [polypeptide binding]; other site 1104320004304 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 1104320004305 generic binding surface II; other site 1104320004306 generic binding surface I; other site 1104320004307 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1104320004308 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104320004309 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104320004310 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104320004311 catalytic residue [active] 1104320004312 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 1104320004313 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1104320004314 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 1104320004315 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1104320004316 active site 1104320004317 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1104320004318 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104320004319 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320004320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320004321 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 1104320004322 putative effector binding pocket; other site 1104320004323 putative dimerization interface [polypeptide binding]; other site 1104320004324 phosphoglucomutase; Region: PLN02307 1104320004325 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 1104320004326 substrate binding site [chemical binding]; other site 1104320004327 dimer interface [polypeptide binding]; other site 1104320004328 active site 1104320004329 metal binding site [ion binding]; metal-binding site 1104320004330 Domain of unknown function DUF59; Region: DUF59; pfam01883 1104320004331 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 1104320004332 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 1104320004333 Walker A motif; other site 1104320004334 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104320004335 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1104320004336 dimer interface [polypeptide binding]; other site 1104320004337 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320004338 active site 1104320004339 metal binding site [ion binding]; metal-binding site 1104320004340 glutathione binding site [chemical binding]; other site 1104320004341 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1104320004342 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1104320004343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104320004344 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104320004345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1104320004346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1104320004347 Family of unknown function (DUF490); Region: DUF490; pfam04357 1104320004348 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1104320004349 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104320004350 Surface antigen; Region: Bac_surface_Ag; pfam01103 1104320004351 Bacterial SH3 domain; Region: SH3_3; pfam08239 1104320004352 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 1104320004353 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 1104320004354 Subunit I/III interface [polypeptide binding]; other site 1104320004355 Subunit III/IV interface [polypeptide binding]; other site 1104320004356 potential frameshift: common BLAST hit: gi|17988183|ref|NP_540817.1| cytochrome O ubiquinol oxidase subunit I 1104320004357 cytochrome o ubiquinol oxidase, subunit I; Region: CyoB; TIGR02843 1104320004358 cytochrome o ubiquinol oxidase, subunit I; Region: CyoB; TIGR02843 1104320004359 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1104320004360 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1104320004361 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1104320004362 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1104320004363 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1104320004364 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 1104320004365 putative MPT binding site; other site 1104320004366 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1104320004367 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1104320004368 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1104320004369 Ligand binding site; other site 1104320004370 oligomer interface; other site 1104320004371 prephenate dehydratase; Provisional; Region: PRK11899 1104320004372 Prephenate dehydratase; Region: PDT; pfam00800 1104320004373 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 1104320004374 putative L-Phe binding site [chemical binding]; other site 1104320004375 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1104320004376 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1104320004377 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1104320004378 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 1104320004379 putative NADH binding site [chemical binding]; other site 1104320004380 putative active site [active] 1104320004381 nudix motif; other site 1104320004382 putative metal binding site [ion binding]; other site 1104320004383 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1104320004384 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1104320004385 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 1104320004386 Walker A motif; other site 1104320004387 ATP binding site [chemical binding]; other site 1104320004388 Walker B motif; other site 1104320004389 arginine finger; other site 1104320004390 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1104320004391 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1104320004392 hypothetical protein; Validated; Region: PRK00153 1104320004393 recombination protein RecR; Reviewed; Region: recR; PRK00076 1104320004394 RecR protein; Region: RecR; pfam02132 1104320004395 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 1104320004396 putative active site [active] 1104320004397 putative metal-binding site [ion binding]; other site 1104320004398 tetramer interface [polypeptide binding]; other site 1104320004399 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1104320004400 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104320004401 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104320004402 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1104320004403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320004404 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 1104320004405 putative dimerization interface [polypeptide binding]; other site 1104320004406 Predicted membrane protein [Function unknown]; Region: COG2855 1104320004407 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1104320004408 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1104320004409 RNA binding site [nucleotide binding]; other site 1104320004410 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1104320004411 RNA binding site [nucleotide binding]; other site 1104320004412 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1104320004413 RNA binding site [nucleotide binding]; other site 1104320004414 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 1104320004415 RNA binding site [nucleotide binding]; other site 1104320004416 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 1104320004417 RNA binding site [nucleotide binding]; other site 1104320004418 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1104320004419 RNA binding site [nucleotide binding]; other site 1104320004420 cytidylate kinase; Provisional; Region: cmk; PRK00023 1104320004421 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 1104320004422 CMP-binding site; other site 1104320004423 The sites determining sugar specificity; other site 1104320004424 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1104320004425 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 1104320004426 hinge; other site 1104320004427 active site 1104320004428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 1104320004429 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 1104320004430 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1104320004431 CHRD domain; Region: CHRD; pfam07452 1104320004432 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1104320004433 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1104320004434 acyl-activating enzyme (AAE) consensus motif; other site 1104320004435 putative AMP binding site [chemical binding]; other site 1104320004436 putative active site [active] 1104320004437 putative CoA binding site [chemical binding]; other site 1104320004438 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1104320004439 isovaleryl-CoA dehydrogenase; Region: PLN02519 1104320004440 substrate binding site [chemical binding]; other site 1104320004441 FAD binding site [chemical binding]; other site 1104320004442 catalytic base [active] 1104320004443 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1104320004444 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1104320004445 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104320004446 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104320004447 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104320004448 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 1104320004449 carboxyltransferase (CT) interaction site; other site 1104320004450 biotinylation site [posttranslational modification]; other site 1104320004451 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1104320004452 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1104320004453 active site 1104320004454 catalytic residues [active] 1104320004455 metal binding site [ion binding]; metal-binding site 1104320004456 enoyl-CoA hydratase; Provisional; Region: PRK07468 1104320004457 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 1104320004458 substrate binding site [chemical binding]; other site 1104320004459 oxyanion hole (OAH) forming residues; other site 1104320004460 trimer interface [polypeptide binding]; other site 1104320004461 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104320004462 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 1104320004463 dimerization interface [polypeptide binding]; other site 1104320004464 ligand binding site [chemical binding]; other site 1104320004465 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104320004466 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 1104320004467 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104320004468 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 1104320004469 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1104320004470 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320004471 dimer interface [polypeptide binding]; other site 1104320004472 conserved gate region; other site 1104320004473 putative PBP binding loops; other site 1104320004474 ABC-ATPase subunit interface; other site 1104320004475 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1104320004476 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320004477 dimer interface [polypeptide binding]; other site 1104320004478 conserved gate region; other site 1104320004479 putative PBP binding loops; other site 1104320004480 ABC-ATPase subunit interface; other site 1104320004481 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1104320004482 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320004483 Walker A/P-loop; other site 1104320004484 ATP binding site [chemical binding]; other site 1104320004485 Q-loop/lid; other site 1104320004486 ABC transporter signature motif; other site 1104320004487 Walker B; other site 1104320004488 D-loop; other site 1104320004489 H-loop/switch region; other site 1104320004490 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104320004491 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320004492 Walker A/P-loop; other site 1104320004493 ATP binding site [chemical binding]; other site 1104320004494 Q-loop/lid; other site 1104320004495 ABC transporter signature motif; other site 1104320004496 Walker B; other site 1104320004497 D-loop; other site 1104320004498 H-loop/switch region; other site 1104320004499 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104320004500 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1104320004501 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1104320004502 putative ligand binding site [chemical binding]; other site 1104320004503 NAD binding site [chemical binding]; other site 1104320004504 dimerization interface [polypeptide binding]; other site 1104320004505 catalytic site [active] 1104320004506 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1104320004507 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 1104320004508 ATP binding site [chemical binding]; other site 1104320004509 substrate interface [chemical binding]; other site 1104320004510 recombination protein F; Reviewed; Region: recF; PRK00064 1104320004511 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1104320004512 Walker A/P-loop; other site 1104320004513 ATP binding site [chemical binding]; other site 1104320004514 Q-loop/lid; other site 1104320004515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320004516 ABC transporter signature motif; other site 1104320004517 Walker B; other site 1104320004518 D-loop; other site 1104320004519 H-loop/switch region; other site 1104320004520 DNA polymerase III subunit beta; Validated; Region: PRK05643 1104320004521 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 1104320004522 putative DNA binding surface [nucleotide binding]; other site 1104320004523 dimer interface [polypeptide binding]; other site 1104320004524 beta-clamp/clamp loader binding surface; other site 1104320004525 beta-clamp/translesion DNA polymerase binding surface; other site 1104320004526 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1104320004527 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1104320004528 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; cl17189 1104320004529 Walker A motif; other site 1104320004530 ATP binding site [chemical binding]; other site 1104320004531 Walker B motif; other site 1104320004532 arginine finger; other site 1104320004533 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 1104320004534 DnaA box-binding interface [nucleotide binding]; other site 1104320004535 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1104320004536 enoyl-CoA hydratase; Provisional; Region: PRK05862 1104320004537 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 1104320004538 substrate binding site [chemical binding]; other site 1104320004539 oxyanion hole (OAH) forming residues; other site 1104320004540 trimer interface [polypeptide binding]; other site 1104320004541 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1104320004542 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1104320004543 DNA binding site [nucleotide binding] 1104320004544 catalytic residue [active] 1104320004545 H2TH interface [polypeptide binding]; other site 1104320004546 putative catalytic residues [active] 1104320004547 turnover-facilitating residue; other site 1104320004548 intercalation triad [nucleotide binding]; other site 1104320004549 8OG recognition residue [nucleotide binding]; other site 1104320004550 putative reading head residues; other site 1104320004551 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1104320004552 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1104320004553 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1104320004554 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1104320004555 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 1104320004556 interface (dimer of trimers) [polypeptide binding]; other site 1104320004557 Substrate-binding/catalytic site; other site 1104320004558 Zn-binding sites [ion binding]; other site 1104320004559 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104320004560 MarR family; Region: MarR; pfam01047 1104320004561 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104320004562 NlpC/P60 family; Region: NLPC_P60; cl17555 1104320004563 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104320004564 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1104320004565 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1104320004566 dimerization interface [polypeptide binding]; other site 1104320004567 ligand binding site [chemical binding]; other site 1104320004568 NADP binding site [chemical binding]; other site 1104320004569 catalytic site [active] 1104320004570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1104320004571 Bacterial SH3 domain; Region: SH3_4; pfam06347 1104320004572 Bacterial SH3 domain; Region: SH3_4; pfam06347 1104320004573 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104320004574 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104320004575 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104320004576 metal binding site 2 [ion binding]; metal-binding site 1104320004577 putative DNA binding helix; other site 1104320004578 metal binding site 1 [ion binding]; metal-binding site 1104320004579 dimer interface [polypeptide binding]; other site 1104320004580 structural Zn2+ binding site [ion binding]; other site 1104320004581 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 1104320004582 active site 1 [active] 1104320004583 dimer interface [polypeptide binding]; other site 1104320004584 active site 2 [active] 1104320004585 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1104320004586 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 1104320004587 dimer interface [polypeptide binding]; other site 1104320004588 active site 1104320004589 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 1104320004590 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1104320004591 NAD binding site [chemical binding]; other site 1104320004592 homotetramer interface [polypeptide binding]; other site 1104320004593 homodimer interface [polypeptide binding]; other site 1104320004594 substrate binding site [chemical binding]; other site 1104320004595 active site 1104320004596 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1104320004597 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1104320004598 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1104320004599 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1104320004600 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1104320004601 RNase E interface [polypeptide binding]; other site 1104320004602 trimer interface [polypeptide binding]; other site 1104320004603 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1104320004604 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1104320004605 RNase E interface [polypeptide binding]; other site 1104320004606 trimer interface [polypeptide binding]; other site 1104320004607 active site 1104320004608 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 1104320004609 putative nucleic acid binding region [nucleotide binding]; other site 1104320004610 G-X-X-G motif; other site 1104320004611 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 1104320004612 RNA binding site [nucleotide binding]; other site 1104320004613 domain interface; other site 1104320004614 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 1104320004615 16S/18S rRNA binding site [nucleotide binding]; other site 1104320004616 S13e-L30e interaction site [polypeptide binding]; other site 1104320004617 25S rRNA binding site [nucleotide binding]; other site 1104320004618 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 1104320004619 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1104320004620 RNA binding site [nucleotide binding]; other site 1104320004621 active site 1104320004622 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1104320004623 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1104320004624 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1104320004625 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1104320004626 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1104320004627 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1104320004628 G1 box; other site 1104320004629 putative GEF interaction site [polypeptide binding]; other site 1104320004630 GTP/Mg2+ binding site [chemical binding]; other site 1104320004631 Switch I region; other site 1104320004632 G2 box; other site 1104320004633 G3 box; other site 1104320004634 Switch II region; other site 1104320004635 G4 box; other site 1104320004636 G5 box; other site 1104320004637 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 1104320004638 Translation-initiation factor 2; Region: IF-2; pfam11987 1104320004639 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 1104320004640 hypothetical protein; Provisional; Region: PRK09190 1104320004641 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 1104320004642 putative RNA binding cleft [nucleotide binding]; other site 1104320004643 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1104320004644 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1104320004645 NusA N-terminal domain; Region: NusA_N; pfam08529 1104320004646 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 1104320004647 RNA binding site [nucleotide binding]; other site 1104320004648 homodimer interface [polypeptide binding]; other site 1104320004649 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 1104320004650 G-X-X-G motif; other site 1104320004651 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 1104320004652 G-X-X-G motif; other site 1104320004653 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1104320004654 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1104320004655 Sm and related proteins; Region: Sm_like; cl00259 1104320004656 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1104320004657 putative oligomer interface [polypeptide binding]; other site 1104320004658 putative RNA binding site [nucleotide binding]; other site 1104320004659 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1104320004660 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1104320004661 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1104320004662 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1104320004663 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1104320004664 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104320004665 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 1104320004666 non-specific DNA binding site [nucleotide binding]; other site 1104320004667 salt bridge; other site 1104320004668 sequence-specific DNA binding site [nucleotide binding]; other site 1104320004669 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1104320004670 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1104320004671 putative active site [active] 1104320004672 catalytic triad [active] 1104320004673 putative dimer interface [polypeptide binding]; other site 1104320004674 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1104320004675 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 1104320004676 Transporter associated domain; Region: CorC_HlyC; smart01091 1104320004677 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1104320004678 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1104320004679 PhoH-like protein; Region: PhoH; pfam02562 1104320004680 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1104320004681 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1104320004682 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 1104320004683 FeS/SAM binding site; other site 1104320004684 TRAM domain; Region: TRAM; cl01282 1104320004685 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1104320004686 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1104320004687 putative acyl-acceptor binding pocket; other site 1104320004688 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1104320004689 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104320004690 Coenzyme A binding pocket [chemical binding]; other site 1104320004691 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1104320004692 Glycoprotease family; Region: Peptidase_M22; pfam00814 1104320004693 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1104320004694 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1104320004695 dimerization interface [polypeptide binding]; other site 1104320004696 DPS ferroxidase diiron center [ion binding]; other site 1104320004697 ion pore; other site 1104320004698 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1104320004699 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1104320004700 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1104320004701 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1104320004702 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1104320004703 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 1104320004704 active site 1104320004705 phosphorylation site [posttranslational modification] 1104320004706 intermolecular recognition site; other site 1104320004707 dimerization interface [polypeptide binding]; other site 1104320004708 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 1104320004709 DNA binding site [nucleotide binding] 1104320004710 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1104320004711 PhoU domain; Region: PhoU; pfam01895 1104320004712 PhoU domain; Region: PhoU; pfam01895 1104320004713 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1104320004714 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1104320004715 Walker A/P-loop; other site 1104320004716 ATP binding site [chemical binding]; other site 1104320004717 Q-loop/lid; other site 1104320004718 ABC transporter signature motif; other site 1104320004719 Walker B; other site 1104320004720 D-loop; other site 1104320004721 H-loop/switch region; other site 1104320004722 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1104320004723 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1104320004724 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320004725 dimer interface [polypeptide binding]; other site 1104320004726 conserved gate region; other site 1104320004727 putative PBP binding loops; other site 1104320004728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320004729 ABC-ATPase subunit interface; other site 1104320004730 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1104320004731 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1104320004732 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320004733 dimer interface [polypeptide binding]; other site 1104320004734 conserved gate region; other site 1104320004735 putative PBP binding loops; other site 1104320004736 ABC-ATPase subunit interface; other site 1104320004737 PBP superfamily domain; Region: PBP_like_2; pfam12849 1104320004738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1104320004739 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1104320004740 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1104320004741 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1104320004742 potential frameshift: common BLAST hit: gi|340791714|ref|YP_004757179.1| Mg chelatase-like protein 1104320004743 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1104320004744 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 1104320004745 Walker A motif; other site 1104320004746 ATP binding site [chemical binding]; other site 1104320004747 Walker B motif; other site 1104320004748 arginine finger; other site 1104320004749 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1104320004750 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1104320004751 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1104320004752 glutathione synthetase; Provisional; Region: PRK05246 1104320004753 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1104320004754 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1104320004755 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1104320004756 Uncharacterized conserved protein [Function unknown]; Region: COG5470 1104320004757 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1104320004758 active site 1104320004759 dimer interface [polypeptide binding]; other site 1104320004760 Phospholipid N-methyltransferase [Lipid metabolism]; Region: COG3963 1104320004761 chaperone protein DnaJ; Provisional; Region: PRK10767 1104320004762 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 1104320004763 HSP70 interaction site [polypeptide binding]; other site 1104320004764 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1104320004765 substrate binding site [polypeptide binding]; other site 1104320004766 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1104320004767 Zn binding sites [ion binding]; other site 1104320004768 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1104320004769 dimer interface [polypeptide binding]; other site 1104320004770 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1104320004771 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1104320004772 nucleotide binding site [chemical binding]; other site 1104320004773 NEF interaction site [polypeptide binding]; other site 1104320004774 SBD interface [polypeptide binding]; other site 1104320004775 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320004776 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320004777 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104320004778 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1104320004779 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 1104320004780 putative tRNA-binding site [nucleotide binding]; other site 1104320004781 B3/4 domain; Region: B3_4; pfam03483 1104320004782 tRNA synthetase B5 domain; Region: B5; smart00874 1104320004783 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 1104320004784 dimer interface [polypeptide binding]; other site 1104320004785 motif 1; other site 1104320004786 motif 3; other site 1104320004787 motif 2; other site 1104320004788 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1104320004789 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1104320004790 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1104320004791 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 1104320004792 dimer interface [polypeptide binding]; other site 1104320004793 motif 1; other site 1104320004794 active site 1104320004795 motif 2; other site 1104320004796 motif 3; other site 1104320004797 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1104320004798 active site 1104320004799 ATP binding site [chemical binding]; other site 1104320004800 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1104320004801 23S rRNA binding site [nucleotide binding]; other site 1104320004802 L21 binding site [polypeptide binding]; other site 1104320004803 L13 binding site [polypeptide binding]; other site 1104320004804 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1104320004805 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1104320004806 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1104320004807 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1104320004808 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1104320004809 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104320004810 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1104320004811 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1104320004812 benzoate transporter; Region: benE; TIGR00843 1104320004813 benzoate transporter; Region: benE; TIGR00843 1104320004814 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 1104320004815 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 1104320004816 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1104320004817 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104320004818 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 1104320004819 putative active site [active] 1104320004820 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1104320004821 active site 1104320004822 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1104320004823 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 1104320004824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320004825 catalytic residue [active] 1104320004826 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 1104320004827 substrate binding site [chemical binding]; other site 1104320004828 active site 1104320004829 catalytic residues [active] 1104320004830 heterodimer interface [polypeptide binding]; other site 1104320004831 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1104320004832 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1104320004833 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1104320004834 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104320004835 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 1104320004836 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1104320004837 catalytic residues [active] 1104320004838 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1104320004839 Part of AAA domain; Region: AAA_19; pfam13245 1104320004840 Family description; Region: UvrD_C_2; pfam13538 1104320004841 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1104320004842 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 1104320004843 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1104320004844 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1104320004845 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1104320004846 Substrate binding site; other site 1104320004847 metal-binding site 1104320004848 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1104320004849 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1104320004850 Phosphotransferase enzyme family; Region: APH; pfam01636 1104320004851 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1104320004852 PAS fold; Region: PAS_7; pfam12860 1104320004853 PAS fold; Region: PAS_7; pfam12860 1104320004854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320004855 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 1104320004856 dimer interface [polypeptide binding]; other site 1104320004857 phosphorylation site [posttranslational modification] 1104320004858 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 1104320004859 ATP binding site [chemical binding]; other site 1104320004860 Mg2+ binding site [ion binding]; other site 1104320004861 G-X-G motif; other site 1104320004862 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1104320004863 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1104320004864 homotetramer interface [polypeptide binding]; other site 1104320004865 ligand binding site [chemical binding]; other site 1104320004866 catalytic site [active] 1104320004867 NAD binding site [chemical binding]; other site 1104320004868 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 1104320004869 dimerization domain swap beta strand [polypeptide binding]; other site 1104320004870 regulatory protein interface [polypeptide binding]; other site 1104320004871 active site 1104320004872 regulatory phosphorylation site [posttranslational modification]; other site 1104320004873 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 1104320004874 active pocket/dimerization site; other site 1104320004875 active site 1104320004876 phosphorylation site [posttranslational modification] 1104320004877 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 1104320004878 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 1104320004879 Hpr binding site; other site 1104320004880 active site 1104320004881 homohexamer subunit interaction site [polypeptide binding]; other site 1104320004882 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1104320004883 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1104320004884 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320004885 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 1104320004886 dimerization interface [polypeptide binding]; other site 1104320004887 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 1104320004888 dimer interface [polypeptide binding]; other site 1104320004889 phosphorylation site [posttranslational modification] 1104320004890 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 1104320004891 ATP binding site [chemical binding]; other site 1104320004892 Mg2+ binding site [ion binding]; other site 1104320004893 G-X-G motif; other site 1104320004894 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104320004895 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 1104320004896 active site 1104320004897 phosphorylation site [posttranslational modification] 1104320004898 intermolecular recognition site; other site 1104320004899 dimerization interface [polypeptide binding]; other site 1104320004900 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 1104320004901 DNA binding site [nucleotide binding] 1104320004902 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1104320004903 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 1104320004904 active site 1104320004905 substrate-binding site [chemical binding]; other site 1104320004906 metal-binding site [ion binding] 1104320004907 ATP binding site [chemical binding]; other site 1104320004908 hypothetical protein; Provisional; Region: PRK09256 1104320004909 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1104320004910 pantothenate kinase; Provisional; Region: PRK05439 1104320004911 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1104320004912 ATP-binding site [chemical binding]; other site 1104320004913 CoA-binding site [chemical binding]; other site 1104320004914 Mg2+-binding site [ion binding]; other site 1104320004915 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 1104320004916 metal binding site [ion binding]; metal-binding site 1104320004917 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 1104320004918 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1104320004919 substrate binding site [chemical binding]; other site 1104320004920 glutamase interaction surface [polypeptide binding]; other site 1104320004921 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 1104320004922 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1104320004923 catalytic residues [active] 1104320004924 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1104320004925 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1104320004926 putative active site [active] 1104320004927 oxyanion strand; other site 1104320004928 catalytic triad [active] 1104320004929 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1104320004930 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1104320004931 putative active site pocket [active] 1104320004932 4-fold oligomerization interface [polypeptide binding]; other site 1104320004933 metal binding residues [ion binding]; metal-binding site 1104320004934 3-fold/trimer interface [polypeptide binding]; other site 1104320004935 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 1104320004936 active site 1104320004937 HslU subunit interaction site [polypeptide binding]; other site 1104320004938 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1104320004939 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 1104320004940 Walker A motif; other site 1104320004941 ATP binding site [chemical binding]; other site 1104320004942 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1104320004943 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1104320004944 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 1104320004945 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104320004946 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 1104320004947 sequence-specific DNA binding site [nucleotide binding]; other site 1104320004948 salt bridge; other site 1104320004949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1104320004950 Smr domain; Region: Smr; pfam01713 1104320004951 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1104320004952 MltA specific insert domain; Region: MltA; pfam03562 1104320004953 3D domain; Region: 3D; pfam06725 1104320004954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1104320004955 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1104320004956 preprotein translocase subunit SecB; Validated; Region: PRK05751 1104320004957 SecA binding site; other site 1104320004958 Preprotein binding site; other site 1104320004959 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1104320004960 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 1104320004961 active site 1104320004962 catalytic site [active] 1104320004963 substrate binding site [chemical binding]; other site 1104320004964 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1104320004965 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 1104320004966 CoA-binding site [chemical binding]; other site 1104320004967 ATP-binding [chemical binding]; other site 1104320004968 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1104320004969 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1104320004970 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1104320004971 shikimate binding site; other site 1104320004972 NAD(P) binding site [chemical binding]; other site 1104320004973 Maf-like protein; Reviewed; Region: PRK00078 1104320004974 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 1104320004975 active site 1104320004976 dimer interface [polypeptide binding]; other site 1104320004977 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1104320004978 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 1104320004979 substrate binding site [chemical binding]; other site 1104320004980 active site 1104320004981 Predicted membrane protein [Function unknown]; Region: COG1981 1104320004982 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1104320004983 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1104320004984 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 1104320004985 RNA binding site [nucleotide binding]; other site 1104320004986 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 1104320004987 multimer interface [polypeptide binding]; other site 1104320004988 Walker A motif; other site 1104320004989 ATP binding site [chemical binding]; other site 1104320004990 Walker B motif; other site 1104320004991 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1104320004992 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1104320004993 catalytic residues [active] 1104320004994 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1104320004995 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1104320004996 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1104320004997 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1104320004998 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1104320004999 G1 box; other site 1104320005000 G1 box; other site 1104320005001 GTP/Mg2+ binding site [chemical binding]; other site 1104320005002 GTP/Mg2+ binding site [chemical binding]; other site 1104320005003 Switch I region; other site 1104320005004 Switch I region; other site 1104320005005 G2 box; other site 1104320005006 G2 box; other site 1104320005007 Switch II region; other site 1104320005008 G3 box; other site 1104320005009 G4 box; other site 1104320005010 G5 box; other site 1104320005011 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1104320005012 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1104320005013 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104320005014 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1104320005015 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1104320005016 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1104320005017 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1104320005018 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1104320005019 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 1104320005020 P-loop; other site 1104320005021 Magnesium ion binding site [ion binding]; other site 1104320005022 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 1104320005023 Magnesium ion binding site [ion binding]; other site 1104320005024 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1104320005025 ParB-like nuclease domain; Region: ParB; smart00470 1104320005026 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1104320005027 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1104320005028 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1104320005029 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1104320005030 Walker A/P-loop; other site 1104320005031 ATP binding site [chemical binding]; other site 1104320005032 Q-loop/lid; other site 1104320005033 ABC transporter signature motif; other site 1104320005034 Walker B; other site 1104320005035 D-loop; other site 1104320005036 H-loop/switch region; other site 1104320005037 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320005038 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 1104320005039 TM-ABC transporter signature motif; other site 1104320005040 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 1104320005041 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104320005042 zinc binding site [ion binding]; other site 1104320005043 putative ligand binding site [chemical binding]; other site 1104320005044 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1104320005045 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1104320005046 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1104320005047 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104320005048 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104320005049 DNA binding site [nucleotide binding] 1104320005050 domain linker motif; other site 1104320005051 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 1104320005052 putative dimerization interface [polypeptide binding]; other site 1104320005053 putative ligand binding site [chemical binding]; other site 1104320005054 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320005055 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320005056 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104320005057 Coenzyme A transferase; Region: CoA_trans; smart00882 1104320005058 Coenzyme A transferase; Region: CoA_trans; cl17247 1104320005059 Coenzyme A transferase; Region: CoA_trans; cl17247 1104320005060 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1104320005061 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 1104320005062 substrate binding site [chemical binding]; other site 1104320005063 oxyanion hole (OAH) forming residues; other site 1104320005064 trimer interface [polypeptide binding]; other site 1104320005065 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104320005066 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1104320005067 NAD(P) binding site [chemical binding]; other site 1104320005068 catalytic residues [active] 1104320005069 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1104320005070 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104320005071 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1104320005072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320005073 NAD(P) binding site [chemical binding]; other site 1104320005074 active site 1104320005075 choline dehydrogenase; Validated; Region: PRK02106 1104320005076 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104320005077 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 1104320005078 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1104320005079 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1104320005080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320005081 NAD(P) binding site [chemical binding]; other site 1104320005082 active site 1104320005083 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1104320005084 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1104320005085 metal binding site [ion binding]; metal-binding site 1104320005086 putative dimer interface [polypeptide binding]; other site 1104320005087 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1104320005088 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1104320005089 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1104320005090 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104320005091 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1104320005092 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 1104320005093 CPxP motif; other site 1104320005094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1104320005095 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1104320005096 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1104320005097 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1104320005098 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 1104320005099 active site 1104320005100 DNA binding site [nucleotide binding] 1104320005101 Int/Topo IB signature motif; other site 1104320005102 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1104320005103 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 1104320005104 ADP binding site [chemical binding]; other site 1104320005105 magnesium binding site [ion binding]; other site 1104320005106 putative shikimate binding site; other site 1104320005107 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1104320005108 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1104320005109 active site 1104320005110 dimer interface [polypeptide binding]; other site 1104320005111 metal binding site [ion binding]; metal-binding site 1104320005112 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1104320005113 Domain of unknown function DUF21; Region: DUF21; pfam01595 1104320005114 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 1104320005115 Transporter associated domain; Region: CorC_HlyC; smart01091 1104320005116 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1104320005117 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 1104320005118 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 1104320005119 HSP70 interaction site [polypeptide binding]; other site 1104320005120 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1104320005121 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1104320005122 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; cl17189 1104320005123 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 1104320005124 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1104320005125 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 1104320005126 metal ion-dependent adhesion site (MIDAS); other site 1104320005127 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 1104320005128 metal-binding site [ion binding] 1104320005129 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104320005130 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 1104320005131 metal-binding site [ion binding] 1104320005132 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104320005133 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104320005134 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1104320005135 DNA binding residues [nucleotide binding] 1104320005136 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1104320005137 dimer interface [polypeptide binding]; other site 1104320005138 putative metal binding site [ion binding]; other site 1104320005139 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1104320005140 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1104320005141 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1104320005142 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1104320005143 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1104320005144 Autotransporter beta-domain; Region: Autotransporter; smart00869 1104320005145 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 1104320005146 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1104320005147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1104320005148 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104320005149 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 1104320005150 active site 1104320005151 phosphorylation site [posttranslational modification] 1104320005152 intermolecular recognition site; other site 1104320005153 dimerization interface [polypeptide binding]; other site 1104320005154 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 1104320005155 DNA binding site [nucleotide binding] 1104320005156 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104320005157 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 1104320005158 ligand binding site [chemical binding]; other site 1104320005159 flexible hinge region; other site 1104320005160 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 1104320005161 putative catalytic site [active] 1104320005162 putative phosphate binding site [ion binding]; other site 1104320005163 active site 1104320005164 metal binding site A [ion binding]; metal-binding site 1104320005165 DNA binding site [nucleotide binding] 1104320005166 putative AP binding site [nucleotide binding]; other site 1104320005167 putative metal binding site B [ion binding]; other site 1104320005168 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1104320005169 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1104320005170 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1104320005171 amphipathic channel; other site 1104320005172 Asn-Pro-Ala signature motifs; other site 1104320005173 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1104320005174 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104320005175 Walker A/P-loop; other site 1104320005176 ATP binding site [chemical binding]; other site 1104320005177 Q-loop/lid; other site 1104320005178 ABC transporter signature motif; other site 1104320005179 Walker B; other site 1104320005180 D-loop; other site 1104320005181 H-loop/switch region; other site 1104320005182 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1104320005183 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104320005184 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 1104320005185 putative active site [active] 1104320005186 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1104320005187 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1104320005188 putative acyl-acceptor binding pocket; other site 1104320005189 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 1104320005190 dimer interface [polypeptide binding]; other site 1104320005191 substrate binding site [chemical binding]; other site 1104320005192 metal binding sites [ion binding]; metal-binding site 1104320005193 YGGT family; Region: YGGT; pfam02325 1104320005194 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1104320005195 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 1104320005196 putative active site pocket [active] 1104320005197 dimerization interface [polypeptide binding]; other site 1104320005198 putative catalytic residue [active] 1104320005199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 1104320005200 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 1104320005201 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 1104320005202 prephenate dehydrogenase; Validated; Region: PRK08507 1104320005203 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1104320005204 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 1104320005205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320005206 homodimer interface [polypeptide binding]; other site 1104320005207 catalytic residue [active] 1104320005208 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1104320005209 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 1104320005210 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104320005211 active site 1104320005212 TIGR02302 family protein; Region: aProt_lowcomp 1104320005213 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1104320005214 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1104320005215 active site 1104320005216 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104320005217 substrate binding site [chemical binding]; other site 1104320005218 catalytic residues [active] 1104320005219 dimer interface [polypeptide binding]; other site 1104320005220 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 1104320005221 argininosuccinate lyase; Provisional; Region: PRK00855 1104320005222 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1104320005223 active sites [active] 1104320005224 tetramer interface [polypeptide binding]; other site 1104320005225 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 1104320005226 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1104320005227 catalytic residues [active] 1104320005228 hypothetical protein; Validated; Region: PRK00124 1104320005229 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1104320005230 short chain dehydrogenase; Provisional; Region: PRK05993 1104320005231 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1104320005232 NADP binding site [chemical binding]; other site 1104320005233 active site 1104320005234 steroid binding site; other site 1104320005235 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1104320005236 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1104320005237 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1104320005238 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1104320005239 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1104320005240 active site 1104320005241 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 1104320005242 Ligand Binding Site [chemical binding]; other site 1104320005243 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 1104320005244 Ligand binding site [chemical binding]; other site 1104320005245 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1104320005246 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1104320005247 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 1104320005248 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1104320005249 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 1104320005250 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1104320005251 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104320005252 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 1104320005253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320005254 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 1104320005255 catalytic residue [active] 1104320005256 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 1104320005257 Ligand Binding Site [chemical binding]; other site 1104320005258 methionine gamma-lyase; Validated; Region: PRK07049 1104320005259 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 1104320005260 homodimer interface [polypeptide binding]; other site 1104320005261 substrate-cofactor binding pocket; other site 1104320005262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320005263 catalytic residue [active] 1104320005264 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 1104320005265 D-galactonate transporter; Region: 2A0114; TIGR00893 1104320005266 putative substrate translocation pore; other site 1104320005267 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1104320005268 active site 1104320005269 homotetramer interface [polypeptide binding]; other site 1104320005270 homodimer interface [polypeptide binding]; other site 1104320005271 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104320005272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320005273 DNA-binding site [nucleotide binding]; DNA binding site 1104320005274 FCD domain; Region: FCD; pfam07729 1104320005275 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1104320005276 active site 1104320005277 homotetramer interface [polypeptide binding]; other site 1104320005278 homodimer interface [polypeptide binding]; other site 1104320005279 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104320005280 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104320005281 Walker A/P-loop; other site 1104320005282 ATP binding site [chemical binding]; other site 1104320005283 Q-loop/lid; other site 1104320005284 ABC transporter signature motif; other site 1104320005285 Walker B; other site 1104320005286 D-loop; other site 1104320005287 H-loop/switch region; other site 1104320005288 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1104320005289 Aspartase; Region: Aspartase; cd01357 1104320005290 active sites [active] 1104320005291 tetramer interface [polypeptide binding]; other site 1104320005292 agmatinase; Region: agmatinase; TIGR01230 1104320005293 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 1104320005294 oligomer interface [polypeptide binding]; other site 1104320005295 active site 1104320005296 Mn binding site [ion binding]; other site 1104320005297 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104320005298 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104320005299 Walker A/P-loop; other site 1104320005300 ATP binding site [chemical binding]; other site 1104320005301 Q-loop/lid; other site 1104320005302 ABC transporter signature motif; other site 1104320005303 Walker B; other site 1104320005304 D-loop; other site 1104320005305 H-loop/switch region; other site 1104320005306 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104320005307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320005308 dimer interface [polypeptide binding]; other site 1104320005309 conserved gate region; other site 1104320005310 putative PBP binding loops; other site 1104320005311 ABC-ATPase subunit interface; other site 1104320005312 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320005313 dimer interface [polypeptide binding]; other site 1104320005314 conserved gate region; other site 1104320005315 putative PBP binding loops; other site 1104320005316 ABC-ATPase subunit interface; other site 1104320005317 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104320005318 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 1104320005319 substrate binding pocket [chemical binding]; other site 1104320005320 membrane-bound complex binding site; other site 1104320005321 hinge residues; other site 1104320005322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320005323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320005324 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 1104320005325 dimerization interface [polypeptide binding]; other site 1104320005326 Sulfatase; Region: Sulfatase; pfam00884 1104320005327 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1104320005328 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1104320005329 Sulfatase; Region: Sulfatase; cl17466 1104320005330 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 1104320005331 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1104320005332 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1104320005333 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1104320005334 ATP binding site [chemical binding]; other site 1104320005335 putative Mg++ binding site [ion binding]; other site 1104320005336 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1104320005337 SEC-C motif; Region: SEC-C; pfam02810 1104320005338 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 1104320005339 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1104320005340 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 1104320005341 heterotetramer interface [polypeptide binding]; other site 1104320005342 active site pocket [active] 1104320005343 cleavage site 1104320005344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104320005345 Coenzyme A binding pocket [chemical binding]; other site 1104320005346 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 1104320005347 active site 1104320005348 8-oxo-dGMP binding site [chemical binding]; other site 1104320005349 nudix motif; other site 1104320005350 metal binding site [ion binding]; metal-binding site 1104320005351 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1104320005352 intracellular septation protein A; Reviewed; Region: PRK00259 1104320005353 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1104320005354 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1104320005355 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104320005356 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1104320005357 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1104320005358 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 1104320005359 FeS/SAM binding site; other site 1104320005360 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1104320005361 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1104320005362 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1104320005363 Protease inhibitor Inh; Region: Inh; pfam02974 1104320005364 Predicted ATPase [General function prediction only]; Region: COG1485 1104320005365 malate dehydrogenase; Reviewed; Region: PRK06223 1104320005366 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1104320005367 NAD(P) binding site [chemical binding]; other site 1104320005368 dimer interface [polypeptide binding]; other site 1104320005369 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104320005370 substrate binding site [chemical binding]; other site 1104320005371 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1104320005372 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1104320005373 CoA-ligase; Region: Ligase_CoA; pfam00549 1104320005374 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1104320005375 CoA binding domain; Region: CoA_binding; smart00881 1104320005376 CoA-ligase; Region: Ligase_CoA; pfam00549 1104320005377 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1104320005378 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 1104320005379 TPP-binding site [chemical binding]; other site 1104320005380 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1104320005381 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1104320005382 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 1104320005383 E3 interaction surface; other site 1104320005384 lipoyl attachment site [posttranslational modification]; other site 1104320005385 e3 binding domain; Region: E3_binding; pfam02817 1104320005386 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104320005387 Predicted membrane protein [Function unknown]; Region: COG3686 1104320005388 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1104320005389 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1104320005390 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104320005391 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104320005392 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104320005393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 1104320005394 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1104320005395 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 1104320005396 active site 1104320005397 DNA binding site [nucleotide binding] 1104320005398 Int/Topo IB signature motif; other site 1104320005399 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1104320005400 RimM N-terminal domain; Region: RimM; pfam01782 1104320005401 PRC-barrel domain; Region: PRC; pfam05239 1104320005402 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1104320005403 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 1104320005404 dimerization interface [polypeptide binding]; other site 1104320005405 putative DNA binding site [nucleotide binding]; other site 1104320005406 putative Zn2+ binding site [ion binding]; other site 1104320005407 NIPSNAP; Region: NIPSNAP; pfam07978 1104320005408 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1104320005409 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 1104320005410 Na binding site [ion binding]; other site 1104320005411 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1104320005412 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1104320005413 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1104320005414 substrate binding site [chemical binding]; other site 1104320005415 ligand binding site [chemical binding]; other site 1104320005416 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1104320005417 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104320005418 Coenzyme A binding pocket [chemical binding]; other site 1104320005419 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 1104320005420 Iron-sulfur protein interface; other site 1104320005421 proximal quinone binding site [chemical binding]; other site 1104320005422 SdhD (CybS) interface [polypeptide binding]; other site 1104320005423 proximal heme binding site [chemical binding]; other site 1104320005424 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 1104320005425 putative SdhC subunit interface [polypeptide binding]; other site 1104320005426 putative proximal heme binding site [chemical binding]; other site 1104320005427 putative Iron-sulfur protein interface [polypeptide binding]; other site 1104320005428 putative proximal quinone binding site; other site 1104320005429 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1104320005430 L-aspartate oxidase; Provisional; Region: PRK06175 1104320005431 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1104320005432 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1104320005433 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1104320005434 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 1104320005435 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320005436 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 1104320005437 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1104320005438 hypothetical protein; Provisional; Region: PRK05415 1104320005439 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1104320005440 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 1104320005441 active site 1104320005442 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 1104320005443 catalytic triad [active] 1104320005444 dimer interface [polypeptide binding]; other site 1104320005445 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1104320005446 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1104320005447 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1104320005448 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104320005449 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1104320005450 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 1104320005451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320005452 DNA-binding site [nucleotide binding]; DNA binding site 1104320005453 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 1104320005454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320005455 homodimer interface [polypeptide binding]; other site 1104320005456 catalytic residue [active] 1104320005457 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104320005458 EamA-like transporter family; Region: EamA; pfam00892 1104320005459 Predicted methyltransferase [General function prediction only]; Region: COG3897 1104320005460 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 1104320005461 S-adenosylmethionine binding site [chemical binding]; other site 1104320005462 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1104320005463 YCII-related domain; Region: YCII; cl00999 1104320005464 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1104320005465 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1104320005466 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1104320005467 UGMP family protein; Validated; Region: PRK09604 1104320005468 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1104320005469 porphobilinogen deaminase; Region: hemC; TIGR00212 1104320005470 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; cl17708 1104320005471 active site 1104320005472 domain interfaces; other site 1104320005473 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1104320005474 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 1104320005475 active site 1104320005476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 1104320005477 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 1104320005478 HemY protein N-terminus; Region: HemY_N; pfam07219 1104320005479 Tellurite resistance protein TerB; Region: TerB; cl17311 1104320005480 Tellurite resistance protein TerB; Region: TerB; cl17311 1104320005481 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 1104320005482 putative substrate translocation pore; other site 1104320005483 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1104320005484 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1104320005485 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1104320005486 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104320005487 active site 1104320005488 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 1104320005489 GSH binding site [chemical binding]; other site 1104320005490 catalytic residues [active] 1104320005491 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1104320005492 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1104320005493 putative active site [active] 1104320005494 catalytic triad [active] 1104320005495 dimer interface [polypeptide binding]; other site 1104320005496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 1104320005497 EamA-like transporter family; Region: EamA; pfam00892 1104320005498 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104320005499 aspartate kinase; Reviewed; Region: PRK06635 1104320005500 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 1104320005501 putative nucleotide binding site [chemical binding]; other site 1104320005502 putative catalytic residues [active] 1104320005503 putative Mg ion binding site [ion binding]; other site 1104320005504 putative aspartate binding site [chemical binding]; other site 1104320005505 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 1104320005506 putative allosteric regulatory site; other site 1104320005507 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 1104320005508 putative allosteric regulatory residue; other site 1104320005509 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1104320005510 GAF domain; Region: GAF; pfam01590 1104320005511 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1104320005512 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1104320005513 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1104320005514 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1104320005515 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1104320005516 RF-1 domain; Region: RF-1; pfam00472 1104320005517 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1104320005518 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 1104320005519 S-adenosylmethionine binding site [chemical binding]; other site 1104320005520 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1104320005521 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1104320005522 Clp amino terminal domain; Region: Clp_N; pfam02861 1104320005523 Clp amino terminal domain; Region: Clp_N; pfam02861 1104320005524 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 1104320005525 Walker A motif; other site 1104320005526 ATP binding site [chemical binding]; other site 1104320005527 Walker B motif; other site 1104320005528 arginine finger; other site 1104320005529 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 1104320005530 Walker A motif; other site 1104320005531 ATP binding site [chemical binding]; other site 1104320005532 Walker B motif; other site 1104320005533 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104320005534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104320005535 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104320005536 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1104320005537 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104320005538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104320005539 Integrase core domain; Region: rve; pfam00665 1104320005540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104320005541 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 1104320005542 non-specific DNA binding site [nucleotide binding]; other site 1104320005543 salt bridge; other site 1104320005544 sequence-specific DNA binding site [nucleotide binding]; other site 1104320005545 Cupin domain; Region: Cupin_2; cl17218 1104320005546 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1104320005547 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 1104320005548 S-adenosylmethionine binding site [chemical binding]; other site 1104320005549 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104320005550 Integrase core domain; Region: rve; pfam00665 1104320005551 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1104320005552 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1104320005553 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1104320005554 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1104320005555 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104320005556 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1104320005557 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104320005558 YadA-like C-terminal region; Region: YadA; pfam03895 1104320005559 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1104320005560 GTP1/OBG; Region: GTP1_OBG; pfam01018 1104320005561 Obg GTPase; Region: Obg; cd01898 1104320005562 G1 box; other site 1104320005563 GTP/Mg2+ binding site [chemical binding]; other site 1104320005564 Switch I region; other site 1104320005565 G2 box; other site 1104320005566 G3 box; other site 1104320005567 Switch II region; other site 1104320005568 G4 box; other site 1104320005569 G5 box; other site 1104320005570 gamma-glutamyl kinase; Provisional; Region: PRK05429 1104320005571 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 1104320005572 nucleotide binding site [chemical binding]; other site 1104320005573 homotetrameric interface [polypeptide binding]; other site 1104320005574 putative phosphate binding site [ion binding]; other site 1104320005575 putative allosteric binding site; other site 1104320005576 PUA domain; Region: PUA; pfam01472 1104320005577 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1104320005578 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1104320005579 putative catalytic cysteine [active] 1104320005580 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1104320005581 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1104320005582 active site 1104320005583 (T/H)XGH motif; other site 1104320005584 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1104320005585 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1104320005586 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1104320005587 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104320005588 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1104320005589 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1104320005590 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 1104320005591 protein binding site [polypeptide binding]; other site 1104320005592 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1104320005593 Catalytic dyad [active] 1104320005594 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 1104320005595 putative active site [active] 1104320005596 Ap4A binding site [chemical binding]; other site 1104320005597 nudix motif; other site 1104320005598 putative metal binding site [ion binding]; other site 1104320005599 Predicted membrane protein [Function unknown]; Region: COG3619 1104320005600 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320005601 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320005602 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 1104320005603 dimerization interface [polypeptide binding]; other site 1104320005604 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1104320005605 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1104320005606 tetrameric interface [polypeptide binding]; other site 1104320005607 NAD binding site [chemical binding]; other site 1104320005608 catalytic residues [active] 1104320005609 pyridoxamine kinase; Validated; Region: PRK05756 1104320005610 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 1104320005611 dimer interface [polypeptide binding]; other site 1104320005612 pyridoxal binding site [chemical binding]; other site 1104320005613 ATP binding site [chemical binding]; other site 1104320005614 potential frameshift: common BLAST hit: gi|82700607|ref|YP_415181.1| carbonic anhydrase 1104320005615 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; cl00391 1104320005616 active site clefts [active] 1104320005617 zinc binding site [ion binding]; other site 1104320005618 dimer interface [polypeptide binding]; other site 1104320005619 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; cl00391 1104320005620 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1104320005621 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1104320005622 signal recognition particle protein; Provisional; Region: PRK10867 1104320005623 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1104320005624 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 1104320005625 P loop; other site 1104320005626 GTP binding site [chemical binding]; other site 1104320005627 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1104320005628 chorismate mutase; Provisional; Region: PRK09239 1104320005629 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1104320005630 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1104320005631 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1104320005632 Repair protein; Region: Repair_PSII; pfam04536 1104320005633 Predicted membrane protein [Function unknown]; Region: COG3762 1104320005634 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1104320005635 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1104320005636 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1104320005637 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 1104320005638 purine monophosphate binding site [chemical binding]; other site 1104320005639 dimer interface [polypeptide binding]; other site 1104320005640 putative catalytic residues [active] 1104320005641 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1104320005642 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1104320005643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 1104320005644 NusB family; Region: NusB; pfam01029 1104320005645 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1104320005646 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 1104320005647 S-adenosylmethionine binding site [chemical binding]; other site 1104320005648 heat shock protein HtpX; Provisional; Region: PRK01345 1104320005649 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1104320005650 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1104320005651 acetyl-CoA synthetase; Provisional; Region: PRK00174 1104320005652 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1104320005653 active site 1104320005654 CoA binding site [chemical binding]; other site 1104320005655 acyl-activating enzyme (AAE) consensus motif; other site 1104320005656 AMP binding site [chemical binding]; other site 1104320005657 acetate binding site [chemical binding]; other site 1104320005658 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 1104320005659 Predicted membrane protein [Function unknown]; Region: COG1289 1104320005660 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1104320005661 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1104320005662 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104320005663 catalytic residue [active] 1104320005664 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1104320005665 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1104320005666 HIGH motif; other site 1104320005667 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1104320005668 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104320005669 active site 1104320005670 KMSKS motif; other site 1104320005671 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1104320005672 tRNA binding surface [nucleotide binding]; other site 1104320005673 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 1104320005674 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1104320005675 active site 1104320005676 intersubunit interactions; other site 1104320005677 catalytic residue [active] 1104320005678 primosome assembly protein PriA; Validated; Region: PRK05580 1104320005679 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 1104320005680 ATP binding site [chemical binding]; other site 1104320005681 putative Mg++ binding site [ion binding]; other site 1104320005682 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1104320005683 nucleotide binding region [chemical binding]; other site 1104320005684 ATP-binding site [chemical binding]; other site 1104320005685 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1104320005686 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1104320005687 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1104320005688 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104320005689 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 1104320005690 beta subunit interaction interface [polypeptide binding]; other site 1104320005691 Walker A motif; other site 1104320005692 ATP binding site [chemical binding]; other site 1104320005693 Walker B motif; other site 1104320005694 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104320005695 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1104320005696 core domain interface [polypeptide binding]; other site 1104320005697 delta subunit interface [polypeptide binding]; other site 1104320005698 epsilon subunit interface [polypeptide binding]; other site 1104320005699 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1104320005700 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104320005701 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 1104320005702 alpha subunit interaction interface [polypeptide binding]; other site 1104320005703 Walker A motif; other site 1104320005704 ATP binding site [chemical binding]; other site 1104320005705 Walker B motif; other site 1104320005706 inhibitor binding site; inhibition site 1104320005707 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104320005708 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1104320005709 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 1104320005710 gamma subunit interface [polypeptide binding]; other site 1104320005711 epsilon subunit interface [polypeptide binding]; other site 1104320005712 LBP interface [polypeptide binding]; other site 1104320005713 MarR family; Region: MarR; pfam01047 1104320005714 transcriptional regulator SlyA; Provisional; Region: PRK03573 1104320005715 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104320005716 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320005717 DNA-binding site [nucleotide binding]; DNA binding site 1104320005718 FCD domain; Region: FCD; pfam07729 1104320005719 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104320005720 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1104320005721 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1104320005722 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320005723 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 1104320005724 TM-ABC transporter signature motif; other site 1104320005725 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1104320005726 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1104320005727 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 1104320005728 TM-ABC transporter signature motif; other site 1104320005729 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104320005730 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104320005731 Walker A/P-loop; other site 1104320005732 ATP binding site [chemical binding]; other site 1104320005733 Q-loop/lid; other site 1104320005734 ABC transporter signature motif; other site 1104320005735 Walker B; other site 1104320005736 D-loop; other site 1104320005737 H-loop/switch region; other site 1104320005738 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1104320005739 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104320005740 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104320005741 Walker A/P-loop; other site 1104320005742 ATP binding site [chemical binding]; other site 1104320005743 Q-loop/lid; other site 1104320005744 ABC transporter signature motif; other site 1104320005745 Walker B; other site 1104320005746 D-loop; other site 1104320005747 H-loop/switch region; other site 1104320005748 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104320005749 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 1104320005750 dimerization interface [polypeptide binding]; other site 1104320005751 ligand binding site [chemical binding]; other site 1104320005752 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104320005753 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 1104320005754 dimerization interface [polypeptide binding]; other site 1104320005755 ligand binding site [chemical binding]; other site 1104320005756 pyruvate carboxylase; Reviewed; Region: PRK12999 1104320005757 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104320005758 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104320005759 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104320005760 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1104320005761 active site 1104320005762 catalytic residues [active] 1104320005763 metal binding site [ion binding]; metal-binding site 1104320005764 homodimer binding site [polypeptide binding]; other site 1104320005765 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 1104320005766 carboxyltransferase (CT) interaction site; other site 1104320005767 biotinylation site [posttranslational modification]; other site 1104320005768 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 1104320005769 putative substrate translocation pore; other site 1104320005770 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104320005771 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 1104320005772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320005773 NAD(P) binding site [chemical binding]; other site 1104320005774 active site 1104320005775 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1104320005776 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1104320005777 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1104320005778 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1104320005779 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1104320005780 substrate binding pocket [chemical binding]; other site 1104320005781 chain length determination region; other site 1104320005782 substrate-Mg2+ binding site; other site 1104320005783 catalytic residues [active] 1104320005784 aspartate-rich region 1; other site 1104320005785 active site lid residues [active] 1104320005786 aspartate-rich region 2; other site 1104320005787 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1104320005788 Transglycosylase; Region: Transgly; pfam00912 1104320005789 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1104320005790 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1104320005791 putative acyltransferase; Provisional; Region: PRK05790 1104320005792 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 1104320005793 dimer interface [polypeptide binding]; other site 1104320005794 active site 1104320005795 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1104320005796 ATP binding site [chemical binding]; other site 1104320005797 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1104320005798 putative Mg++ binding site [ion binding]; other site 1104320005799 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 1104320005800 nucleotide binding region [chemical binding]; other site 1104320005801 ATP-binding site [chemical binding]; other site 1104320005802 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 1104320005803 RNA binding surface [nucleotide binding]; other site 1104320005804 Ferredoxin [Energy production and conversion]; Region: COG1146 1104320005805 4Fe-4S binding domain; Region: Fer4; pfam00037 1104320005806 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1104320005807 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1104320005808 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 1104320005809 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104320005810 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 1104320005811 DNA binding residues [nucleotide binding] 1104320005812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1104320005813 MOSC domain; Region: MOSC; pfam03473 1104320005814 3-alpha domain; Region: 3-alpha; pfam03475 1104320005815 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1104320005816 Peptidase family M48; Region: Peptidase_M48; pfam01435 1104320005817 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 1104320005818 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 1104320005819 Walker A/P-loop; other site 1104320005820 ATP binding site [chemical binding]; other site 1104320005821 Q-loop/lid; other site 1104320005822 ABC transporter signature motif; other site 1104320005823 Walker B; other site 1104320005824 D-loop; other site 1104320005825 H-loop/switch region; other site 1104320005826 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1104320005827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320005828 dimer interface [polypeptide binding]; other site 1104320005829 conserved gate region; other site 1104320005830 putative PBP binding loops; other site 1104320005831 ABC-ATPase subunit interface; other site 1104320005832 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320005833 dimer interface [polypeptide binding]; other site 1104320005834 conserved gate region; other site 1104320005835 putative PBP binding loops; other site 1104320005836 ABC-ATPase subunit interface; other site 1104320005837 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1104320005838 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1104320005839 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1104320005840 Thiamine pyrophosphokinase; Region: TPK; cd07995 1104320005841 active site 1104320005842 dimerization interface [polypeptide binding]; other site 1104320005843 thiamine binding site [chemical binding]; other site 1104320005844 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104320005845 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104320005846 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104320005847 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 1104320005848 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1104320005849 Predicted integral membrane protein [Function unknown]; Region: COG5480 1104320005850 pyruvate kinase; Provisional; Region: PRK06247 1104320005851 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1104320005852 domain interfaces; other site 1104320005853 active site 1104320005854 TPR repeat; Region: TPR_11; pfam13414 1104320005855 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 1104320005856 TPR motif; other site 1104320005857 binding surface 1104320005858 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1104320005859 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1104320005860 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1104320005861 NAD binding site [chemical binding]; other site 1104320005862 ATP-grasp domain; Region: ATP-grasp; pfam02222 1104320005863 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1104320005864 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 1104320005865 Uncharacterized small protein [Function unknown]; Region: COG5570 1104320005866 potential frameshift: common BLAST hit: gi|340791339|ref|YP_004756804.1| major facilitator superfamily transporter 1104320005867 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 1104320005868 putative substrate translocation pore; other site 1104320005869 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1104320005870 Uncharacterized small protein containing a coiled-coil domain [Function unknown]; Region: COG5509 1104320005871 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1104320005872 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1104320005873 NAD(P) binding site [chemical binding]; other site 1104320005874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1104320005875 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 1104320005876 CoenzymeA binding site [chemical binding]; other site 1104320005877 subunit interaction site [polypeptide binding]; other site 1104320005878 PHB binding site; other site 1104320005879 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1104320005880 Predicted transcriptional regulator [Transcription]; Region: COG2378 1104320005881 HTH domain; Region: HTH_11; pfam08279 1104320005882 WYL domain; Region: WYL; pfam13280 1104320005883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320005884 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1104320005885 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1104320005886 acyl-activating enzyme (AAE) consensus motif; other site 1104320005887 putative AMP binding site [chemical binding]; other site 1104320005888 putative active site [active] 1104320005889 putative CoA binding site [chemical binding]; other site 1104320005890 Phosphoglycerate kinase; Region: PGK; pfam00162 1104320005891 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 1104320005892 substrate binding site [chemical binding]; other site 1104320005893 hinge regions; other site 1104320005894 ADP binding site [chemical binding]; other site 1104320005895 catalytic site [active] 1104320005896 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1104320005897 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1104320005898 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1104320005899 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1104320005900 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 1104320005901 TPP-binding site [chemical binding]; other site 1104320005902 dimer interface [polypeptide binding]; other site 1104320005903 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 1104320005904 PYR/PP interface [polypeptide binding]; other site 1104320005905 dimer interface [polypeptide binding]; other site 1104320005906 TPP binding site [chemical binding]; other site 1104320005907 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104320005908 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 1104320005909 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1104320005910 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1104320005911 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1104320005912 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1104320005913 putative active site [active] 1104320005914 metal binding site [ion binding]; metal-binding site 1104320005915 homodimer binding site [polypeptide binding]; other site 1104320005916 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1104320005917 Uncharacterized conserved protein [Function unknown]; Region: COG3543 1104320005918 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1104320005919 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104320005920 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320005921 DNA-binding site [nucleotide binding]; DNA binding site 1104320005922 FCD domain; Region: FCD; pfam07729 1104320005923 hypothetical protein; Validated; Region: PRK00110 1104320005924 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 1104320005925 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1104320005926 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104320005927 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320005928 Walker A/P-loop; other site 1104320005929 ATP binding site [chemical binding]; other site 1104320005930 Q-loop/lid; other site 1104320005931 ABC transporter signature motif; other site 1104320005932 Walker B; other site 1104320005933 D-loop; other site 1104320005934 H-loop/switch region; other site 1104320005935 hypothetical protein; Validated; Region: PRK09039 1104320005936 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1104320005937 ligand binding site [chemical binding]; other site 1104320005938 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104320005939 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 1104320005940 active site 1104320005941 dimerization interface [polypeptide binding]; other site 1104320005942 elongation factor P; Validated; Region: PRK00529 1104320005943 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1104320005944 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 1104320005945 RNA binding site [nucleotide binding]; other site 1104320005946 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 1104320005947 RNA binding site [nucleotide binding]; other site 1104320005948 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1104320005949 Sel1-like repeats; Region: SEL1; smart00671 1104320005950 Sel1-like repeats; Region: SEL1; smart00671 1104320005951 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 1104320005952 active site 1104320005953 thiamine phosphate binding site [chemical binding]; other site 1104320005954 pyrophosphate binding site [ion binding]; other site 1104320005955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4645 1104320005956 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1104320005957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 1104320005958 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1104320005959 active site 1104320005960 putative DNA-binding cleft [nucleotide binding]; other site 1104320005961 dimer interface [polypeptide binding]; other site 1104320005962 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1104320005963 RuvA N terminal domain; Region: RuvA_N; pfam01330 1104320005964 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1104320005965 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1104320005966 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 1104320005967 Walker A motif; other site 1104320005968 ATP binding site [chemical binding]; other site 1104320005969 Walker B motif; other site 1104320005970 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1104320005971 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 1104320005972 active site 1104320005973 TolQ protein; Region: tolQ; TIGR02796 1104320005974 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1104320005975 TolR protein; Region: tolR; TIGR02801 1104320005976 translocation protein TolB; Provisional; Region: tolB; PRK05137 1104320005977 TolB amino-terminal domain; Region: TolB_N; pfam04052 1104320005978 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1104320005979 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1104320005980 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1104320005981 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1104320005982 ligand binding site [chemical binding]; other site 1104320005983 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1104320005984 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1104320005985 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1104320005986 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 1104320005987 FtsH Extracellular; Region: FtsH_ext; pfam06480 1104320005988 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1104320005989 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 1104320005990 Walker A motif; other site 1104320005991 ATP binding site [chemical binding]; other site 1104320005992 Walker B motif; other site 1104320005993 arginine finger; other site 1104320005994 Peptidase family M41; Region: Peptidase_M41; pfam01434 1104320005995 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1104320005996 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 1104320005997 active site 1104320005998 substrate binding site [chemical binding]; other site 1104320005999 metal binding site [ion binding]; metal-binding site 1104320006000 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104320006001 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1104320006002 Sodium Bile acid symporter family; Region: SBF; pfam01758 1104320006003 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 1104320006004 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104320006005 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 1104320006006 catalytic residue [active] 1104320006007 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1104320006008 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1104320006009 ligand binding site [chemical binding]; other site 1104320006010 NAD binding site [chemical binding]; other site 1104320006011 dimerization interface [polypeptide binding]; other site 1104320006012 catalytic site [active] 1104320006013 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1104320006014 putative L-serine binding site [chemical binding]; other site 1104320006015 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1104320006016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104320006017 Coenzyme A binding pocket [chemical binding]; other site 1104320006018 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1104320006019 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 1104320006020 GDP-binding site [chemical binding]; other site 1104320006021 ACT binding site; other site 1104320006022 IMP binding site; other site 1104320006023 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 1104320006024 metabolite-proton symporter; Region: 2A0106; TIGR00883 1104320006025 putative substrate translocation pore; other site 1104320006026 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1104320006027 diiron binding motif [ion binding]; other site 1104320006028 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1104320006029 CCC1-related protein family; Region: CCC1_like_1; cd02437 1104320006030 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1104320006031 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 1104320006032 putative active site [active] 1104320006033 putative dimer interface [polypeptide binding]; other site 1104320006034 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104320006035 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 1104320006036 dimerization interface [polypeptide binding]; other site 1104320006037 putative DNA binding site [nucleotide binding]; other site 1104320006038 putative Zn2+ binding site [ion binding]; other site 1104320006039 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320006040 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1104320006041 trimer interface [polypeptide binding]; other site 1104320006042 active site 1104320006043 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1104320006044 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320006045 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320006046 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104320006047 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104320006048 Walker A/P-loop; other site 1104320006049 ATP binding site [chemical binding]; other site 1104320006050 Q-loop/lid; other site 1104320006051 ABC transporter signature motif; other site 1104320006052 Walker B; other site 1104320006053 D-loop; other site 1104320006054 H-loop/switch region; other site 1104320006055 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104320006056 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1104320006057 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104320006058 FtsX-like permease family; Region: FtsX; pfam02687 1104320006059 Predicted periplasmic protein [Function unknown]; Region: COG3698 1104320006060 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1104320006061 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1104320006062 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1104320006063 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1104320006064 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 1104320006065 tonB-system energizer ExbB; Region: exbB; TIGR02797 1104320006066 PRC-barrel domain; Region: PRC; pfam05239 1104320006067 PRC-barrel domain; Region: PRC; pfam05239 1104320006068 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1104320006069 CHASE3 domain; Region: CHASE3; pfam05227 1104320006070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1104320006071 Histidine kinase; Region: HisKA_2; pfam07568 1104320006072 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 1104320006073 ATP binding site [chemical binding]; other site 1104320006074 Mg2+ binding site [ion binding]; other site 1104320006075 G-X-G motif; other site 1104320006076 RNA polymerase sigma factor; Provisional; Region: PRK12516 1104320006077 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104320006078 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 1104320006079 DNA binding residues [nucleotide binding] 1104320006080 two-component response regulator; Provisional; Region: PRK09191 1104320006081 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 1104320006082 active site 1104320006083 phosphorylation site [posttranslational modification] 1104320006084 intermolecular recognition site; other site 1104320006085 dimerization interface [polypeptide binding]; other site 1104320006086 PAS fold; Region: PAS_4; pfam08448 1104320006087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1104320006088 HWE histidine kinase; Region: HWE_HK; pfam07536 1104320006089 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104320006090 metal binding site 2 [ion binding]; metal-binding site 1104320006091 putative DNA binding helix; other site 1104320006092 metal binding site 1 [ion binding]; metal-binding site 1104320006093 dimer interface [polypeptide binding]; other site 1104320006094 structural Zn2+ binding site [ion binding]; other site 1104320006095 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1104320006096 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 1104320006097 RNA binding surface [nucleotide binding]; other site 1104320006098 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104320006099 active site 1104320006100 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1104320006101 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1104320006102 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104320006103 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 1104320006104 DNA binding residues [nucleotide binding] 1104320006105 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1104320006106 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104320006107 Coenzyme A binding pocket [chemical binding]; other site 1104320006108 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 1104320006109 active site 1104320006110 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1104320006111 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1104320006112 active site 1104320006113 HIGH motif; other site 1104320006114 nucleotide binding site [chemical binding]; other site 1104320006115 active site 1104320006116 KMSKS motif; other site 1104320006117 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1104320006118 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104320006119 helix-hairpin-helix signature motif; other site 1104320006120 substrate binding pocket [chemical binding]; other site 1104320006121 active site 1104320006122 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1104320006123 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 1104320006124 active site 1104320006125 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1104320006126 Predicted membrane protein [Function unknown]; Region: COG1238 1104320006127 succinic semialdehyde dehydrogenase; Region: PLN02278 1104320006128 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1104320006129 tetramerization interface [polypeptide binding]; other site 1104320006130 NAD(P) binding site [chemical binding]; other site 1104320006131 catalytic residues [active] 1104320006132 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104320006133 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1104320006134 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104320006135 choline dehydrogenase; Validated; Region: PRK02106 1104320006136 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104320006137 Uncharacterized conserved protein [Function unknown]; Region: COG5591 1104320006138 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104320006139 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104320006140 Walker A/P-loop; other site 1104320006141 ATP binding site [chemical binding]; other site 1104320006142 Q-loop/lid; other site 1104320006143 ABC transporter signature motif; other site 1104320006144 Walker B; other site 1104320006145 D-loop; other site 1104320006146 H-loop/switch region; other site 1104320006147 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104320006148 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320006149 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 1104320006150 TM-ABC transporter signature motif; other site 1104320006151 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1104320006152 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1104320006153 putative ligand binding site [chemical binding]; other site 1104320006154 short chain dehydrogenase; Provisional; Region: PRK06841 1104320006155 classical (c) SDRs; Region: SDR_c; cd05233 1104320006156 NAD(P) binding site [chemical binding]; other site 1104320006157 active site 1104320006158 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1104320006159 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1104320006160 DAK2 domain; Region: Dak2; pfam02734 1104320006161 potential frameshift: common BLAST hit: gi|340791232|ref|YP_004756697.1| dihydroxyacetone kinase family protein 1104320006162 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1104320006163 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 1104320006164 DNA binding residues [nucleotide binding] 1104320006165 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1104320006166 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1104320006167 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1104320006168 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1104320006169 DAK2 domain; Region: Dak2; cl03685 1104320006170 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1104320006171 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1104320006172 active site 1104320006173 nucleophile elbow; other site 1104320006174 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104320006175 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1104320006176 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1104320006177 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 1104320006178 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 1104320006179 NAD binding site [chemical binding]; other site 1104320006180 substrate binding site [chemical binding]; other site 1104320006181 homotetramer interface [polypeptide binding]; other site 1104320006182 homodimer interface [polypeptide binding]; other site 1104320006183 active site 1104320006184 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 1104320006185 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 1104320006186 NAD binding site [chemical binding]; other site 1104320006187 substrate binding site [chemical binding]; other site 1104320006188 homotetramer interface [polypeptide binding]; other site 1104320006189 homodimer interface [polypeptide binding]; other site 1104320006190 active site 1104320006191 isocitrate lyase; Provisional; Region: PRK15063 1104320006192 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 1104320006193 tetramer interface [polypeptide binding]; other site 1104320006194 active site 1104320006195 Mg2+/Mn2+ binding site [ion binding]; other site 1104320006196 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 1104320006197 non-specific DNA binding site [nucleotide binding]; other site 1104320006198 salt bridge; other site 1104320006199 sequence-specific DNA binding site [nucleotide binding]; other site 1104320006200 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1104320006201 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1104320006202 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1104320006203 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1104320006204 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104320006205 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104320006206 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1104320006207 Walker A/P-loop; other site 1104320006208 ATP binding site [chemical binding]; other site 1104320006209 Q-loop/lid; other site 1104320006210 ABC transporter signature motif; other site 1104320006211 Walker B; other site 1104320006212 D-loop; other site 1104320006213 H-loop/switch region; other site 1104320006214 TOBE domain; Region: TOBE_2; pfam08402 1104320006215 potential frameshift: common BLAST hit: gi|340791216|ref|YP_004756681.1| spermidine/putrescine ABC transporter permease 1104320006216 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320006217 dimer interface [polypeptide binding]; other site 1104320006218 conserved gate region; other site 1104320006219 ABC-ATPase subunit interface; other site 1104320006220 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320006221 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104320006222 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320006223 dimer interface [polypeptide binding]; other site 1104320006224 conserved gate region; other site 1104320006225 putative PBP binding loops; other site 1104320006226 ABC-ATPase subunit interface; other site 1104320006227 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1104320006228 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1104320006229 PAS domain; Region: PAS_8; pfam13188 1104320006230 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1104320006231 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 1104320006232 putative active site [active] 1104320006233 heme pocket [chemical binding]; other site 1104320006234 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 1104320006235 dimer interface [polypeptide binding]; other site 1104320006236 phosphorylation site [posttranslational modification] 1104320006237 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 1104320006238 ATP binding site [chemical binding]; other site 1104320006239 Mg2+ binding site [ion binding]; other site 1104320006240 G-X-G motif; other site 1104320006241 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 1104320006242 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320006243 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320006244 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104320006245 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1104320006246 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 1104320006247 inhibitor-cofactor binding pocket; inhibition site 1104320006248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320006249 catalytic residue [active] 1104320006250 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104320006251 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 1104320006252 active site 1104320006253 phosphorylation site [posttranslational modification] 1104320006254 intermolecular recognition site; other site 1104320006255 dimerization interface [polypeptide binding]; other site 1104320006256 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 1104320006257 DNA binding site [nucleotide binding] 1104320006258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 1104320006259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 1104320006260 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1104320006261 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1104320006262 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1104320006263 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1104320006264 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 1104320006265 Ligand Binding Site [chemical binding]; other site 1104320006266 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1104320006267 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1104320006268 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104320006269 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 1104320006270 putative DNA binding site [nucleotide binding]; other site 1104320006271 putative Zn2+ binding site [ion binding]; other site 1104320006272 potential frameshift: common BLAST hit: gi|340791192|ref|YP_004756657.1| dipeptide ABC transporter extracellular solute-binding protein 1104320006273 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 1104320006274 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320006275 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 1104320006276 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1104320006277 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 1104320006278 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104320006279 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104320006280 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320006281 dimer interface [polypeptide binding]; other site 1104320006282 conserved gate region; other site 1104320006283 putative PBP binding loops; other site 1104320006284 ABC-ATPase subunit interface; other site 1104320006285 dipeptide transporter; Provisional; Region: PRK10913 1104320006286 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1104320006287 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320006288 dimer interface [polypeptide binding]; other site 1104320006289 conserved gate region; other site 1104320006290 putative PBP binding loops; other site 1104320006291 ABC-ATPase subunit interface; other site 1104320006292 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104320006293 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320006294 Walker A/P-loop; other site 1104320006295 ATP binding site [chemical binding]; other site 1104320006296 Q-loop/lid; other site 1104320006297 ABC transporter signature motif; other site 1104320006298 Walker B; other site 1104320006299 D-loop; other site 1104320006300 H-loop/switch region; other site 1104320006301 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104320006302 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104320006303 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104320006304 Walker A/P-loop; other site 1104320006305 ATP binding site [chemical binding]; other site 1104320006306 Q-loop/lid; other site 1104320006307 ABC transporter signature motif; other site 1104320006308 Walker B; other site 1104320006309 D-loop; other site 1104320006310 H-loop/switch region; other site 1104320006311 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104320006312 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1104320006313 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320006314 Walker A/P-loop; other site 1104320006315 ATP binding site [chemical binding]; other site 1104320006316 Q-loop/lid; other site 1104320006317 ABC transporter signature motif; other site 1104320006318 Walker B; other site 1104320006319 D-loop; other site 1104320006320 H-loop/switch region; other site 1104320006321 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320006322 dimer interface [polypeptide binding]; other site 1104320006323 conserved gate region; other site 1104320006324 putative PBP binding loops; other site 1104320006325 ABC-ATPase subunit interface; other site 1104320006326 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1104320006327 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1104320006328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 1104320006329 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG5459 1104320006330 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 1104320006331 putative substrate translocation pore; other site 1104320006332 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1104320006333 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104320006334 MarR family; Region: MarR_2; pfam12802 1104320006335 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1104320006336 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 1104320006337 putative DNA binding site [nucleotide binding]; other site 1104320006338 putative Zn2+ binding site [ion binding]; other site 1104320006339 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320006340 anthranilate synthase; Provisional; Region: PRK13566 1104320006341 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1104320006342 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1104320006343 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1104320006344 glutamine binding [chemical binding]; other site 1104320006345 catalytic triad [active] 1104320006346 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1104320006347 Cation efflux family; Region: Cation_efflux; pfam01545 1104320006348 2-isopropylmalate synthase; Validated; Region: PRK03739 1104320006349 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1104320006350 active site 1104320006351 catalytic residues [active] 1104320006352 metal binding site [ion binding]; metal-binding site 1104320006353 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1104320006354 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1104320006355 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1104320006356 active site 1104320006357 metal binding site [ion binding]; metal-binding site 1104320006358 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 1104320006359 nudix motif; other site 1104320006360 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1104320006361 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1104320006362 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1104320006363 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1104320006364 putative dimer interface [polypeptide binding]; other site 1104320006365 N-terminal domain interface [polypeptide binding]; other site 1104320006366 putative substrate binding pocket (H-site) [chemical binding]; other site 1104320006367 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104320006368 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104320006369 Coenzyme A binding pocket [chemical binding]; other site 1104320006370 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1104320006371 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 1104320006372 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1104320006373 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1104320006374 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1104320006375 Protein of unknown function DUF58; Region: DUF58; pfam01882 1104320006376 MoxR-like ATPases [General function prediction only]; Region: COG0714 1104320006377 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; cl17189 1104320006378 ATP binding site [chemical binding]; other site 1104320006379 Walker B motif; other site 1104320006380 arginine finger; other site 1104320006381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1104320006382 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1104320006383 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 1104320006384 putative active site [active] 1104320006385 putative CoA binding site [chemical binding]; other site 1104320006386 nudix motif; other site 1104320006387 metal binding site [ion binding]; metal-binding site 1104320006388 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1104320006389 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1104320006390 active site 1104320006391 NTP binding site [chemical binding]; other site 1104320006392 metal binding triad [ion binding]; metal-binding site 1104320006393 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1104320006394 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1104320006395 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1104320006396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104320006397 Coenzyme A binding pocket [chemical binding]; other site 1104320006398 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1104320006399 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 1104320006400 Purine nucleoside permease [Nucleotide transport and metabolism]; Region: NUP; COG5042 1104320006401 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1104320006402 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104320006403 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104320006404 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1104320006405 Walker A/P-loop; other site 1104320006406 ATP binding site [chemical binding]; other site 1104320006407 Q-loop/lid; other site 1104320006408 ABC transporter signature motif; other site 1104320006409 Walker B; other site 1104320006410 D-loop; other site 1104320006411 H-loop/switch region; other site 1104320006412 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104320006413 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104320006414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320006415 Walker A/P-loop; other site 1104320006416 ATP binding site [chemical binding]; other site 1104320006417 Q-loop/lid; other site 1104320006418 ABC transporter signature motif; other site 1104320006419 Walker B; other site 1104320006420 D-loop; other site 1104320006421 H-loop/switch region; other site 1104320006422 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1104320006423 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1104320006424 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 1104320006425 [2Fe-2S] cluster binding site [ion binding]; other site 1104320006426 cytochrome b; Provisional; Region: CYTB; MTH00191 1104320006427 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 1104320006428 Qi binding site; other site 1104320006429 intrachain domain interface; other site 1104320006430 interchain domain interface [polypeptide binding]; other site 1104320006431 heme bH binding site [chemical binding]; other site 1104320006432 heme bL binding site [chemical binding]; other site 1104320006433 Qo binding site; other site 1104320006434 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 1104320006435 interchain domain interface [polypeptide binding]; other site 1104320006436 intrachain domain interface; other site 1104320006437 Qi binding site; other site 1104320006438 Qo binding site; other site 1104320006439 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1104320006440 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104320006441 active site 1104320006442 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 1104320006443 putative active site [active] 1104320006444 putative catalytic site [active] 1104320006445 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 1104320006446 putative active site [active] 1104320006447 putative catalytic site [active] 1104320006448 GTP-binding protein YchF; Reviewed; Region: PRK09601 1104320006449 YchF GTPase; Region: YchF; cd01900 1104320006450 G1 box; other site 1104320006451 GTP/Mg2+ binding site [chemical binding]; other site 1104320006452 Switch I region; other site 1104320006453 G2 box; other site 1104320006454 Switch II region; other site 1104320006455 G3 box; other site 1104320006456 G4 box; other site 1104320006457 G5 box; other site 1104320006458 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 1104320006459 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 1104320006460 putative active site [active] 1104320006461 catalytic residue [active] 1104320006462 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1104320006463 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1104320006464 5S rRNA interface [nucleotide binding]; other site 1104320006465 CTC domain interface [polypeptide binding]; other site 1104320006466 L16 interface [polypeptide binding]; other site 1104320006467 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1104320006468 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1104320006469 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1104320006470 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104320006471 active site 1104320006472 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104320006473 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104320006474 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 1104320006475 active site 1104320006476 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1104320006477 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1104320006478 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1104320006479 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1104320006480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1104320006481 Uncharacterized conserved protein [Function unknown]; Region: COG5465 1104320006482 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 1104320006483 dimer interface [polypeptide binding]; other site 1104320006484 putative tRNA-binding site [nucleotide binding]; other site 1104320006485 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 1104320006486 dimer interface [polypeptide binding]; other site 1104320006487 phosphorylation site [posttranslational modification] 1104320006488 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 1104320006489 ATP binding site [chemical binding]; other site 1104320006490 Mg2+ binding site [ion binding]; other site 1104320006491 G-X-G motif; other site 1104320006492 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104320006493 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 1104320006494 active site 1104320006495 phosphorylation site [posttranslational modification] 1104320006496 intermolecular recognition site; other site 1104320006497 dimerization interface [polypeptide binding]; other site 1104320006498 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 1104320006499 DNA binding site [nucleotide binding] 1104320006500 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104320006501 MarR family; Region: MarR_2; pfam12802 1104320006502 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1104320006503 BA14K-like protein; Region: BA14K; pfam07886 1104320006504 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104320006505 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104320006506 catalytic residue [active] 1104320006507 excinuclease ABC subunit B; Provisional; Region: PRK05298 1104320006508 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 1104320006509 ATP binding site [chemical binding]; other site 1104320006510 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 1104320006511 nucleotide binding region [chemical binding]; other site 1104320006512 ATP-binding site [chemical binding]; other site 1104320006513 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1104320006514 UvrB/uvrC motif; Region: UVR; pfam02151 1104320006515 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1104320006516 Bacterial SH3 domain; Region: SH3_3; pfam08239 1104320006517 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 1104320006518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1104320006519 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1104320006520 Protein of unknown function, DUF486; Region: DUF486; cl01236 1104320006521 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104320006522 EamA-like transporter family; Region: EamA; pfam00892 1104320006523 EamA-like transporter family; Region: EamA; pfam00892 1104320006524 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1104320006525 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1104320006526 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1104320006527 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1104320006528 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 1104320006529 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104320006530 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104320006531 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 1104320006532 putative DNA binding site [nucleotide binding]; other site 1104320006533 putative Zn2+ binding site [ion binding]; other site 1104320006534 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320006535 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1104320006536 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1104320006537 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1104320006538 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104320006539 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320006540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320006541 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 1104320006542 putative effector binding pocket; other site 1104320006543 dimerization interface [polypeptide binding]; other site 1104320006544 aspartate aminotransferase; Provisional; Region: PRK05764 1104320006545 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 1104320006546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320006547 homodimer interface [polypeptide binding]; other site 1104320006548 catalytic residue [active] 1104320006549 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104320006550 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 1104320006551 putative C-terminal domain interface [polypeptide binding]; other site 1104320006552 putative GSH binding site (G-site) [chemical binding]; other site 1104320006553 putative dimer interface [polypeptide binding]; other site 1104320006554 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1104320006555 N-terminal domain interface [polypeptide binding]; other site 1104320006556 dimer interface [polypeptide binding]; other site 1104320006557 substrate binding pocket (H-site) [chemical binding]; other site 1104320006558 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104320006559 DNA-binding site [nucleotide binding]; DNA binding site 1104320006560 RNA-binding motif; other site 1104320006561 NUDIX domain; Region: NUDIX; pfam00293 1104320006562 nudix motif; other site 1104320006563 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1104320006564 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1104320006565 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1104320006566 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1104320006567 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104320006568 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104320006569 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1104320006570 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104320006571 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104320006572 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 1104320006573 IMP binding site; other site 1104320006574 dimer interface [polypeptide binding]; other site 1104320006575 partial ornithine binding site; other site 1104320006576 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1104320006577 LytTr DNA-binding domain; Region: LytTR; cl04498 1104320006578 Predicted membrane protein [Function unknown]; Region: COG5395 1104320006579 Predicted metalloprotease [General function prediction only]; Region: COG2321 1104320006580 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1104320006581 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1104320006582 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1104320006583 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1104320006584 catalytic site [active] 1104320006585 subunit interface [polypeptide binding]; other site 1104320006586 Uncharacterized conserved protein [Function unknown]; Region: COG1610 1104320006587 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1104320006588 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1104320006589 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1104320006590 PhoU domain; Region: PhoU; pfam01895 1104320006591 PhoU domain; Region: PhoU; pfam01895 1104320006592 DNA primase; Validated; Region: dnaG; PRK05667 1104320006593 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1104320006594 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1104320006595 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 1104320006596 active site 1104320006597 metal binding site [ion binding]; metal-binding site 1104320006598 interdomain interaction site; other site 1104320006599 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1104320006600 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1104320006601 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1104320006602 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1104320006603 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104320006604 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1104320006605 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 1104320006606 DNA binding residues [nucleotide binding] 1104320006607 Uncharacterized conserved protein [Function unknown]; Region: COG5453 1104320006608 hypothetical protein; Provisional; Region: PRK05170 1104320006609 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1104320006610 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1104320006611 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 1104320006612 DNA binding site [nucleotide binding] 1104320006613 active site 1104320006614 Int/Topo IB signature motif; other site 1104320006615 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1104320006616 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1104320006617 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1104320006618 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1104320006619 active site 1104320006620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 1104320006621 Isochorismatase family; Region: Isochorismatase; pfam00857 1104320006622 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 1104320006623 catalytic triad [active] 1104320006624 metal binding site [ion binding]; metal-binding site 1104320006625 conserved cis-peptide bond; other site 1104320006626 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1104320006627 PhnA protein; Region: PhnA; pfam03831 1104320006628 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1104320006629 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 1104320006630 FAD binding pocket [chemical binding]; other site 1104320006631 FAD binding motif [chemical binding]; other site 1104320006632 phosphate binding motif [ion binding]; other site 1104320006633 beta-alpha-beta structure motif; other site 1104320006634 NAD binding pocket [chemical binding]; other site 1104320006635 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 1104320006636 catalytic loop [active] 1104320006637 iron binding site [ion binding]; other site 1104320006638 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1104320006639 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 1104320006640 [2Fe-2S] cluster binding site [ion binding]; other site 1104320006641 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 1104320006642 putative alpha subunit interface [polypeptide binding]; other site 1104320006643 putative active site [active] 1104320006644 putative substrate binding site [chemical binding]; other site 1104320006645 Fe binding site [ion binding]; other site 1104320006646 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 1104320006647 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 1104320006648 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1104320006649 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104320006650 PGAP1-like protein; Region: PGAP1; pfam07819 1104320006651 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1104320006652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320006653 Walker A/P-loop; other site 1104320006654 ATP binding site [chemical binding]; other site 1104320006655 Q-loop/lid; other site 1104320006656 ABC transporter signature motif; other site 1104320006657 Walker B; other site 1104320006658 D-loop; other site 1104320006659 H-loop/switch region; other site 1104320006660 ABC transporter; Region: ABC_tran_2; pfam12848 1104320006661 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104320006662 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1104320006663 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 1104320006664 S-adenosylmethionine binding site [chemical binding]; other site 1104320006665 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1104320006666 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 1104320006667 putative substrate translocation pore; other site 1104320006668 Uncharacterized conserved protein [Function unknown]; Region: COG5586 1104320006669 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 1104320006670 dimerization interface [polypeptide binding]; other site 1104320006671 putative DNA binding site [nucleotide binding]; other site 1104320006672 putative Zn2+ binding site [ion binding]; other site 1104320006673 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1104320006674 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 1104320006675 S-adenosylmethionine binding site [chemical binding]; other site 1104320006676 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 1104320006677 FAD binding site [chemical binding]; other site 1104320006678 Predicted permeases [General function prediction only]; Region: COG0679 1104320006679 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 1104320006680 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1104320006681 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104320006682 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1104320006683 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 1104320006684 active site 1104320006685 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1104320006686 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1104320006687 putative metal binding site [ion binding]; other site 1104320006688 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 1104320006689 HSP70 interaction site [polypeptide binding]; other site 1104320006690 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1104320006691 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 1104320006692 amidase catalytic site [active] 1104320006693 Zn binding residues [ion binding]; other site 1104320006694 substrate binding site [chemical binding]; other site 1104320006695 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104320006696 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104320006697 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104320006698 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104320006699 catalytic residue [active] 1104320006700 manganese transport protein MntH; Reviewed; Region: PRK00701 1104320006701 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1104320006702 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1104320006703 MraW methylase family; Region: Methyltransf_5; cl17771 1104320006704 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1104320006705 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1104320006706 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1104320006707 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104320006708 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1104320006709 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104320006710 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104320006711 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104320006712 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 1104320006713 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104320006714 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104320006715 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104320006716 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1104320006717 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 1104320006718 Mg++ binding site [ion binding]; other site 1104320006719 putative catalytic motif [active] 1104320006720 putative substrate binding site [chemical binding]; other site 1104320006721 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1104320006722 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104320006723 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104320006724 cell division protein FtsW; Region: ftsW; TIGR02614 1104320006725 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 1104320006726 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1104320006727 active site 1104320006728 homodimer interface [polypeptide binding]; other site 1104320006729 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1104320006730 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104320006731 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104320006732 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104320006733 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1104320006734 FAD binding domain; Region: FAD_binding_4; pfam01565 1104320006735 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1104320006736 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1104320006737 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1104320006738 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104320006739 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1104320006740 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1104320006741 Cell division protein FtsQ; Region: FtsQ; pfam03799 1104320006742 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1104320006743 Cell division protein FtsA; Region: FtsA; smart00842 1104320006744 Cell division protein FtsA; Region: FtsA; pfam14450 1104320006745 cell division protein FtsZ; Validated; Region: PRK09330 1104320006746 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 1104320006747 nucleotide binding site [chemical binding]; other site 1104320006748 SulA interaction site; other site 1104320006749 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1104320006750 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1104320006751 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1104320006752 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1104320006753 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 1104320006754 binding surface 1104320006755 TPR motif; other site 1104320006756 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1104320006757 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1104320006758 Walker A/P-loop; other site 1104320006759 ATP binding site [chemical binding]; other site 1104320006760 Q-loop/lid; other site 1104320006761 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1104320006762 ABC transporter signature motif; other site 1104320006763 Walker B; other site 1104320006764 D-loop; other site 1104320006765 H-loop/switch region; other site 1104320006766 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1104320006767 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 1104320006768 nucleotide binding pocket [chemical binding]; other site 1104320006769 K-X-D-G motif; other site 1104320006770 catalytic site [active] 1104320006771 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1104320006772 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1104320006773 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 1104320006774 Dimer interface [polypeptide binding]; other site 1104320006775 BRCT sequence motif; other site 1104320006776 Uncharacterized conserved protein [Function unknown]; Region: COG5587 1104320006777 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104320006778 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104320006779 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 1104320006780 active site 1104320006781 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1104320006782 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 1104320006783 S-adenosylmethionine binding site [chemical binding]; other site 1104320006784 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1104320006785 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 1104320006786 Cu(I) binding site [ion binding]; other site 1104320006787 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 1104320006788 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 1104320006789 trimer interface [polypeptide binding]; other site 1104320006790 active site 1104320006791 substrate binding site [chemical binding]; other site 1104320006792 CoA binding site [chemical binding]; other site 1104320006793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1104320006794 CreA protein; Region: CreA; pfam05981 1104320006795 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1104320006796 Part of AAA domain; Region: AAA_19; pfam13245 1104320006797 Family description; Region: UvrD_C_2; pfam13538 1104320006798 serine/threonine protein kinase; Provisional; Region: PRK09188 1104320006799 serine/threonine protein kinase; Provisional; Region: PRK12274 1104320006800 Uncharacterized conserved protein [Function unknown]; Region: COG4702 1104320006801 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1104320006802 FAD binding domain; Region: FAD_binding_4; pfam01565 1104320006803 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1104320006804 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1104320006805 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1104320006806 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 1104320006807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1104320006808 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1104320006809 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104320006810 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1104320006811 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 1104320006812 putative substrate translocation pore; other site 1104320006813 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 1104320006814 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1104320006815 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 1104320006816 dimerization interface [polypeptide binding]; other site 1104320006817 active site 1104320006818 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1104320006819 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 1104320006820 folate binding site [chemical binding]; other site 1104320006821 NADP+ binding site [chemical binding]; other site 1104320006822 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1104320006823 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 1104320006824 HflK protein; Region: hflK; TIGR01933 1104320006825 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1104320006826 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 1104320006827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1104320006828 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1104320006829 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1104320006830 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 1104320006831 protein binding site [polypeptide binding]; other site 1104320006832 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 1104320006833 protein binding site [polypeptide binding]; other site 1104320006834 Predicted flavoproteins [General function prediction only]; Region: COG2081 1104320006835 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104320006836 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1104320006837 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104320006838 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 1104320006839 motif II; other site 1104320006840 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1104320006841 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1104320006842 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1104320006843 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1104320006844 PYR/PP interface [polypeptide binding]; other site 1104320006845 dimer interface [polypeptide binding]; other site 1104320006846 TPP binding site [chemical binding]; other site 1104320006847 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104320006848 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 1104320006849 TPP-binding site [chemical binding]; other site 1104320006850 dimer interface [polypeptide binding]; other site 1104320006851 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1104320006852 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1104320006853 putative valine binding site [chemical binding]; other site 1104320006854 dimer interface [polypeptide binding]; other site 1104320006855 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1104320006856 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 1104320006857 AAA domain; Region: AAA_30; pfam13604 1104320006858 Family description; Region: UvrD_C_2; pfam13538 1104320006859 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 1104320006860 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...; Region: PNPsynthase; cd00003 1104320006861 active site 1104320006862 hydrophilic channel; other site 1104320006863 dimerization interface [polypeptide binding]; other site 1104320006864 catalytic residues [active] 1104320006865 active site lid [active] 1104320006866 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1104320006867 potassium uptake protein; Region: kup; TIGR00794 1104320006868 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104320006869 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104320006870 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1104320006871 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1104320006872 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1104320006873 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1104320006874 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 1104320006875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320006876 homodimer interface [polypeptide binding]; other site 1104320006877 catalytic residue [active] 1104320006878 BA14K-like protein; Region: BA14K; pfam07886 1104320006879 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1104320006880 putative catalytic site [active] 1104320006881 putative metal binding site [ion binding]; other site 1104320006882 putative phosphate binding site [ion binding]; other site 1104320006883 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1104320006884 putative metal binding site [ion binding]; other site 1104320006885 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 1104320006886 nudix motif; other site 1104320006887 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1104320006888 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1104320006889 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1104320006890 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK01636 1104320006891 Uncharacterized conserved protein [Function unknown]; Region: COG3439 1104320006892 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1104320006893 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1104320006894 Walker A/P-loop; other site 1104320006895 ATP binding site [chemical binding]; other site 1104320006896 Q-loop/lid; other site 1104320006897 ABC transporter signature motif; other site 1104320006898 Walker B; other site 1104320006899 D-loop; other site 1104320006900 H-loop/switch region; other site 1104320006901 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 1104320006902 cobalt transport protein CbiM; Validated; Region: PRK06265 1104320006903 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1104320006904 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 1104320006905 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 1104320006906 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1104320006907 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104320006908 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1104320006909 UreF; Region: UreF; pfam01730 1104320006910 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 1104320006911 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 1104320006912 dimer interface [polypeptide binding]; other site 1104320006913 catalytic residues [active] 1104320006914 urease subunit alpha; Reviewed; Region: ureC; PRK13309 1104320006915 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 1104320006916 subunit interactions [polypeptide binding]; other site 1104320006917 active site 1104320006918 flap region; other site 1104320006919 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 1104320006920 alpha-beta subunit interface [polypeptide binding]; other site 1104320006921 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 1104320006922 alpha-gamma subunit interface [polypeptide binding]; other site 1104320006923 beta-gamma subunit interface [polypeptide binding]; other site 1104320006924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1104320006925 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1104320006926 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320006927 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320006928 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1104320006929 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104320006930 Walker A/P-loop; other site 1104320006931 ATP binding site [chemical binding]; other site 1104320006932 Q-loop/lid; other site 1104320006933 ABC transporter signature motif; other site 1104320006934 Walker B; other site 1104320006935 D-loop; other site 1104320006936 H-loop/switch region; other site 1104320006937 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104320006938 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104320006939 Walker A/P-loop; other site 1104320006940 ATP binding site [chemical binding]; other site 1104320006941 Q-loop/lid; other site 1104320006942 ABC transporter signature motif; other site 1104320006943 Walker B; other site 1104320006944 D-loop; other site 1104320006945 H-loop/switch region; other site 1104320006946 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1104320006947 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104320006948 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1104320006949 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104320006950 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1104320006951 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1104320006952 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 1104320006953 N-terminal plug; other site 1104320006954 ligand-binding site [chemical binding]; other site 1104320006955 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1104320006956 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 1104320006957 intersubunit interface [polypeptide binding]; other site 1104320006958 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1104320006959 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 1104320006960 ABC-ATPase subunit interface; other site 1104320006961 dimer interface [polypeptide binding]; other site 1104320006962 putative PBP binding regions; other site 1104320006963 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1104320006964 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1104320006965 Walker A/P-loop; other site 1104320006966 ATP binding site [chemical binding]; other site 1104320006967 Q-loop/lid; other site 1104320006968 ABC transporter signature motif; other site 1104320006969 Walker B; other site 1104320006970 D-loop; other site 1104320006971 H-loop/switch region; other site 1104320006972 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320006973 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320006974 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104320006975 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1104320006976 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104320006977 putative ligand binding site [chemical binding]; other site 1104320006978 potential frameshift: common BLAST hit: gi|161619288|ref|YP_001593175.1| monosaccharide-transporting ATPase 1104320006979 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 1104320006980 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 1104320006981 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320006982 TM-ABC transporter signature motif; other site 1104320006983 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104320006984 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104320006985 Walker A/P-loop; other site 1104320006986 ATP binding site [chemical binding]; other site 1104320006987 Q-loop/lid; other site 1104320006988 ABC transporter signature motif; other site 1104320006989 Walker B; other site 1104320006990 D-loop; other site 1104320006991 H-loop/switch region; other site 1104320006992 short chain dehydrogenase; Provisional; Region: PRK06198 1104320006993 classical (c) SDRs; Region: SDR_c; cd05233 1104320006994 NAD(P) binding site [chemical binding]; other site 1104320006995 active site 1104320006996 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1104320006997 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1104320006998 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1104320006999 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1104320007000 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1104320007001 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 1104320007002 Transporter associated domain; Region: CorC_HlyC; smart01091 1104320007003 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 1104320007004 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1104320007005 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1104320007006 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320007007 dimer interface [polypeptide binding]; other site 1104320007008 conserved gate region; other site 1104320007009 putative PBP binding loops; other site 1104320007010 ABC-ATPase subunit interface; other site 1104320007011 sulfate transport protein; Provisional; Region: cysT; CHL00187 1104320007012 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320007013 dimer interface [polypeptide binding]; other site 1104320007014 conserved gate region; other site 1104320007015 putative PBP binding loops; other site 1104320007016 ABC-ATPase subunit interface; other site 1104320007017 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1104320007018 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1104320007019 Predicted integral membrane protein [Function unknown]; Region: COG0392 1104320007020 putative cation:proton antiport protein; Provisional; Region: PRK10669 1104320007021 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1104320007022 TrkA-N domain; Region: TrkA_N; pfam02254 1104320007023 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1104320007024 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1104320007025 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1104320007026 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1104320007027 Protein export membrane protein; Region: SecD_SecF; pfam02355 1104320007028 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1104320007029 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1104320007030 potential frameshift: common BLAST hit: gi|340790938|ref|YP_004756403.1| sarcosine dehydrogenase 1104320007031 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104320007032 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1104320007033 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1104320007034 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104320007035 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1104320007036 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1104320007037 conserved cys residue [active] 1104320007038 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320007039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320007040 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320007041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320007042 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 1104320007043 dimerization interface [polypeptide binding]; other site 1104320007044 Predicted small secreted protein [Function unknown]; Region: COG5510 1104320007045 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104320007046 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1104320007047 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104320007048 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1104320007049 substrate binding pocket [chemical binding]; other site 1104320007050 FAD binding site [chemical binding]; other site 1104320007051 catalytic base [active] 1104320007052 cobyric acid synthase; Provisional; Region: PRK00784 1104320007053 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104320007054 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104320007055 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1104320007056 catalytic triad [active] 1104320007057 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 1104320007058 Predicted integral membrane protein [Function unknown]; Region: COG5446 1104320007059 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 1104320007060 homotrimer interface [polypeptide binding]; other site 1104320007061 Walker A motif; other site 1104320007062 GTP binding site [chemical binding]; other site 1104320007063 Walker B motif; other site 1104320007064 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1104320007065 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1104320007066 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1104320007067 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1104320007068 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1104320007069 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1104320007070 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1104320007071 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1104320007072 homodimer interface [polypeptide binding]; other site 1104320007073 Walker A motif; other site 1104320007074 ATP binding site [chemical binding]; other site 1104320007075 hydroxycobalamin binding site [chemical binding]; other site 1104320007076 Walker B motif; other site 1104320007077 Predicted membrane protein [Function unknown]; Region: COG2510 1104320007078 hypothetical protein; Provisional; Region: PRK10621 1104320007079 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1104320007080 tellurium resistance terB-like protein; Region: terB_like; cd07177 1104320007081 metal binding site [ion binding]; metal-binding site 1104320007082 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1104320007083 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1104320007084 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1104320007085 active site 1104320007086 SAM binding site [chemical binding]; other site 1104320007087 homodimer interface [polypeptide binding]; other site 1104320007088 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1104320007089 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1104320007090 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1104320007091 active site 1104320007092 SAM binding site [chemical binding]; other site 1104320007093 homodimer interface [polypeptide binding]; other site 1104320007094 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1104320007095 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104320007096 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1104320007097 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1104320007098 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 1104320007099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320007100 homodimer interface [polypeptide binding]; other site 1104320007101 catalytic residue [active] 1104320007102 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1104320007103 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104320007104 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 1104320007105 ligand binding site [chemical binding]; other site 1104320007106 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104320007107 potential frameshift: common BLAST hit: gi|340790909|ref|YP_004756374.1| putative monooxygenase 1104320007108 Flavin Reductases; Region: FlaRed; cl00801 1104320007109 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1104320007110 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1104320007111 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1104320007112 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1104320007113 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1104320007114 active site 1104320007115 SAM binding site [chemical binding]; other site 1104320007116 homodimer interface [polypeptide binding]; other site 1104320007117 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1104320007118 active site 1104320007119 SAM binding site [chemical binding]; other site 1104320007120 homodimer interface [polypeptide binding]; other site 1104320007121 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1104320007122 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1104320007123 precorrin-3B synthase; Region: CobG; TIGR02435 1104320007124 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1104320007125 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1104320007126 active site 1104320007127 SAM binding site [chemical binding]; other site 1104320007128 putative homodimer interface [polypeptide binding]; other site 1104320007129 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1104320007130 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 1104320007131 S-adenosylmethionine binding site [chemical binding]; other site 1104320007132 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104320007133 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1104320007134 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1104320007135 MPN+ (JAMM) motif; other site 1104320007136 Zinc-binding site [ion binding]; other site 1104320007137 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 1104320007138 active site 1104320007139 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1104320007140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 1104320007141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1104320007142 Peptidase M15; Region: Peptidase_M15_3; cl01194 1104320007143 aminotransferase; Validated; Region: PRK09148 1104320007144 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 1104320007145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320007146 homodimer interface [polypeptide binding]; other site 1104320007147 catalytic residue [active] 1104320007148 homoserine dehydrogenase; Provisional; Region: PRK06349 1104320007149 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1104320007150 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1104320007151 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 1104320007152 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1104320007153 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1104320007154 putative active site [active] 1104320007155 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1104320007156 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1104320007157 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104320007158 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1104320007159 DHH family; Region: DHH; pfam01368 1104320007160 potential frameshift: common BLAST hit: gi|340790886|ref|YP_004756351.1| import inner membrane translocase subunit Tim44 1104320007161 Tim44-like domain; Region: Tim44; cl09208 1104320007162 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320007163 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1104320007164 dimer interface [polypeptide binding]; other site 1104320007165 active site 1104320007166 metal binding site [ion binding]; metal-binding site 1104320007167 glutathione binding site [chemical binding]; other site 1104320007168 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104320007169 DNA-binding site [nucleotide binding]; DNA binding site 1104320007170 RNA-binding motif; other site 1104320007171 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104320007172 DNA-binding site [nucleotide binding]; DNA binding site 1104320007173 RNA-binding motif; other site 1104320007174 Uncharacterized conserved protein [Function unknown]; Region: COG1430 1104320007175 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1104320007176 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104320007177 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1104320007178 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 1104320007179 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 1104320007180 trimer interface [polypeptide binding]; other site 1104320007181 active site 1104320007182 substrate binding site [chemical binding]; other site 1104320007183 CoA binding site [chemical binding]; other site 1104320007184 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 1104320007185 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1104320007186 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 1104320007187 trimer interface [polypeptide binding]; other site 1104320007188 putative metal binding site [ion binding]; other site 1104320007189 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1104320007190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 1104320007191 PAS domain; Region: PAS_5; pfam07310 1104320007192 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1104320007193 FOG: CBS domain [General function prediction only]; Region: COG0517 1104320007194 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 1104320007195 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1104320007196 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1104320007197 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104320007198 elongation factor Tu; Reviewed; Region: PRK00049 1104320007199 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1104320007200 G1 box; other site 1104320007201 GEF interaction site [polypeptide binding]; other site 1104320007202 GTP/Mg2+ binding site [chemical binding]; other site 1104320007203 Switch I region; other site 1104320007204 G2 box; other site 1104320007205 G3 box; other site 1104320007206 Switch II region; other site 1104320007207 G4 box; other site 1104320007208 G5 box; other site 1104320007209 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 1104320007210 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 1104320007211 Antibiotic Binding Site [chemical binding]; other site 1104320007212 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1104320007213 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1104320007214 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1104320007215 putative homodimer interface [polypeptide binding]; other site 1104320007216 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1104320007217 heterodimer interface [polypeptide binding]; other site 1104320007218 homodimer interface [polypeptide binding]; other site 1104320007219 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1104320007220 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 1104320007221 23S rRNA interface [nucleotide binding]; other site 1104320007222 L7/L12 interface [polypeptide binding]; other site 1104320007223 putative thiostrepton binding site; other site 1104320007224 L25 interface [polypeptide binding]; other site 1104320007225 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 1104320007226 mRNA/rRNA interface [nucleotide binding]; other site 1104320007227 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 1104320007228 23S rRNA interface [nucleotide binding]; other site 1104320007229 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1104320007230 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 1104320007231 L11 interface [polypeptide binding]; other site 1104320007232 putative EF-Tu interaction site [polypeptide binding]; other site 1104320007233 putative EF-G interaction site [polypeptide binding]; other site 1104320007234 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1104320007235 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1104320007236 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1104320007237 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1104320007238 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 1104320007239 RPB11 interaction site [polypeptide binding]; other site 1104320007240 RPB12 interaction site [polypeptide binding]; other site 1104320007241 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 1104320007242 RPB1 interaction site [polypeptide binding]; other site 1104320007243 RPB11 interaction site [polypeptide binding]; other site 1104320007244 RPB10 interaction site [polypeptide binding]; other site 1104320007245 RPB3 interaction site [polypeptide binding]; other site 1104320007246 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1104320007247 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1104320007248 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1104320007249 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1104320007250 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1104320007251 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1104320007252 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1104320007253 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1104320007254 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1104320007255 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1104320007256 DNA binding site [nucleotide binding] 1104320007257 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1104320007258 Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins. S12 and S23 are located at the interface of the large and small ribosomal subunits, adjacent to the decoding...; Region: Ribosomal_S12_like; cl00312 1104320007259 30S ribosomal protein S7; Validated; Region: PRK05302 1104320007260 elongation factor G; Reviewed; Region: PRK00007 1104320007261 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1104320007262 G1 box; other site 1104320007263 putative GEF interaction site [polypeptide binding]; other site 1104320007264 GTP/Mg2+ binding site [chemical binding]; other site 1104320007265 Switch I region; other site 1104320007266 G2 box; other site 1104320007267 G3 box; other site 1104320007268 Switch II region; other site 1104320007269 G4 box; other site 1104320007270 G5 box; other site 1104320007271 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 1104320007272 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 1104320007273 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 1104320007274 elongation factor Tu; Reviewed; Region: PRK00049 1104320007275 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1104320007276 G1 box; other site 1104320007277 GEF interaction site [polypeptide binding]; other site 1104320007278 GTP/Mg2+ binding site [chemical binding]; other site 1104320007279 Switch I region; other site 1104320007280 G2 box; other site 1104320007281 G3 box; other site 1104320007282 Switch II region; other site 1104320007283 G4 box; other site 1104320007284 G5 box; other site 1104320007285 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 1104320007286 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 1104320007287 Antibiotic Binding Site [chemical binding]; other site 1104320007288 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1104320007289 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1104320007290 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1104320007291 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1104320007292 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1104320007293 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1104320007294 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1104320007295 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1104320007296 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 1104320007297 putative translocon binding site; other site 1104320007298 protein-rRNA interface [nucleotide binding]; other site 1104320007299 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1104320007300 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 1104320007301 G-X-X-G motif; other site 1104320007302 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1104320007303 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 1104320007304 23S rRNA interface [nucleotide binding]; other site 1104320007305 5S rRNA interface [nucleotide binding]; other site 1104320007306 putative antibiotic binding site [chemical binding]; other site 1104320007307 L25 interface [polypeptide binding]; other site 1104320007308 L27 interface [polypeptide binding]; other site 1104320007309 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 1104320007310 23S rRNA interface [nucleotide binding]; other site 1104320007311 putative translocon interaction site; other site 1104320007312 signal recognition particle (SRP54) interaction site; other site 1104320007313 L23 interface [polypeptide binding]; other site 1104320007314 trigger factor interaction site; other site 1104320007315 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1104320007316 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1104320007317 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1104320007318 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1104320007319 RNA binding site [nucleotide binding]; other site 1104320007320 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1104320007321 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1104320007322 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1104320007323 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1104320007324 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1104320007325 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1104320007326 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1104320007327 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1104320007328 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 1104320007329 5S rRNA interface [nucleotide binding]; other site 1104320007330 23S rRNA interface [nucleotide binding]; other site 1104320007331 L5 interface [polypeptide binding]; other site 1104320007332 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1104320007333 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1104320007334 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1104320007335 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 1104320007336 23S rRNA binding site [nucleotide binding]; other site 1104320007337 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1104320007338 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1104320007339 SecY translocase; Region: SecY; pfam00344 1104320007340 adenylate kinase; Reviewed; Region: adk; PRK00279 1104320007341 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 1104320007342 AMP-binding site [chemical binding]; other site 1104320007343 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1104320007344 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1104320007345 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1104320007346 30S ribosomal protein S11; Validated; Region: PRK05309 1104320007347 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1104320007348 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1104320007349 alphaNTD homodimer interface [polypeptide binding]; other site 1104320007350 alphaNTD - beta interaction site [polypeptide binding]; other site 1104320007351 alphaNTD - beta' interaction site [polypeptide binding]; other site 1104320007352 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1104320007353 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1104320007354 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1104320007355 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1104320007356 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 1104320007357 protein binding site [polypeptide binding]; other site 1104320007358 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 1104320007359 protein binding site [polypeptide binding]; other site 1104320007360 recombination factor protein RarA; Reviewed; Region: PRK13342 1104320007361 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 1104320007362 Walker A motif; other site 1104320007363 ATP binding site [chemical binding]; other site 1104320007364 Walker B motif; other site 1104320007365 arginine finger; other site 1104320007366 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1104320007367 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104320007368 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104320007369 catalytic residue [active] 1104320007370 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1104320007371 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1104320007372 ligand binding site [chemical binding]; other site 1104320007373 recombinase A; Provisional; Region: recA; PRK09354 1104320007374 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 1104320007375 hexamer interface [polypeptide binding]; other site 1104320007376 Walker A motif; other site 1104320007377 ATP binding site [chemical binding]; other site 1104320007378 Walker B motif; other site 1104320007379 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1104320007380 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1104320007381 motif 1; other site 1104320007382 active site 1104320007383 motif 2; other site 1104320007384 motif 3; other site 1104320007385 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1104320007386 alkaline phosphatase; Provisional; Region: PRK10518 1104320007387 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 1104320007388 dimer interface [polypeptide binding]; other site 1104320007389 active site 1104320007390 isocitrate dehydrogenase; Validated; Region: PRK08299 1104320007391 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1104320007392 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1104320007393 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1104320007394 conserved cys residue [active] 1104320007395 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1104320007396 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1104320007397 glutamate racemase; Provisional; Region: PRK00865 1104320007398 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1104320007399 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1104320007400 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1104320007401 DctM-like transporters; Region: DctM; pfam06808 1104320007402 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1104320007403 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 1104320007404 active site 1104320007405 substrate binding site [chemical binding]; other site 1104320007406 coenzyme B12 binding site [chemical binding]; other site 1104320007407 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 1104320007408 B12 binding site [chemical binding]; other site 1104320007409 cobalt ligand [ion binding]; other site 1104320007410 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1104320007411 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104320007412 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1104320007413 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104320007414 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 1104320007415 carboxyltransferase (CT) interaction site; other site 1104320007416 biotinylation site [posttranslational modification]; other site 1104320007417 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1104320007418 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1104320007419 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1104320007420 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104320007421 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 1104320007422 non-specific DNA binding site [nucleotide binding]; other site 1104320007423 salt bridge; other site 1104320007424 sequence-specific DNA binding site [nucleotide binding]; other site 1104320007425 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1104320007426 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1104320007427 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1104320007428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1104320007429 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1104320007430 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1104320007431 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104320007432 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1104320007433 DNA binding residues [nucleotide binding] 1104320007434 putative dimer interface [polypeptide binding]; other site 1104320007435 Predicted membrane protein [Function unknown]; Region: COG3503 1104320007436 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1104320007437 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104320007438 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 1104320007439 putative active site [active] 1104320007440 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1104320007441 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1104320007442 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1104320007443 Uncharacterized conserved protein [Function unknown]; Region: COG5458 1104320007444 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1104320007445 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1104320007446 Sporulation related domain; Region: SPOR; pfam05036 1104320007447 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1104320007448 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1104320007449 Clp amino terminal domain; Region: Clp_N; pfam02861 1104320007450 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 1104320007451 Walker A motif; other site 1104320007452 ATP binding site [chemical binding]; other site 1104320007453 Walker B motif; other site 1104320007454 arginine finger; other site 1104320007455 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 1104320007456 Walker A motif; other site 1104320007457 ATP binding site [chemical binding]; other site 1104320007458 Walker B motif; other site 1104320007459 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104320007460 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 1104320007461 HIT family signature motif; other site 1104320007462 catalytic residue [active] 1104320007463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 1104320007464 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1104320007465 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 1104320007466 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1104320007467 putative active site [active] 1104320007468 catalytic site [active] 1104320007469 putative metal binding site [ion binding]; other site 1104320007470 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 1104320007471 homotrimer interaction site [polypeptide binding]; other site 1104320007472 putative active site [active] 1104320007473 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 1104320007474 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1104320007475 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 1104320007476 rRNA interaction site [nucleotide binding]; other site 1104320007477 S8 interaction site; other site 1104320007478 putative laminin-1 binding site; other site 1104320007479 elongation factor Ts; Provisional; Region: tsf; PRK09377 1104320007480 UBA/TS-N domain; Region: UBA; pfam00627 1104320007481 Elongation factor TS; Region: EF_TS; pfam00889 1104320007482 Elongation factor TS; Region: EF_TS; pfam00889 1104320007483 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 1104320007484 putative nucleotide binding site [chemical binding]; other site 1104320007485 uridine monophosphate binding site [chemical binding]; other site 1104320007486 homohexameric interface [polypeptide binding]; other site 1104320007487 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1104320007488 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1104320007489 hinge region; other site 1104320007490 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 1104320007491 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 1104320007492 catalytic residue [active] 1104320007493 putative FPP diphosphate binding site; other site 1104320007494 putative FPP binding hydrophobic cleft; other site 1104320007495 dimer interface [polypeptide binding]; other site 1104320007496 putative IPP diphosphate binding site; other site 1104320007497 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1104320007498 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1104320007499 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1104320007500 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 1104320007501 active site 1104320007502 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 1104320007503 protein binding site [polypeptide binding]; other site 1104320007504 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 1104320007505 putative substrate binding region [chemical binding]; other site 1104320007506 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1104320007507 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1104320007508 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104320007509 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104320007510 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104320007511 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104320007512 Surface antigen; Region: Bac_surface_Ag; pfam01103 1104320007513 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1104320007514 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1104320007515 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 1104320007516 trimer interface [polypeptide binding]; other site 1104320007517 active site 1104320007518 UDP-GlcNAc binding site [chemical binding]; other site 1104320007519 lipid binding site [chemical binding]; lipid-binding site 1104320007520 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 1104320007521 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1104320007522 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 1104320007523 active site 1104320007524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1104320007525 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 1104320007526 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1104320007527 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 1104320007528 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1104320007529 dimer interface [polypeptide binding]; other site 1104320007530 active site 1104320007531 citrylCoA binding site [chemical binding]; other site 1104320007532 NADH binding [chemical binding]; other site 1104320007533 cationic pore residues; other site 1104320007534 oxalacetate/citrate binding site [chemical binding]; other site 1104320007535 coenzyme A binding site [chemical binding]; other site 1104320007536 catalytic triad [active] 1104320007537 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1104320007538 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104320007539 active site 1104320007540 HIGH motif; other site 1104320007541 nucleotide binding site [chemical binding]; other site 1104320007542 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1104320007543 active site 1104320007544 KMSKS motif; other site 1104320007545 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1104320007546 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1104320007547 Competence protein; Region: Competence; pfam03772 1104320007548 LexA repressor; Validated; Region: PRK00215 1104320007549 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1104320007550 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 1104320007551 Catalytic site [active] 1104320007552 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1104320007553 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 1104320007554 dimer interface [polypeptide binding]; other site 1104320007555 putative functional site; other site 1104320007556 putative MPT binding site; other site 1104320007557 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 1104320007558 trimer interface [polypeptide binding]; other site 1104320007559 dimer interface [polypeptide binding]; other site 1104320007560 putative active site [active] 1104320007561 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 1104320007562 active site 1104320007563 ribulose/triose binding site [chemical binding]; other site 1104320007564 phosphate binding site [ion binding]; other site 1104320007565 substrate (anthranilate) binding pocket [chemical binding]; other site 1104320007566 product (indole) binding pocket [chemical binding]; other site 1104320007567 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1104320007568 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1104320007569 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1104320007570 SurA N-terminal domain; Region: SurA_N_3; cl07813 1104320007571 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1104320007572 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1104320007573 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 1104320007574 triosephosphate isomerase; Provisional; Region: PRK14565 1104320007575 substrate binding site [chemical binding]; other site 1104320007576 dimer interface [polypeptide binding]; other site 1104320007577 catalytic triad [active] 1104320007578 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1104320007579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104320007580 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104320007581 CTP synthetase; Validated; Region: pyrG; PRK05380 1104320007582 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 1104320007583 Catalytic site [active] 1104320007584 active site 1104320007585 UTP binding site [chemical binding]; other site 1104320007586 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1104320007587 active site 1104320007588 putative oxyanion hole; other site 1104320007589 catalytic triad [active] 1104320007590 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1104320007591 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1104320007592 enolase; Provisional; Region: eno; PRK00077 1104320007593 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 1104320007594 dimer interface [polypeptide binding]; other site 1104320007595 metal binding site [ion binding]; metal-binding site 1104320007596 substrate binding pocket [chemical binding]; other site 1104320007597 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1104320007598 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 1104320007599 S-adenosylmethionine binding site [chemical binding]; other site 1104320007600 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1104320007601 Septum formation initiator; Region: DivIC; pfam04977 1104320007602 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1104320007603 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 1104320007604 tetramer interface [polypeptide binding]; other site 1104320007605 TPP-binding site [chemical binding]; other site 1104320007606 heterodimer interface [polypeptide binding]; other site 1104320007607 phosphorylation loop region [posttranslational modification] 1104320007608 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 1104320007609 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 1104320007610 E3 interaction surface; other site 1104320007611 lipoyl attachment site [posttranslational modification]; other site 1104320007612 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 1104320007613 alpha subunit interface [polypeptide binding]; other site 1104320007614 TPP binding site [chemical binding]; other site 1104320007615 heterodimer interface [polypeptide binding]; other site 1104320007616 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104320007617 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 1104320007618 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1104320007619 E3 interaction surface; other site 1104320007620 lipoyl attachment site [posttranslational modification]; other site 1104320007621 e3 binding domain; Region: E3_binding; pfam02817 1104320007622 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104320007623 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1104320007624 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1104320007625 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104320007626 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104320007627 lipoyl synthase; Provisional; Region: PRK05481 1104320007628 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 1104320007629 FeS/SAM binding site; other site 1104320007630 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1104320007631 putative coenzyme Q binding site [chemical binding]; other site 1104320007632 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1104320007633 classical (c) SDRs; Region: SDR_c; cd05233 1104320007634 NAD(P) binding site [chemical binding]; other site 1104320007635 active site 1104320007636 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1104320007637 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1104320007638 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1104320007639 substrate binding site; other site 1104320007640 dimer interface; other site 1104320007641 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 1104320007642 homotrimer interaction site [polypeptide binding]; other site 1104320007643 zinc binding site [ion binding]; other site 1104320007644 CDP-binding sites; other site 1104320007645 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1104320007646 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 1104320007647 FMN binding site [chemical binding]; other site 1104320007648 active site 1104320007649 catalytic residues [active] 1104320007650 substrate binding site [chemical binding]; other site 1104320007651 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1104320007652 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 1104320007653 dimer interface [polypeptide binding]; other site 1104320007654 phosphorylation site [posttranslational modification] 1104320007655 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 1104320007656 ATP binding site [chemical binding]; other site 1104320007657 Mg2+ binding site [ion binding]; other site 1104320007658 G-X-G motif; other site 1104320007659 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1104320007660 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 1104320007661 active site 1104320007662 phosphorylation site [posttranslational modification] 1104320007663 intermolecular recognition site; other site 1104320007664 dimerization interface [polypeptide binding]; other site 1104320007665 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 1104320007666 Walker A motif; other site 1104320007667 ATP binding site [chemical binding]; other site 1104320007668 Walker B motif; other site 1104320007669 arginine finger; other site 1104320007670 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1104320007671 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1104320007672 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 1104320007673 dimerization interface [polypeptide binding]; other site 1104320007674 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 1104320007675 dimer interface [polypeptide binding]; other site 1104320007676 phosphorylation site [posttranslational modification] 1104320007677 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 1104320007678 ATP binding site [chemical binding]; other site 1104320007679 Mg2+ binding site [ion binding]; other site 1104320007680 G-X-G motif; other site 1104320007681 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1104320007682 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 1104320007683 active site 1104320007684 phosphorylation site [posttranslational modification] 1104320007685 intermolecular recognition site; other site 1104320007686 dimerization interface [polypeptide binding]; other site 1104320007687 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 1104320007688 Walker A motif; other site 1104320007689 ATP binding site [chemical binding]; other site 1104320007690 Walker B motif; other site 1104320007691 arginine finger; other site 1104320007692 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1104320007693 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1104320007694 TrkA-N domain; Region: TrkA_N; pfam02254 1104320007695 TrkA-C domain; Region: TrkA_C; pfam02080 1104320007696 TrkA-N domain; Region: TrkA_N; pfam02254 1104320007697 TrkA-C domain; Region: TrkA_C; pfam02080 1104320007698 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 1104320007699 bacterial Hfq-like; Region: Hfq; cd01716 1104320007700 hexamer interface [polypeptide binding]; other site 1104320007701 Sm1 motif; other site 1104320007702 RNA binding site [nucleotide binding]; other site 1104320007703 Sm2 motif; other site 1104320007704 GTPases [General function prediction only]; Region: HflX; COG2262 1104320007705 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1104320007706 HflX GTPase family; Region: HflX; cd01878 1104320007707 G1 box; other site 1104320007708 GTP/Mg2+ binding site [chemical binding]; other site 1104320007709 Switch I region; other site 1104320007710 G2 box; other site 1104320007711 G3 box; other site 1104320007712 Switch II region; other site 1104320007713 G4 box; other site 1104320007714 G5 box; other site 1104320007715 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1104320007716 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1104320007717 oligomer interface [polypeptide binding]; other site 1104320007718 active site residues [active] 1104320007719 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1104320007720 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1104320007721 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 1104320007722 Walker A motif; other site 1104320007723 ATP binding site [chemical binding]; other site 1104320007724 Walker B motif; other site 1104320007725 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1104320007726 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1104320007727 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1104320007728 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 1104320007729 Walker A motif; other site 1104320007730 ATP binding site [chemical binding]; other site 1104320007731 Walker B motif; other site 1104320007732 arginine finger; other site 1104320007733 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1104320007734 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 1104320007735 IHF dimer interface [polypeptide binding]; other site 1104320007736 IHF - DNA interface [nucleotide binding]; other site 1104320007737 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1104320007738 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1104320007739 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1104320007740 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1104320007741 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1104320007742 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 1104320007743 dimer interface [polypeptide binding]; other site 1104320007744 ssDNA binding site [nucleotide binding]; other site 1104320007745 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104320007746 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 1104320007747 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320007748 DNA-binding site [nucleotide binding]; DNA binding site 1104320007749 UTRA domain; Region: UTRA; pfam07702 1104320007750 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 1104320007751 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1104320007752 DNA gyrase subunit A; Validated; Region: PRK05560 1104320007753 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1104320007754 CAP-like domain; other site 1104320007755 active site 1104320007756 primary dimer interface [polypeptide binding]; other site 1104320007757 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104320007758 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104320007759 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104320007760 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104320007761 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104320007762 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1104320007763 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1104320007764 active site 1104320007765 (T/H)XGH motif; other site 1104320007766 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 1104320007767 active site 1104320007768 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 1104320007769 active site 1104320007770 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1104320007771 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1104320007772 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1104320007773 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1104320007774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104320007775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104320007776 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104320007777 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320007778 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320007779 multidrug efflux protein; Reviewed; Region: PRK09579 1104320007780 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1104320007781 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1104320007782 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1104320007783 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1104320007784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320007785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320007786 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 1104320007787 dimerization interface [polypeptide binding]; other site 1104320007788 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1104320007789 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104320007790 FAD binding site [chemical binding]; other site 1104320007791 substrate binding pocket [chemical binding]; other site 1104320007792 catalytic base [active] 1104320007793 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104320007794 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1104320007795 Prophage antirepressor [Transcription]; Region: COG3617 1104320007796 BRO family, N-terminal domain; Region: Bro-N; smart01040 1104320007797 BRO family, N-terminal domain; Region: Bro-N; cl10591 1104320007798 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1104320007799 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1104320007800 catalytic residues [active] 1104320007801 catalytic nucleophile [active] 1104320007802 Presynaptic Site I dimer interface [polypeptide binding]; other site 1104320007803 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1104320007804 Synaptic Flat tetramer interface [polypeptide binding]; other site 1104320007805 Synaptic Site I dimer interface [polypeptide binding]; other site 1104320007806 DNA binding site [nucleotide binding] 1104320007807 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104320007808 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 1104320007809 active site 1104320007810 DNA binding site [nucleotide binding] 1104320007811 Int/Topo IB signature motif; other site 1104320007812 hypothetical protein; Provisional; Region: PRK10279 1104320007813 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1104320007814 nucleophile elbow; other site 1104320007815 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1104320007816 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1104320007817 homodecamer interface [polypeptide binding]; other site 1104320007818 GTP cyclohydrolase I; Provisional; Region: PLN03044 1104320007819 active site 1104320007820 putative catalytic site residues [active] 1104320007821 zinc binding site [ion binding]; other site 1104320007822 GTP-CH-I/GFRP interaction surface; other site 1104320007823 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1104320007824 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1104320007825 trimerization site [polypeptide binding]; other site 1104320007826 active site 1104320007827 hypothetical protein; Validated; Region: PRK00041 1104320007828 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1104320007829 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1104320007830 Sporulation related domain; Region: SPOR; pfam05036 1104320007831 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1104320007832 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 1104320007833 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1104320007834 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 1104320007835 active site 1104320007836 dimer interface [polypeptide binding]; other site 1104320007837 motif 1; other site 1104320007838 motif 2; other site 1104320007839 motif 3; other site 1104320007840 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 1104320007841 anticodon binding site; other site 1104320007842 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 1104320007843 putative FMN binding site [chemical binding]; other site 1104320007844 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1104320007845 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1104320007846 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 1104320007847 homodimer interface [polypeptide binding]; other site 1104320007848 metal binding site [ion binding]; metal-binding site 1104320007849 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 1104320007850 homodimer interface [polypeptide binding]; other site 1104320007851 active site 1104320007852 putative chemical substrate binding site [chemical binding]; other site 1104320007853 metal binding site [ion binding]; metal-binding site 1104320007854 UDP-glucose 4-epimerase; Region: PLN02240 1104320007855 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1104320007856 NAD binding site [chemical binding]; other site 1104320007857 homodimer interface [polypeptide binding]; other site 1104320007858 active site 1104320007859 substrate binding site [chemical binding]; other site 1104320007860 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1104320007861 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1104320007862 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 1104320007863 Tetratricopeptide repeat; Region: TPR_1; pfam00515 1104320007864 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 1104320007865 S-adenosylmethionine binding site [chemical binding]; other site 1104320007866 potential frameshift: common BLAST hit: gi|340790679|ref|YP_004756144.1| zinc-binding alcohol dehydrogenase family protein 1104320007867 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1104320007868 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104320007869 NAD(P) binding site [chemical binding]; other site 1104320007870 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1104320007871 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104320007872 potential frameshift: common BLAST hit: gi|256369487|ref|YP_003106995.1| proline dipeptidase 1104320007873 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 1104320007874 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104320007875 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104320007876 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 1104320007877 active site 1104320007878 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1104320007879 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320007880 potential frameshift: common BLAST hit: gi|163843326|ref|YP_001627730.1| EmrB/QacA family drug resistance transporter 1104320007881 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 1104320007882 putative substrate translocation pore; other site 1104320007883 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1104320007884 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1104320007885 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1104320007886 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1104320007887 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104320007888 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104320007889 Coenzyme A binding pocket [chemical binding]; other site 1104320007890 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1104320007891 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 1104320007892 active site residue [active] 1104320007893 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 1104320007894 active site residue [active] 1104320007895 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1104320007896 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1104320007897 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1104320007898 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 1104320007899 dimer interface [polypeptide binding]; other site 1104320007900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320007901 catalytic residue [active] 1104320007902 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 1104320007903 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1104320007904 ATP binding site [chemical binding]; other site 1104320007905 Mg++ binding site [ion binding]; other site 1104320007906 motif III; other site 1104320007907 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 1104320007908 nucleotide binding region [chemical binding]; other site 1104320007909 ATP-binding site [chemical binding]; other site 1104320007910 threonine dehydratase; Validated; Region: PRK08639 1104320007911 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 1104320007912 tetramer interface [polypeptide binding]; other site 1104320007913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320007914 catalytic residue [active] 1104320007915 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1104320007916 putative Ile/Val binding site [chemical binding]; other site 1104320007917 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1104320007918 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1104320007919 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1104320007920 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 1104320007921 putative MPT binding site; other site 1104320007922 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 1104320007923 Ligand Binding Site [chemical binding]; other site 1104320007924 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104320007925 active site 1104320007926 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 1104320007927 nudix motif; other site 1104320007928 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 1104320007929 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1104320007930 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1104320007931 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1104320007932 active site 1104320007933 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1104320007934 TSCPD domain; Region: TSCPD; pfam12637 1104320007935 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1104320007936 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1104320007937 Beta-lactamase; Region: Beta-lactamase; pfam00144 1104320007938 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1104320007939 Predicted flavoproteins [General function prediction only]; Region: COG2081 1104320007940 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104320007941 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 1104320007942 PAS domain; Region: PAS_9; pfam13426 1104320007943 putative active site [active] 1104320007944 heme pocket [chemical binding]; other site 1104320007945 PAS fold; Region: PAS_4; pfam08448 1104320007946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320007947 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 1104320007948 dimer interface [polypeptide binding]; other site 1104320007949 phosphorylation site [posttranslational modification] 1104320007950 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 1104320007951 ATP binding site [chemical binding]; other site 1104320007952 Mg2+ binding site [ion binding]; other site 1104320007953 G-X-G motif; other site 1104320007954 Response regulator receiver domain; Region: Response_reg; pfam00072 1104320007955 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 1104320007956 active site 1104320007957 phosphorylation site [posttranslational modification] 1104320007958 intermolecular recognition site; other site 1104320007959 dimerization interface [polypeptide binding]; other site 1104320007960 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1104320007961 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1104320007962 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 1104320007963 catalytic core [active] 1104320007964 YcjX-like family, DUF463; Region: DUF463; cl01193 1104320007965 Predicted membrane protein [Function unknown]; Region: COG3768 1104320007966 Domain of unknown function (DUF697); Region: DUF697; cl12064 1104320007967 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 1104320007968 catalytic center binding site [active] 1104320007969 ATP binding site [chemical binding]; other site 1104320007970 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 1104320007971 homooctamer interface [polypeptide binding]; other site 1104320007972 active site 1104320007973 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 1104320007974 dihydropteroate synthase; Region: DHPS; TIGR01496 1104320007975 substrate binding pocket [chemical binding]; other site 1104320007976 dimer interface [polypeptide binding]; other site 1104320007977 inhibitor binding site; inhibition site 1104320007978 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 1104320007979 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1104320007980 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1104320007981 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 1104320007982 catalytic loop [active] 1104320007983 iron binding site [ion binding]; other site 1104320007984 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1104320007985 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 1104320007986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1104320007987 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1104320007988 mce related protein; Region: MCE; pfam02470 1104320007989 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1104320007990 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1104320007991 Walker A/P-loop; other site 1104320007992 ATP binding site [chemical binding]; other site 1104320007993 Q-loop/lid; other site 1104320007994 ABC transporter signature motif; other site 1104320007995 Walker B; other site 1104320007996 D-loop; other site 1104320007997 H-loop/switch region; other site 1104320007998 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 1104320007999 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1104320008000 Permease; Region: Permease; pfam02405 1104320008001 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1104320008002 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 1104320008003 active site 1104320008004 malic enzyme; Reviewed; Region: PRK12862 1104320008005 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1104320008006 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1104320008007 putative NAD(P) binding site [chemical binding]; other site 1104320008008 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1104320008009 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1104320008010 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104320008011 active site 1104320008012 HIGH motif; other site 1104320008013 nucleotide binding site [chemical binding]; other site 1104320008014 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1104320008015 active site 1104320008016 KMSKS motif; other site 1104320008017 NAD synthetase; Provisional; Region: PRK13981 1104320008018 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1104320008019 multimer interface [polypeptide binding]; other site 1104320008020 active site 1104320008021 catalytic triad [active] 1104320008022 protein interface 1 [polypeptide binding]; other site 1104320008023 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 1104320008024 homodimer interface [polypeptide binding]; other site 1104320008025 NAD binding pocket [chemical binding]; other site 1104320008026 ATP binding pocket [chemical binding]; other site 1104320008027 Mg binding site [ion binding]; other site 1104320008028 active-site loop [active] 1104320008029 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1104320008030 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1104320008031 glutathione reductase; Validated; Region: PRK06116 1104320008032 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104320008033 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104320008034 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104320008035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 1104320008036 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 1104320008037 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104320008038 active site 1104320008039 dimer interface [polypeptide binding]; other site 1104320008040 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1104320008041 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 1104320008042 motif II; other site 1104320008043 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1104320008044 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 1104320008045 putative substrate binding site [chemical binding]; other site 1104320008046 putative ATP binding site [chemical binding]; other site 1104320008047 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1104320008048 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1104320008049 glutamine synthetase; Provisional; Region: glnA; PRK09469 1104320008050 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1104320008051 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1104320008052 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 1104320008053 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1104320008054 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; cl17915 1104320008055 motif I; other site 1104320008056 active site 1104320008057 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 1104320008058 motif II; other site 1104320008059 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104320008060 EamA-like transporter family; Region: EamA; pfam00892 1104320008061 EamA-like transporter family; Region: EamA; pfam00892 1104320008062 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1104320008063 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104320008064 active site 1104320008065 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 1104320008066 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104320008067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320008068 Walker A/P-loop; other site 1104320008069 ATP binding site [chemical binding]; other site 1104320008070 Q-loop/lid; other site 1104320008071 ABC transporter signature motif; other site 1104320008072 Walker B; other site 1104320008073 D-loop; other site 1104320008074 H-loop/switch region; other site 1104320008075 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1104320008076 putative hydrolase; Provisional; Region: PRK02113 1104320008077 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1104320008078 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1104320008079 active site 1104320008080 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1104320008081 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1104320008082 active site 1104320008083 HIGH motif; other site 1104320008084 KMSKS motif; other site 1104320008085 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1104320008086 tRNA binding surface [nucleotide binding]; other site 1104320008087 anticodon binding site; other site 1104320008088 DNA polymerase III subunit delta'; Validated; Region: PRK09112 1104320008089 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; cl17189 1104320008090 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1104320008091 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1104320008092 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 1104320008093 TMP-binding site; other site 1104320008094 ATP-binding site [chemical binding]; other site 1104320008095 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1104320008096 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1104320008097 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1104320008098 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1104320008099 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1104320008100 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 1104320008101 ArsC family; Region: ArsC; pfam03960 1104320008102 catalytic residues [active] 1104320008103 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1104320008104 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1104320008105 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1104320008106 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 1104320008107 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104320008108 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104320008109 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 1104320008110 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1104320008111 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104320008112 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1104320008113 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1104320008114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 1104320008115 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1104320008116 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104320008117 Porin subfamily; Region: Porin_2; pfam02530 1104320008118 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104320008119 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1104320008120 active site 1104320008121 Int/Topo IB signature motif; other site 1104320008122 catalytic residues [active] 1104320008123 DNA binding site [nucleotide binding] 1104320008124 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 1104320008125 potential frameshift: common BLAST hit: gi|17987297|ref|NP_539931.1| cell wall degradation protein 1104320008126 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104320008127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1104320008128 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104320008129 fumarate hydratase; Provisional; Region: PRK15389 1104320008130 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1104320008131 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1104320008132 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1104320008133 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1104320008134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1104320008135 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1104320008136 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 1104320008137 FeS/SAM binding site; other site 1104320008138 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1104320008139 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1104320008140 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1104320008141 GTP binding site; other site 1104320008142 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 1104320008143 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 1104320008144 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104320008145 substrate binding pocket [chemical binding]; other site 1104320008146 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104320008147 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1104320008148 N-terminal domain interface [polypeptide binding]; other site 1104320008149 potential frameshift: common BLAST hit: gi|225852460|ref|YP_002732693.1| 6-phosphogluconate dehydrogenase 1104320008150 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104320008151 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1104320008152 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1104320008153 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1104320008154 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1104320008155 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1104320008156 HIGH motif; other site 1104320008157 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1104320008158 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1104320008159 active site 1104320008160 KMSKS motif; other site 1104320008161 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1104320008162 tRNA binding surface [nucleotide binding]; other site 1104320008163 anticodon binding site; other site 1104320008164 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1104320008165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1104320008166 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1104320008167 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1104320008168 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 1104320008169 S-adenosylmethionine binding site [chemical binding]; other site 1104320008170 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1104320008171 metal-binding site [ion binding] 1104320008172 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 1104320008173 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1104320008174 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 1104320008175 ATP binding site [chemical binding]; other site 1104320008176 Mg++ binding site [ion binding]; other site 1104320008177 motif III; other site 1104320008178 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 1104320008179 nucleotide binding region [chemical binding]; other site 1104320008180 ATP-binding site [chemical binding]; other site 1104320008181 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1104320008182 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1104320008183 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1104320008184 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 1104320008185 active site 1104320008186 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1104320008187 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1104320008188 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1104320008189 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 1104320008190 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104320008191 catalytic residue [active] 1104320008192 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1104320008193 FeS assembly protein SufD; Region: sufD; TIGR01981 1104320008194 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1104320008195 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1104320008196 Walker A/P-loop; other site 1104320008197 ATP binding site [chemical binding]; other site 1104320008198 Q-loop/lid; other site 1104320008199 ABC transporter signature motif; other site 1104320008200 Walker B; other site 1104320008201 D-loop; other site 1104320008202 H-loop/switch region; other site 1104320008203 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1104320008204 putative ABC transporter; Region: ycf24; CHL00085 1104320008205 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1104320008206 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1104320008207 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104320008208 catalytic residue [active] 1104320008209 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1104320008210 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1104320008211 Predicted molecular chaperone distantly related to HSP70-fold metalloproteases [Posttranslational modification, protein turnover, chaperones]; Region: COG2377 1104320008212 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1104320008213 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1104320008214 active site 1104320008215 HIGH motif; other site 1104320008216 dimer interface [polypeptide binding]; other site 1104320008217 KMSKS motif; other site 1104320008218 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 1104320008219 RNA binding surface [nucleotide binding]; other site 1104320008220 AsmA family; Region: AsmA; pfam05170 1104320008221 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1104320008222 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 1104320008223 catalytic triad [active] 1104320008224 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1104320008225 dinuclear metal binding motif [ion binding]; other site 1104320008226 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1104320008227 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104320008228 peptide chain release factor 2; Provisional; Region: PRK07342 1104320008229 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1104320008230 RF-1 domain; Region: RF-1; pfam00472 1104320008231 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1104320008232 Transglycosylase; Region: Transgly; pfam00912 1104320008233 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104320008234 AMIN domain; Region: AMIN; pfam11741 1104320008235 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1104320008236 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 1104320008237 active site 1104320008238 metal binding site [ion binding]; metal-binding site 1104320008239 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 1104320008240 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 1104320008241 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1104320008242 aspartate aminotransferase; Provisional; Region: PRK05764 1104320008243 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 1104320008244 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320008245 homodimer interface [polypeptide binding]; other site 1104320008246 catalytic residue [active] 1104320008247 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1104320008248 Peptidase family M48; Region: Peptidase_M48; cl12018 1104320008249 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1104320008250 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 1104320008251 catalytic residues [active] 1104320008252 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1104320008253 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 1104320008254 trimer interface [polypeptide binding]; other site 1104320008255 active site 1104320008256 dimer interface [polypeptide binding]; other site 1104320008257 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1104320008258 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 1104320008259 carboxyltransferase (CT) interaction site; other site 1104320008260 biotinylation site [posttranslational modification]; other site 1104320008261 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1104320008262 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104320008263 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1104320008264 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104320008265 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1104320008266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1104320008267 NADH dehydrogenase; Validated; Region: PRK08183 1104320008268 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1104320008269 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104320008270 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1104320008271 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1104320008272 GatB domain; Region: GatB_Yqey; smart00845 1104320008273 trigger factor; Provisional; Region: tig; PRK01490 1104320008274 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1104320008275 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1104320008276 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 1104320008277 Predicted membrane protein [Function unknown]; Region: COG4872 1104320008278 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1104320008279 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1104320008280 Glucose inhibited division protein A; Region: GIDA; pfam01134 1104320008281 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 1104320008282 substrate binding pocket [chemical binding]; other site 1104320008283 substrate-Mg2+ binding site; other site 1104320008284 aspartate-rich region 1; other site 1104320008285 aspartate-rich region 2; other site 1104320008286 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 1104320008287 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 1104320008288 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1104320008289 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1104320008290 Protein export membrane protein; Region: SecD_SecF; pfam02355 1104320008291 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 1104320008292 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1104320008293 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 1104320008294 Walker A motif; other site 1104320008295 ATP binding site [chemical binding]; other site 1104320008296 Walker B motif; other site 1104320008297 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1104320008298 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104320008299 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104320008300 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1104320008301 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 1104320008302 S-adenosylmethionine binding site [chemical binding]; other site 1104320008303 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1104320008304 seryl-tRNA synthetase; Provisional; Region: PRK05431 1104320008305 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1104320008306 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1104320008307 dimer interface [polypeptide binding]; other site 1104320008308 active site 1104320008309 motif 1; other site 1104320008310 motif 2; other site 1104320008311 motif 3; other site 1104320008312 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1104320008313 sec-independent translocase; Provisional; Region: PRK00708 1104320008314 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1104320008315 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 1104320008316 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 1104320008317 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1104320008318 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1104320008319 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1104320008320 Sporulation related domain; Region: SPOR; pfam05036 1104320008321 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1104320008322 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1104320008323 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1104320008324 active site 1104320008325 HIGH motif; other site 1104320008326 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104320008327 KMSK motif region; other site 1104320008328 tRNA binding surface [nucleotide binding]; other site 1104320008329 DALR anticodon binding domain; Region: DALR_1; smart00836 1104320008330 anticodon binding site; other site 1104320008331 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1104320008332 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1104320008333 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1104320008334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1104320008335 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1104320008336 putative metal binding site [ion binding]; other site 1104320008337 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 1104320008338 putative catalytic site [active] 1104320008339 putative phosphate binding site [ion binding]; other site 1104320008340 active site 1104320008341 metal binding site A [ion binding]; metal-binding site 1104320008342 DNA binding site [nucleotide binding] 1104320008343 putative AP binding site [nucleotide binding]; other site 1104320008344 putative metal binding site B [ion binding]; other site 1104320008345 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1104320008346 Sel1-like repeats; Region: SEL1; smart00671 1104320008347 Staphylococcal nuclease homologues; Region: SNc; smart00318 1104320008348 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1104320008349 Catalytic site; other site 1104320008350 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1104320008351 putative uracil binding site [chemical binding]; other site 1104320008352 putative active site [active] 1104320008353 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104320008354 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 1104320008355 putative DNA binding site [nucleotide binding]; other site 1104320008356 putative Zn2+ binding site [ion binding]; other site 1104320008357 AsnC family; Region: AsnC_trans_reg; pfam01037 1104320008358 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1104320008359 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1104320008360 putative dimer interface [polypeptide binding]; other site 1104320008361 active site pocket [active] 1104320008362 putative cataytic base [active] 1104320008363 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1104320008364 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1104320008365 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1104320008366 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1104320008367 catalytic motif [active] 1104320008368 Catalytic residue [active] 1104320008369 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1104320008370 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 1104320008371 FMN binding site [chemical binding]; other site 1104320008372 active site 1104320008373 catalytic residues [active] 1104320008374 substrate binding site [chemical binding]; other site 1104320008375 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1104320008376 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 1104320008377 substrate binding pocket [chemical binding]; other site 1104320008378 membrane-bound complex binding site; other site 1104320008379 hinge residues; other site 1104320008380 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1104320008381 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 1104320008382 active site 1104320008383 motif I; other site 1104320008384 motif II; other site 1104320008385 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 1104320008386 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 1104320008387 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 1104320008388 active site 1104320008389 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1104320008390 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104320008391 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 1104320008392 substrate binding site [chemical binding]; other site 1104320008393 ATP binding site [chemical binding]; other site 1104320008394 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1104320008395 active site 1104320008396 catalytic residues [active] 1104320008397 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1104320008398 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1104320008399 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1104320008400 acyl carrier protein; Provisional; Region: PRK06508 1104320008401 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 1104320008402 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 1104320008403 active site 1104320008404 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 1104320008405 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 1104320008406 dimer interface [polypeptide binding]; other site 1104320008407 active site 1104320008408 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1104320008409 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 1104320008410 putative NAD(P) binding site [chemical binding]; other site 1104320008411 structural Zn binding site [ion binding]; other site 1104320008412 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1104320008413 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1104320008414 putative acyl-acceptor binding pocket; other site 1104320008415 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1104320008416 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 1104320008417 substrate binding site [chemical binding]; other site 1104320008418 hexamer interface [polypeptide binding]; other site 1104320008419 metal binding site [ion binding]; metal-binding site 1104320008420 adenylosuccinate lyase; Provisional; Region: PRK07492 1104320008421 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1104320008422 tetramer interface [polypeptide binding]; other site 1104320008423 active site 1104320008424 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1104320008425 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 1104320008426 putative metal binding site [ion binding]; other site 1104320008427 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 1104320008428 active site 1104320008429 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1104320008430 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104320008431 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1104320008432 Uncharacterized conserved protein [Function unknown]; Region: COG5467 1104320008433 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1104320008434 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1104320008435 ATP binding site [chemical binding]; other site 1104320008436 active site 1104320008437 substrate binding site [chemical binding]; other site 1104320008438 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1104320008439 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1104320008440 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1104320008441 putative active site [active] 1104320008442 catalytic triad [active] 1104320008443 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104320008444 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 1104320008445 C-terminal domain interface [polypeptide binding]; other site 1104320008446 GSH binding site (G-site) [chemical binding]; other site 1104320008447 dimer interface [polypeptide binding]; other site 1104320008448 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1104320008449 N-terminal domain interface [polypeptide binding]; other site 1104320008450 dimer interface [polypeptide binding]; other site 1104320008451 substrate binding pocket (H-site) [chemical binding]; other site 1104320008452 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1104320008453 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 1104320008454 dimerization interface [polypeptide binding]; other site 1104320008455 ATP binding site [chemical binding]; other site 1104320008456 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 1104320008457 dimerization interface [polypeptide binding]; other site 1104320008458 ATP binding site [chemical binding]; other site 1104320008459 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1104320008460 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 1104320008461 putative GSH binding site [chemical binding]; other site 1104320008462 catalytic residues [active] 1104320008463 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1104320008464 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 1104320008465 putative substrate translocation pore; other site 1104320008466 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104320008467 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 1104320008468 active site 1104320008469 putative lithium-binding site [ion binding]; other site 1104320008470 substrate binding site [chemical binding]; other site 1104320008471 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1104320008472 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 1104320008473 Ligand Binding Site [chemical binding]; other site 1104320008474 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1104320008475 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1104320008476 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 1104320008477 RNA binding surface [nucleotide binding]; other site 1104320008478 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1104320008479 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 1104320008480 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1104320008481 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1104320008482 putative active site [active] 1104320008483 putative PHP Thumb interface [polypeptide binding]; other site 1104320008484 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 1104320008485 generic binding surface II; other site 1104320008486 generic binding surface I; other site 1104320008487 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104320008488 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104320008489 Walker A/P-loop; other site 1104320008490 ATP binding site [chemical binding]; other site 1104320008491 Q-loop/lid; other site 1104320008492 ABC transporter signature motif; other site 1104320008493 Walker B; other site 1104320008494 D-loop; other site 1104320008495 H-loop/switch region; other site 1104320008496 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1104320008497 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104320008498 FtsX-like permease family; Region: FtsX; pfam02687 1104320008499 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1104320008500 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1104320008501 dimer interface [polypeptide binding]; other site 1104320008502 motif 1; other site 1104320008503 active site 1104320008504 motif 2; other site 1104320008505 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1104320008506 active site 1104320008507 motif 3; other site 1104320008508 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 1104320008509 anticodon binding site; other site 1104320008510 Predicted secreted protein [Function unknown]; Region: COG5454 1104320008511 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320008512 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1104320008513 dimer interface [polypeptide binding]; other site 1104320008514 substrate binding site [chemical binding]; other site 1104320008515 metal binding site [ion binding]; metal-binding site 1104320008516 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1104320008517 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1104320008518 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1104320008519 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1104320008520 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1104320008521 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1104320008522 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1104320008523 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104320008524 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1104320008525 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104320008526 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1104320008527 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1104320008528 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104320008529 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1104320008530 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1104320008531 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1104320008532 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1104320008533 4Fe-4S binding domain; Region: Fer4; pfam00037 1104320008534 4Fe-4S binding domain; Region: Fer4; pfam00037 1104320008535 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1104320008536 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1104320008537 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1104320008538 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 1104320008539 catalytic loop [active] 1104320008540 iron binding site [ion binding]; other site 1104320008541 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1104320008542 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 1104320008543 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1104320008544 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1104320008545 SLBB domain; Region: SLBB; pfam10531 1104320008546 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1104320008547 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 1104320008548 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 1104320008549 putative dimer interface [polypeptide binding]; other site 1104320008550 [2Fe-2S] cluster binding site [ion binding]; other site 1104320008551 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1104320008552 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1104320008553 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1104320008554 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1104320008555 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1104320008556 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1104320008557 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 1104320008558 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 1104320008559 homodimer interface [polypeptide binding]; other site 1104320008560 substrate-cofactor binding pocket; other site 1104320008561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320008562 catalytic residue [active] 1104320008563 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 1104320008564 CoenzymeA binding site [chemical binding]; other site 1104320008565 subunit interaction site [polypeptide binding]; other site 1104320008566 PHB binding site; other site 1104320008567 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 1104320008568 23S rRNA interface [nucleotide binding]; other site 1104320008569 L3 interface [polypeptide binding]; other site 1104320008570 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1104320008571 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1104320008572 oligomer interface [polypeptide binding]; other site 1104320008573 putative active site [active] 1104320008574 Mn binding site [ion binding]; other site 1104320008575 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1104320008576 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1104320008577 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1104320008578 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1104320008579 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 1104320008580 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1104320008581 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1104320008582 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1104320008583 SLBB domain; Region: SLBB; pfam10531 1104320008584 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1104320008585 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1104320008586 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1104320008587 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1104320008588 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104320008589 DNA binding residues [nucleotide binding] 1104320008590 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 1104320008591 IHF - DNA interface [nucleotide binding]; other site 1104320008592 IHF dimer interface [polypeptide binding]; other site 1104320008593 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1104320008594 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 1104320008595 dimer interface [polypeptide binding]; other site 1104320008596 active site 1104320008597 CoA binding pocket [chemical binding]; other site 1104320008598 putative phosphate acyltransferase; Provisional; Region: PRK05331 1104320008599 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1104320008600 Uncharacterized conserved protein [Function unknown]; Region: COG5452 1104320008601 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1104320008602 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1104320008603 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 1104320008604 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1104320008605 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1104320008606 putative RNA binding site [nucleotide binding]; other site 1104320008607 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 1104320008608 homopentamer interface [polypeptide binding]; other site 1104320008609 active site 1104320008610 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1104320008611 Lumazine binding domain; Region: Lum_binding; pfam00677 1104320008612 Lumazine binding domain; Region: Lum_binding; pfam00677 1104320008613 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1104320008614 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 1104320008615 catalytic motif [active] 1104320008616 Zn binding site [ion binding]; other site 1104320008617 RibD C-terminal domain; Region: RibD_C; cl17279 1104320008618 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1104320008619 ATP cone domain; Region: ATP-cone; pfam03477 1104320008620 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1104320008621 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 1104320008622 dimer interface [polypeptide binding]; other site 1104320008623 active site 1104320008624 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1104320008625 folate binding site [chemical binding]; other site 1104320008626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1104320008627 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104320008628 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104320008629 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104320008630 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104320008631 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1104320008632 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1104320008633 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 1104320008634 substrate binding site [chemical binding]; other site 1104320008635 oxyanion hole (OAH) forming residues; other site 1104320008636 trimer interface [polypeptide binding]; other site 1104320008637 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1104320008638 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 1104320008639 dimer interface [polypeptide binding]; other site 1104320008640 allosteric magnesium binding site [ion binding]; other site 1104320008641 active site 1104320008642 aspartate-rich active site metal binding site; other site 1104320008643 Schiff base residues; other site 1104320008644 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1104320008645 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1104320008646 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 1104320008647 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1104320008648 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1104320008649 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1104320008650 CAP-like domain; other site 1104320008651 active site 1104320008652 primary dimer interface [polypeptide binding]; other site 1104320008653 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104320008654 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1104320008655 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 1104320008656 dimer interface [polypeptide binding]; other site 1104320008657 anticodon binding site; other site 1104320008658 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1104320008659 homodimer interface [polypeptide binding]; other site 1104320008660 motif 1; other site 1104320008661 active site 1104320008662 motif 2; other site 1104320008663 GAD domain; Region: GAD; pfam02938 1104320008664 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1104320008665 active site 1104320008666 motif 3; other site 1104320008667 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1104320008668 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1104320008669 catalytic site [active] 1104320008670 putative active site [active] 1104320008671 putative substrate binding site [chemical binding]; other site 1104320008672 HRDC domain; Region: HRDC; pfam00570 1104320008673 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1104320008674 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1104320008675 polyphosphate kinase; Provisional; Region: PRK05443 1104320008676 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1104320008677 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1104320008678 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1104320008679 putative domain interface [polypeptide binding]; other site 1104320008680 putative active site [active] 1104320008681 catalytic site [active] 1104320008682 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1104320008683 putative domain interface [polypeptide binding]; other site 1104320008684 putative active site [active] 1104320008685 catalytic site [active] 1104320008686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1104320008687 salicylate hydroxylase; Provisional; Region: PRK06475 1104320008688 salicylate hydroxylase; Provisional; Region: PRK08163 1104320008689 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104320008690 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104320008691 Walker A/P-loop; other site 1104320008692 ATP binding site [chemical binding]; other site 1104320008693 Q-loop/lid; other site 1104320008694 ABC transporter signature motif; other site 1104320008695 Walker B; other site 1104320008696 D-loop; other site 1104320008697 H-loop/switch region; other site 1104320008698 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104320008699 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320008700 dimer interface [polypeptide binding]; other site 1104320008701 conserved gate region; other site 1104320008702 putative PBP binding loops; other site 1104320008703 ABC-ATPase subunit interface; other site 1104320008704 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320008705 ABC-ATPase subunit interface; other site 1104320008706 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1104320008707 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1104320008708 conserved gate region; other site 1104320008709 potential frameshift: common BLAST hit: gi|256369174|ref|YP_003106682.1| amino acid ABC transporter substrate-binding protein 1104320008710 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 1104320008711 substrate binding pocket [chemical binding]; other site 1104320008712 membrane-bound complex binding site; other site 1104320008713 hinge residues; other site 1104320008714 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; cl17432 1104320008715 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1104320008716 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1104320008717 active site 1104320008718 cystathionine beta-lyase; Provisional; Region: PRK05967 1104320008719 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 1104320008720 homodimer interface [polypeptide binding]; other site 1104320008721 substrate-cofactor binding pocket; other site 1104320008722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320008723 catalytic residue [active] 1104320008724 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1104320008725 Bacterial SH3 domain; Region: SH3_3; pfam08239 1104320008726 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]; Region: COG4916 1104320008727 TIR domain; Region: TIR_2; pfam13676 1104320008728 potential frameshift: common BLAST hit: gi|17987500|ref|NP_540134.1| ApeA 1104320008729 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1104320008730 TniQ; Region: TniQ; pfam06527 1104320008731 AAA domain; Region: AAA_22; pfam13401 1104320008732 AAA ATPase domain; Region: AAA_16; pfam13191 1104320008733 Integrase core domain; Region: rve; pfam00665 1104320008734 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1104320008735 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1104320008736 active site 1104320008737 substrate binding site [chemical binding]; other site 1104320008738 catalytic site [active] 1104320008739 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 1104320008740 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1104320008741 L-lactate permease; Region: Lactate_perm; cl00701 1104320008742 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1104320008743 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1104320008744 putative NAD(P) binding site [chemical binding]; other site 1104320008745 putative active site [active] 1104320008746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104320008747 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1104320008748 NAD(P) binding site [chemical binding]; other site 1104320008749 active site 1104320008750 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104320008751 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104320008752 hypothetical protein; Validated; Region: PRK09087 1104320008753 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1104320008754 Walker A motif; other site 1104320008755 ATP binding site [chemical binding]; other site 1104320008756 Walker B motif; other site 1104320008757 arginine finger; other site 1104320008758 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1104320008759 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 1104320008760 dimerization interface [polypeptide binding]; other site 1104320008761 putative ATP binding site [chemical binding]; other site 1104320008762 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1104320008763 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1104320008764 active site 1104320008765 substrate binding site [chemical binding]; other site 1104320008766 cosubstrate binding site; other site 1104320008767 catalytic site [active] 1104320008768 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1104320008769 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 1104320008770 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1104320008771 putative molybdopterin cofactor binding site [chemical binding]; other site 1104320008772 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 1104320008773 putative molybdopterin cofactor binding site; other site 1104320008774 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1104320008775 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1104320008776 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1104320008777 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1104320008778 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 1104320008779 B1 nucleotide binding pocket [chemical binding]; other site 1104320008780 B2 nucleotide binding pocket [chemical binding]; other site 1104320008781 CAS motifs; other site 1104320008782 active site 1104320008783 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104320008784 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1104320008785 putative C-terminal domain interface [polypeptide binding]; other site 1104320008786 putative GSH binding site (G-site) [chemical binding]; other site 1104320008787 putative dimer interface [polypeptide binding]; other site 1104320008788 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1104320008789 dimer interface [polypeptide binding]; other site 1104320008790 N-terminal domain interface [polypeptide binding]; other site 1104320008791 putative substrate binding pocket (H-site) [chemical binding]; other site 1104320008792 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104320008793 short chain dehydrogenase; Provisional; Region: PRK09134 1104320008794 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1104320008795 NADP binding site [chemical binding]; other site 1104320008796 substrate binding pocket [chemical binding]; other site 1104320008797 active site 1104320008798 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1104320008799 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1104320008800 GIY-YIG motif/motif A; other site 1104320008801 active site 1104320008802 catalytic site [active] 1104320008803 putative DNA binding site [nucleotide binding]; other site 1104320008804 metal binding site [ion binding]; metal-binding site 1104320008805 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1104320008806 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1104320008807 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1104320008808 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1104320008809 MoaE interaction surface [polypeptide binding]; other site 1104320008810 MoeB interaction surface [polypeptide binding]; other site 1104320008811 thiocarboxylated glycine; other site 1104320008812 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 1104320008813 MoaE homodimer interface [polypeptide binding]; other site 1104320008814 MoaD interaction [polypeptide binding]; other site 1104320008815 active site residues [active] 1104320008816 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1104320008817 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1104320008818 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 1104320008819 active site 1104320008820 multimer interface [polypeptide binding]; other site 1104320008821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 1104320008822 DinB superfamily; Region: DinB_2; pfam12867 1104320008823 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104320008824 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104320008825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104320008826 Walker A/P-loop; other site 1104320008827 ATP binding site [chemical binding]; other site 1104320008828 ABC transporter signature motif; other site 1104320008829 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104320008830 Walker B; other site 1104320008831 D-loop; other site 1104320008832 ABC transporter; Region: ABC_tran_2; pfam12848 1104320008833 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104320008834 DNA polymerase III subunit chi; Validated; Region: PRK05728 1104320008835 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1104320008836 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 1104320008837 interface (dimer of trimers) [polypeptide binding]; other site 1104320008838 Substrate-binding/catalytic site; other site 1104320008839 Zn-binding sites [ion binding]; other site 1104320008840 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1104320008841 Predicted permeases [General function prediction only]; Region: COG0795 1104320008842 Predicted permeases [General function prediction only]; Region: COG0795 1104320008843 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1104320008844 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1104320008845 OstA-like protein; Region: OstA; cl00844 1104320008846 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1104320008847 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1104320008848 SurA N-terminal domain; Region: SurA_N; pfam09312 1104320008849 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 1104320008850 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1104320008851 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1104320008852 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 1104320008853 S-adenosylmethionine binding site [chemical binding]; other site 1104320008854 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1104320008855 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104320008856 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1104320008857 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1104320008858 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1104320008859 active site 1104320008860 catalytic residues [active] 1104320008861 metal binding site [ion binding]; metal-binding site 1104320008862 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1104320008863 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1104320008864 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1104320008865 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104320008866 active site 1104320008867 HIGH motif; other site 1104320008868 nucleotide binding site [chemical binding]; other site 1104320008869 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1104320008870 KMSKS motif; other site 1104320008871 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1104320008872 Lysine efflux permease [General function prediction only]; Region: COG1279 1104320008873 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1104320008874 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 1104320008875 nudix motif; other site 1104320008876 Predicted secreted protein [Function unknown]; Region: COG5451 1104320008877 dihydroorotase; Validated; Region: PRK09060 1104320008878 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 1104320008879 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 1104320008880 active site 1104320008881 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1104320008882 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1104320008883 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1104320008884 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1104320008885 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1104320008886 Recombination protein O N terminal; Region: RecO_N; pfam11967 1104320008887 DNA repair protein RecO; Region: reco; TIGR00613 1104320008888 Recombination protein O C terminal; Region: RecO_C; pfam02565 1104320008889 GTPase Era; Reviewed; Region: era; PRK00089 1104320008890 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1104320008891 G1 box; other site 1104320008892 GTP/Mg2+ binding site [chemical binding]; other site 1104320008893 Switch I region; other site 1104320008894 G2 box; other site 1104320008895 Switch II region; other site 1104320008896 G3 box; other site 1104320008897 G4 box; other site 1104320008898 G5 box; other site 1104320008899 KH domain; Region: KH_2; pfam07650 1104320008900 ribonuclease III; Reviewed; Region: PRK12371 1104320008901 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 1104320008902 dimerization interface [polypeptide binding]; other site 1104320008903 active site 1104320008904 metal binding site [ion binding]; metal-binding site 1104320008905 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 1104320008906 dsRNA binding site [nucleotide binding]; other site 1104320008907 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 1104320008908 Catalytic site [active] 1104320008909 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1104320008910 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 1104320008911 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1104320008912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 1104320008913 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1104320008914 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320008915 Helix-turn-helix domain; Region: HTH_18; pfam12833 1104320008916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320008917 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 1104320008918 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104320008919 putative substrate translocation pore; other site 1104320008920 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 1104320008921 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 1104320008922 FeS/SAM binding site; other site 1104320008923 HemN C-terminal domain; Region: HemN_C; pfam06969 1104320008924 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104320008925 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 1104320008926 ligand binding site [chemical binding]; other site 1104320008927 flexible hinge region; other site 1104320008928 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 1104320008929 putative switch regulator; other site 1104320008930 non-specific DNA interactions [nucleotide binding]; other site 1104320008931 DNA binding site [nucleotide binding] 1104320008932 sequence specific DNA binding site [nucleotide binding]; other site 1104320008933 putative cAMP binding site [chemical binding]; other site 1104320008934 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104320008935 active site 1104320008936 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1104320008937 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104320008938 Zn2+ binding site [ion binding]; other site 1104320008939 Mg2+ binding site [ion binding]; other site 1104320008940 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1104320008941 synthetase active site [active] 1104320008942 NTP binding site [chemical binding]; other site 1104320008943 metal binding site [ion binding]; metal-binding site 1104320008944 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 1104320008945 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1104320008946 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1104320008947 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1104320008948 LabA_like proteins; Region: LabA; cd10911 1104320008949 putative metal binding site [ion binding]; other site 1104320008950 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 1104320008951 Fe-S cluster binding site [ion binding]; other site 1104320008952 DNA binding site [nucleotide binding] 1104320008953 active site 1104320008954 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 1104320008955 SmpB-tmRNA interface; other site 1104320008956 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1104320008957 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1104320008958 dimer interface [polypeptide binding]; other site 1104320008959 active site 1104320008960 catalytic residue [active] 1104320008961 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104320008962 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104320008963 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104320008964 catalytic residue [active] 1104320008965 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1104320008966 Porin subfamily; Region: Porin_2; pfam02530 1104320008967 Porin subfamily; Region: Porin_2; pfam02530 1104320008968 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1104320008969 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 1104320008970 active site 1104320008971 DNA binding site [nucleotide binding] 1104320008972 Int/Topo IB signature motif; other site 1104320008973 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 1104320008974 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 1104320008975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320008976 homodimer interface [polypeptide binding]; other site 1104320008977 catalytic residue [active] 1104320008978 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1104320008979 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104320008980 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104320008981 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104320008982 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1104320008983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1104320008984 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 1104320008985 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1104320008986 C-terminal domain interface [polypeptide binding]; other site 1104320008987 GSH binding site (G-site) [chemical binding]; other site 1104320008988 dimer interface [polypeptide binding]; other site 1104320008989 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1104320008990 N-terminal domain interface [polypeptide binding]; other site 1104320008991 putative dimer interface [polypeptide binding]; other site 1104320008992 active site 1104320008993 AMP nucleosidase; Provisional; Region: PRK08292 1104320008994 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1104320008995 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1104320008996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 1104320008997 putative catalytic site [active] 1104320008998 putative metal binding site [ion binding]; other site 1104320008999 putative phosphate binding site [ion binding]; other site 1104320009000 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1104320009001 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104320009002 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1104320009003 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1104320009004 Fe-S cluster binding site [ion binding]; other site 1104320009005 active site 1104320009006 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 1104320009007 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104320009008 putative substrate translocation pore; other site 1104320009009 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104320009010 EamA-like transporter family; Region: EamA; pfam00892 1104320009011 aminopeptidase N; Provisional; Region: pepN; PRK14015 1104320009012 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1104320009013 active site 1104320009014 Zn binding site [ion binding]; other site 1104320009015 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 1104320009016 PAS fold; Region: PAS_3; pfam08447 1104320009017 putative active site [active] 1104320009018 heme pocket [chemical binding]; other site 1104320009019 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1104320009020 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 1104320009021 dimer interface [polypeptide binding]; other site 1104320009022 phosphorylation site [posttranslational modification] 1104320009023 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 1104320009024 ATP binding site [chemical binding]; other site 1104320009025 Mg2+ binding site [ion binding]; other site 1104320009026 G-X-G motif; other site 1104320009027 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 1104320009028 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; cl01298 1104320009029 O-Antigen ligase; Region: Wzy_C; pfam04932 1104320009030 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 1104320009031 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1104320009032 metal binding triad; other site 1104320009033 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1104320009034 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1104320009035 metal binding triad; other site 1104320009036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320009037 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1104320009038 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 1104320009039 dimerization interface [polypeptide binding]; other site 1104320009040 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 1104320009041 dimer interface [polypeptide binding]; other site 1104320009042 phosphorylation site [posttranslational modification] 1104320009043 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 1104320009044 ATP binding site [chemical binding]; other site 1104320009045 Mg2+ binding site [ion binding]; other site 1104320009046 G-X-G motif; other site 1104320009047 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104320009048 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 1104320009049 active site 1104320009050 phosphorylation site [posttranslational modification] 1104320009051 intermolecular recognition site; other site 1104320009052 dimerization interface [polypeptide binding]; other site 1104320009053 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 1104320009054 DNA binding site [nucleotide binding] 1104320009055 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1104320009056 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1104320009057 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 1104320009058 protein binding site [polypeptide binding]; other site 1104320009059 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 1104320009060 protein binding site [polypeptide binding]; other site 1104320009061 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 1104320009062 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1104320009063 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1104320009064 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1104320009065 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1104320009066 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1104320009067 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320009068 HAMP domain; Region: HAMP; pfam00672 1104320009069 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 1104320009070 ATP binding site [chemical binding]; other site 1104320009071 Mg2+ binding site [ion binding]; other site 1104320009072 G-X-G motif; other site 1104320009073 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104320009074 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 1104320009075 active site 1104320009076 phosphorylation site [posttranslational modification] 1104320009077 intermolecular recognition site; other site 1104320009078 dimerization interface [polypeptide binding]; other site 1104320009079 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 1104320009080 DNA binding site [nucleotide binding] 1104320009081 potential frameshift: common BLAST hit: gi|256369040|ref|YP_003106548.1| phage host specificity protein 1104320009082 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 1104320009083 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1104320009084 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104320009085 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 1104320009086 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 1104320009087 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 1104320009088 Uncharacterized conserved protein [Function unknown]; Region: COG5449 1104320009089 TIGR02217 family protein; Region: chp_TIGR02217 1104320009090 Phage-related minor tail protein [Function unknown]; Region: COG5281 1104320009091 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 1104320009092 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 1104320009093 Predicted secreted protein [Function unknown]; Region: COG5437 1104320009094 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1104320009095 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1104320009096 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 1104320009097 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1104320009098 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1104320009099 oligomerization interface [polypeptide binding]; other site 1104320009100 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 1104320009101 Phage capsid family; Region: Phage_capsid; pfam05065 1104320009102 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1104320009103 Phage-related protein [Function unknown]; Region: COG4695 1104320009104 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 1104320009105 Uncharacterized conserved protein [Function unknown]; Region: COG5323 1104320009106 Terminase-like family; Region: Terminase_6; pfam03237 1104320009107 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1104320009108 Transglycosylase; Region: Transgly; pfam00912 1104320009109 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1104320009110 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1104320009111 Uncharacterized conserved protein [Function unknown]; Region: COG5402 1104320009112 Predicted integral membrane protein [Function unknown]; Region: COG5436 1104320009113 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1104320009114 Uncharacterized conserved protein [Function unknown]; Region: COG5447 1104320009115 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1104320009116 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104320009117 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104320009118 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 1104320009119 putative active site [active] 1104320009120 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320009121 heme pocket [chemical binding]; other site 1104320009122 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 1104320009123 dimer interface [polypeptide binding]; other site 1104320009124 phosphorylation site [posttranslational modification] 1104320009125 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 1104320009126 ATP binding site [chemical binding]; other site 1104320009127 Mg2+ binding site [ion binding]; other site 1104320009128 G-X-G motif; other site 1104320009129 Flavin Reductases; Region: FlaRed; cl00801 1104320009130 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1104320009131 amidase; Validated; Region: PRK05962 1104320009132 amidase; Provisional; Region: PRK07056 1104320009133 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1104320009134 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 1104320009135 DnaA box-binding interface [nucleotide binding]; other site 1104320009136 Predicted transcriptional regulator [Transcription]; Region: COG4957 1104320009137 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1104320009138 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104320009139 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1104320009140 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1104320009141 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1104320009142 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1104320009143 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 1104320009144 motif II; other site 1104320009145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104320009146 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104320009147 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1104320009148 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104320009149 potential frameshift: common BLAST hit: gi|17987655|ref|NP_540289.1| cyanate transport protein CynX 1104320009150 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1104320009151 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 1104320009152 potential frameshift: common BLAST hit: gi|340790196|ref|YP_004755660.1| GntR family transcriptional regulator 1104320009153 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104320009154 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1104320009155 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104320009156 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104320009157 DNA-binding site [nucleotide binding]; DNA binding site 1104320009158 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1104320009159 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1104320009160 Cl binding site [ion binding]; other site 1104320009161 oligomer interface [polypeptide binding]; other site 1104320009162 putative addiction module antidote; Region: doc_partner; TIGR02609 1104320009163 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1104320009164 transcription elongation factor regulatory protein; Validated; Region: PRK06342 1104320009165 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1104320009166 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 1104320009167 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104320009168 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1104320009169 choline dehydrogenase; Validated; Region: PRK02106 1104320009170 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104320009171 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1104320009172 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1104320009173 tetrameric interface [polypeptide binding]; other site 1104320009174 NAD binding site [chemical binding]; other site 1104320009175 catalytic residues [active] 1104320009176 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1104320009177 Helix-turn-helix domain; Region: HTH_18; pfam12833 1104320009178 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320009179 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1104320009180 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104320009181 putative ligand binding site [chemical binding]; other site 1104320009182 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1104320009183 N- and C-terminal domain interface [polypeptide binding]; other site 1104320009184 D-xylulose kinase; Region: XylB; TIGR01312 1104320009185 active site 1104320009186 MgATP binding site [chemical binding]; other site 1104320009187 catalytic site [active] 1104320009188 metal binding site [ion binding]; metal-binding site 1104320009189 xylulose binding site [chemical binding]; other site 1104320009190 homodimer interface [polypeptide binding]; other site 1104320009191 xylose isomerase; Provisional; Region: PRK05474 1104320009192 xylose isomerase; Region: xylose_isom_A; TIGR02630 1104320009193 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104320009194 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104320009195 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104320009196 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1104320009197 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 1104320009198 Metal-binding active site; metal-binding site 1104320009199 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1104320009200 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1104320009201 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 1104320009202 putative ligand binding site [chemical binding]; other site 1104320009203 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104320009204 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 1104320009205 TM-ABC transporter signature motif; other site 1104320009206 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104320009207 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104320009208 Walker A/P-loop; other site 1104320009209 ATP binding site [chemical binding]; other site 1104320009210 Q-loop/lid; other site 1104320009211 ABC transporter signature motif; other site 1104320009212 Walker B; other site 1104320009213 D-loop; other site 1104320009214 H-loop/switch region; other site 1104320009215 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104320009216 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104320009217 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_4; cd03795 1104320009218 putative ADP-binding pocket [chemical binding]; other site 1104320009219 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 1104320009220 dimerization interface [polypeptide binding]; other site 1104320009221 putative active cleft [active] 1104320009222 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1104320009223 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1104320009224 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1104320009225 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1104320009226 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 1104320009227 active site 1104320009228 substrate binding site [chemical binding]; other site 1104320009229 metal binding site [ion binding]; metal-binding site 1104320009230 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104320009231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1104320009232 putative transposase OrfB; Reviewed; Region: PHA02517 1104320009233 Integrase core domain; Region: rve; pfam00665 1104320009234 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104320009235 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 1104320009236 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1104320009237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1104320009238 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104320009239 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104320009240 Integrase core domain; Region: rve; pfam00665 1104320009241 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104320009242 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1104320009243 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1104320009244 NADP-binding site; other site 1104320009245 homotetramer interface [polypeptide binding]; other site 1104320009246 substrate binding site [chemical binding]; other site 1104320009247 homodimer interface [polypeptide binding]; other site 1104320009248 active site 1104320009249 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1104320009250 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 1104320009251 inhibitor-cofactor binding pocket; inhibition site 1104320009252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320009253 catalytic residue [active] 1104320009254 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 1104320009255 catalytic site [active] 1104320009256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1104320009257 Integrase core domain; Region: rve; pfam00665 1104320009258 Homeodomain-like domain; Region: HTH_23; cl17451 1104320009259 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1104320009260 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1104320009261 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1104320009262 Mg++ binding site [ion binding]; other site 1104320009263 putative catalytic motif [active] 1104320009264 putative substrate binding site [chemical binding]; other site 1104320009265 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1104320009266 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1104320009267 NAD(P) binding site [chemical binding]; other site 1104320009268 homodimer interface [polypeptide binding]; other site 1104320009269 substrate binding site [chemical binding]; other site 1104320009270 active site 1104320009271 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 1104320009272 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 1104320009273 active site 1104320009274 homotetramer interface [polypeptide binding]; other site 1104320009275 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1104320009276 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1104320009277 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1104320009278 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1104320009279 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1104320009280 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1104320009281 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 1104320009282 NodB motif; other site 1104320009283 putative active site [active] 1104320009284 putative catalytic site [active] 1104320009285 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1104320009286 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1104320009287 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1104320009288 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1104320009289 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104320009290 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 1104320009291 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1104320009292 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1104320009293 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1104320009294 Walker A/P-loop; other site 1104320009295 ATP binding site [chemical binding]; other site 1104320009296 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1104320009297 ABC transporter signature motif; other site 1104320009298 Walker B; other site 1104320009299 D-loop; other site 1104320009300 H-loop/switch region; other site 1104320009301 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1104320009302 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1104320009303 catalytic residues [active] 1104320009304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 1104320009305 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1104320009306 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104320009307 minor groove reading motif; other site 1104320009308 helix-hairpin-helix signature motif; other site 1104320009309 substrate binding pocket [chemical binding]; other site 1104320009310 active site 1104320009311 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1104320009312 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 1104320009313 DNA binding and oxoG recognition site [nucleotide binding] 1104320009314 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1104320009315 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 1104320009316 motif II; other site 1104320009317 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1104320009318 DNA methylase; Region: N6_N4_Mtase; pfam01555 1104320009319 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 1104320009320 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1104320009321 Cl- selectivity filter; other site 1104320009322 Cl- binding residues [ion binding]; other site 1104320009323 pore gating glutamate residue; other site 1104320009324 dimer interface [polypeptide binding]; other site 1104320009325 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 1104320009326 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1104320009327 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 1104320009328 active site 1104320009329 motif I; other site 1104320009330 motif II; other site 1104320009331 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1104320009332 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1104320009333 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 1104320009334 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1104320009335 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; Region: Thr-synth_2; cd01560 1104320009336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320009337 catalytic residue [active] 1104320009338 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104320009339 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1104320009340 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104320009341 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1104320009342 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1104320009343 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1104320009344 PAS fold; Region: PAS_3; pfam08447 1104320009345 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1104320009346 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104320009347 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104320009348 metal binding site [ion binding]; metal-binding site 1104320009349 active site 1104320009350 I-site; other site 1104320009351 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 1104320009352 hypothetical protein; Validated; Region: PRK00228 1104320009353 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 1104320009354 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 1104320009355 catalytic triad [active] 1104320009356 dimer interface [polypeptide binding]; other site 1104320009357 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1104320009358 RNA/DNA hybrid binding site [nucleotide binding]; other site 1104320009359 active site 1104320009360 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1104320009361 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 1104320009362 putative active site [active] 1104320009363 putative substrate binding site [chemical binding]; other site 1104320009364 ATP binding site [chemical binding]; other site 1104320009365 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1104320009366 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1104320009367 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 1104320009368 potential frameshift: common BLAST hit: gi|148559948|ref|YP_001258490.1| cytochrome c oxidase subunit III 1104320009369 Protein of unknown function (DUF983); Region: DUF983; cl02211 1104320009370 Protein of unknown function (DUF983); Region: DUF983; cl02211 1104320009371 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 1104320009372 Subunit III/VIIa interface [polypeptide binding]; other site 1104320009373 Phospholipid binding site [chemical binding]; other site 1104320009374 Subunit I/III interface [polypeptide binding]; other site 1104320009375 Subunit III/VIb interface [polypeptide binding]; other site 1104320009376 Subunit III/VIa interface; other site 1104320009377 Subunit III/Vb interface [polypeptide binding]; other site 1104320009378 potential frameshift: common BLAST hit: gi|340790110|ref|YP_004755574.1| cytochrome c oxidase assembly protein 1104320009379 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 1104320009380 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 1104320009381 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1104320009382 UbiA prenyltransferase family; Region: UbiA; pfam01040 1104320009383 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1104320009384 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 1104320009385 Subunit I/III interface [polypeptide binding]; other site 1104320009386 D-pathway; other site 1104320009387 Subunit I/VIIc interface [polypeptide binding]; other site 1104320009388 Subunit I/IV interface [polypeptide binding]; other site 1104320009389 Subunit I/II interface [polypeptide binding]; other site 1104320009390 Low-spin heme (heme a) binding site [chemical binding]; other site 1104320009391 Subunit I/VIIa interface [polypeptide binding]; other site 1104320009392 Subunit I/VIa interface [polypeptide binding]; other site 1104320009393 Dimer interface; other site 1104320009394 Putative water exit pathway; other site 1104320009395 Binuclear center (heme a3/CuB) [ion binding]; other site 1104320009396 K-pathway; other site 1104320009397 Subunit I/Vb interface [polypeptide binding]; other site 1104320009398 Putative proton exit pathway; other site 1104320009399 Subunit I/VIb interface; other site 1104320009400 Subunit I/VIc interface [polypeptide binding]; other site 1104320009401 Electron transfer pathway; other site 1104320009402 Subunit I/VIIIb interface [polypeptide binding]; other site 1104320009403 Subunit I/VIIb interface [polypeptide binding]; other site 1104320009404 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1104320009405 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1104320009406 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1104320009407 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1104320009408 protease TldD; Provisional; Region: tldD; PRK10735 1104320009409 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1104320009410 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 1104320009411 catalytic site [active] 1104320009412 G-X2-G-X-G-K; other site 1104320009413 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 1104320009414 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1104320009415 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1104320009416 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1104320009417 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1104320009418 dimerization interface [polypeptide binding]; other site 1104320009419 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1104320009420 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 1104320009421 dimer interface [polypeptide binding]; other site 1104320009422 active site 1104320009423 acyl carrier protein; Provisional; Region: acpP; PRK00982 1104320009424 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1104320009425 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1104320009426 NAD(P) binding site [chemical binding]; other site 1104320009427 homotetramer interface [polypeptide binding]; other site 1104320009428 homodimer interface [polypeptide binding]; other site 1104320009429 active site 1104320009430 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1104320009431 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1104320009432 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1104320009433 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1104320009434 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1104320009435 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1104320009436 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1104320009437 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1104320009438 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 1104320009439 S-adenosylmethionine binding site [chemical binding]; other site 1104320009440 replicative DNA helicase; Provisional; Region: PRK09165 1104320009441 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1104320009442 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 1104320009443 Walker A motif; other site 1104320009444 ATP binding site [chemical binding]; other site 1104320009445 Walker B motif; other site 1104320009446 DNA binding loops [nucleotide binding] 1104320009447 DNA repair protein RadA; Provisional; Region: PRK11823 1104320009448 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1104320009449 Walker A motif/ATP binding site; other site 1104320009450 ATP binding site [chemical binding]; other site 1104320009451 Walker B motif; other site 1104320009452 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1104320009453 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1104320009454 Colicin V production protein; Region: Colicin_V; pfam02674 1104320009455 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1104320009456 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 1104320009457 active site 1104320009458 tetramer interface [polypeptide binding]; other site 1104320009459 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104320009460 active site 1104320009461 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1104320009462 classical (c) SDRs; Region: SDR_c; cd05233 1104320009463 NAD(P) binding site [chemical binding]; other site 1104320009464 active site 1104320009465 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1104320009466 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1104320009467 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1104320009468 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104320009469 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1104320009470 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1104320009471 Walker A/P-loop; other site 1104320009472 ATP binding site [chemical binding]; other site 1104320009473 Q-loop/lid; other site 1104320009474 ABC transporter signature motif; other site 1104320009475 Walker B; other site 1104320009476 D-loop; other site 1104320009477 H-loop/switch region; other site 1104320009478 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1104320009479 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104320009480 Predicted periplasmic protein [General function prediction only]; Region: COG3895 1104320009481 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1104320009482 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1104320009483 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1104320009484 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1104320009485 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1104320009486 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 1104320009487 RNA binding surface [nucleotide binding]; other site 1104320009488 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 1104320009489 S-adenosylmethionine binding site [chemical binding]; other site 1104320009490 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1104320009491 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 1104320009492 TPP-binding site; other site 1104320009493 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 1104320009494 PYR/PP interface [polypeptide binding]; other site 1104320009495 dimer interface [polypeptide binding]; other site 1104320009496 TPP binding site [chemical binding]; other site 1104320009497 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104320009498 Pirin-related protein [General function prediction only]; Region: COG1741 1104320009499 Pirin; Region: Pirin; pfam02678 1104320009500 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1104320009501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 1104320009502 Predicted membrane protein [Function unknown]; Region: COG2261 1104320009503 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1104320009504 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1104320009505 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1104320009506 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1104320009507 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1104320009508 putative active site [active] 1104320009509 Zn binding site [ion binding]; other site 1104320009510 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 1104320009511 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1104320009512 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 1104320009513 dimerization interface [polypeptide binding]; other site 1104320009514 active site 1104320009515 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1104320009516 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1104320009517 Tetramer interface [polypeptide binding]; other site 1104320009518 active site 1104320009519 FMN-binding site [chemical binding]; other site 1104320009520 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 1104320009521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1104320009522 putative acyl-acceptor binding pocket; other site 1104320009523 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104320009524 DNA-binding site [nucleotide binding]; DNA binding site 1104320009525 RNA-binding motif; other site 1104320009526 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 1104320009527 catalytic core [active] 1104320009528 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 1104320009529 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1104320009530 NAD binding site [chemical binding]; other site 1104320009531 homotetramer interface [polypeptide binding]; other site 1104320009532 homodimer interface [polypeptide binding]; other site 1104320009533 substrate binding site [chemical binding]; other site 1104320009534 active site 1104320009535 chaperone protein DnaJ; Provisional; Region: PRK14299 1104320009536 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 1104320009537 HSP70 interaction site [polypeptide binding]; other site 1104320009538 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1104320009539 dimer interface [polypeptide binding]; other site 1104320009540 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1104320009541 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1104320009542 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1104320009543 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 1104320009544 UbiA prenyltransferase family; Region: UbiA; pfam01040 1104320009545 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1104320009546 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1104320009547 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1104320009548 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1104320009549 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104320009550 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104320009551 metal binding site [ion binding]; metal-binding site 1104320009552 active site 1104320009553 I-site; other site 1104320009554 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104320009555 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104320009556 active site 1104320009557 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1104320009558 enoyl-CoA hydratase; Provisional; Region: PRK06688 1104320009559 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 1104320009560 substrate binding site [chemical binding]; other site 1104320009561 oxyanion hole (OAH) forming residues; other site 1104320009562 trimer interface [polypeptide binding]; other site 1104320009563 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1104320009564 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1104320009565 FAD binding domain; Region: FAD_binding_4; pfam01565 1104320009566 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1104320009567 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1104320009568 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1104320009569 DALR anticodon binding domain; Region: DALR_1; pfam05746 1104320009570 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1104320009571 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 1104320009572 dimer interface [polypeptide binding]; other site 1104320009573 motif 1; other site 1104320009574 active site 1104320009575 motif 2; other site 1104320009576 motif 3; other site 1104320009577 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 1104320009578 binding surface 1104320009579 TPR motif; other site 1104320009580 TPR repeat; Region: TPR_11; pfam13414 1104320009581 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 1104320009582 binding surface 1104320009583 TPR motif; other site 1104320009584 TPR repeat; Region: TPR_11; pfam13414 1104320009585 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 1104320009586 binding surface 1104320009587 TPR motif; other site 1104320009588 TPR repeat; Region: TPR_11; pfam13414 1104320009589 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1104320009590 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1104320009591 substrate binding pocket [chemical binding]; other site 1104320009592 chain length determination region; other site 1104320009593 substrate-Mg2+ binding site; other site 1104320009594 catalytic residues [active] 1104320009595 aspartate-rich region 1; other site 1104320009596 active site lid residues [active] 1104320009597 aspartate-rich region 2; other site 1104320009598 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1104320009599 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1104320009600 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 1104320009601 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1104320009602 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1104320009603 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1104320009604 tandem repeat interface [polypeptide binding]; other site 1104320009605 oligomer interface [polypeptide binding]; other site 1104320009606 active site residues [active] 1104320009607 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1104320009608 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1104320009609 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 1104320009610 active site 1104320009611 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1104320009612 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 1104320009613 FeS/SAM binding site; other site 1104320009614 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1104320009615 RNA/DNA hybrid binding site [nucleotide binding]; other site 1104320009616 active site 1104320009617 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 1104320009618 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1104320009619 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 1104320009620 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1104320009621 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1104320009622 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1104320009623 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1104320009624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1104320009625 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1104320009626 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1104320009627 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1104320009628 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1104320009629 nucleotide binding site [chemical binding]; other site 1104320009630 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1104320009631 SBD interface [polypeptide binding]; other site 1104320009632 GTP-binding protein Der; Reviewed; Region: PRK00093 1104320009633 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1104320009634 G1 box; other site 1104320009635 GTP/Mg2+ binding site [chemical binding]; other site 1104320009636 Switch I region; other site 1104320009637 G2 box; other site 1104320009638 Switch II region; other site 1104320009639 G3 box; other site 1104320009640 G4 box; other site 1104320009641 G5 box; other site 1104320009642 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1104320009643 G1 box; other site 1104320009644 GTP/Mg2+ binding site [chemical binding]; other site 1104320009645 Switch I region; other site 1104320009646 G2 box; other site 1104320009647 G3 box; other site 1104320009648 Switch II region; other site 1104320009649 G4 box; other site 1104320009650 G5 box; other site 1104320009651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1104320009652 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 1104320009653 NodB motif; other site 1104320009654 putative active site [active] 1104320009655 putative catalytic site [active] 1104320009656 microcin B17 transporter; Reviewed; Region: PRK11098 1104320009657 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 1104320009658 putative substrate translocation pore; other site 1104320009659 D-galactonate transporter; Region: 2A0114; TIGR00893 1104320009660 Predicted membrane protein [Function unknown]; Region: COG4129 1104320009661 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1104320009662 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 1104320009663 ArsC family; Region: ArsC; pfam03960 1104320009664 putative catalytic residues [active] 1104320009665 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1104320009666 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1104320009667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320009668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104320009669 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 1104320009670 DNA binding site [nucleotide binding] 1104320009671 active site 1104320009672 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1104320009673 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104320009674 NAD(P) binding site [chemical binding]; other site 1104320009675 catalytic residues [active] 1104320009676 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 1104320009677 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1104320009678 catalytic residues [active] 1104320009679 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104320009680 metal binding site 2 [ion binding]; metal-binding site 1104320009681 putative DNA binding helix; other site 1104320009682 metal binding site 1 [ion binding]; metal-binding site 1104320009683 dimer interface [polypeptide binding]; other site 1104320009684 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 1104320009685 Low-spin heme binding site [chemical binding]; other site 1104320009686 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1104320009687 Putative water exit pathway; other site 1104320009688 Binuclear center (active site) [active] 1104320009689 Putative proton exit pathway; other site 1104320009690 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1104320009691 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1104320009692 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 1104320009693 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1104320009694 Cytochrome c; Region: Cytochrom_C; pfam00034 1104320009695 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1104320009696 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1104320009697 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1104320009698 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1104320009699 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 1104320009700 FixH; Region: FixH; pfam05751 1104320009701 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104320009702 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 1104320009703 metal-binding site [ion binding] 1104320009704 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104320009705 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 1104320009706 motif II; other site 1104320009707 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1104320009708 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1104320009709 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1104320009710 MOFRL family; Region: MOFRL; pfam05161 1104320009711 guanine deaminase; Provisional; Region: PRK09228 1104320009712 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 1104320009713 active site 1104320009714 Predicted membrane protein [Function unknown]; Region: COG3748 1104320009715 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1104320009716 Cytochrome c; Region: Cytochrom_C; pfam00034 1104320009717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320009718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320009719 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 1104320009720 putative effector binding pocket; other site 1104320009721 dimerization interface [polypeptide binding]; other site 1104320009722 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1104320009723 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1104320009724 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1104320009725 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 1104320009726 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 1104320009727 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1104320009728 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1104320009729 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 1104320009730 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 1104320009731 catalytic loop [active] 1104320009732 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1104320009733 iron binding site [ion binding]; other site 1104320009734 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1104320009735 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1104320009736 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 1104320009737 homotetramer interface [polypeptide binding]; other site 1104320009738 active site 1104320009739 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1104320009740 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1104320009741 active site 1104320009742 catalytic site [active] 1104320009743 tetramer interface [polypeptide binding]; other site 1104320009744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1104320009745 hypothetical protein; Provisional; Region: PRK11171 1104320009746 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 1104320009747 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1104320009748 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1104320009749 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1104320009750 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1104320009751 DctM-like transporters; Region: DctM; pfam06808 1104320009752 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1104320009753 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104320009754 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 1104320009755 active site 1104320009756 phosphorylation site [posttranslational modification] 1104320009757 intermolecular recognition site; other site 1104320009758 dimerization interface [polypeptide binding]; other site 1104320009759 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 1104320009760 DNA binding residues [nucleotide binding] 1104320009761 dimerization interface [polypeptide binding]; other site 1104320009762 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1104320009763 Cache domain; Region: Cache_2; pfam08269 1104320009764 Histidine kinase; Region: HisKA_3; pfam07730 1104320009765 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 1104320009766 ATP binding site [chemical binding]; other site 1104320009767 Mg2+ binding site [ion binding]; other site 1104320009768 G-X-G motif; other site 1104320009769 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1104320009770 potential frameshift: common BLAST hit: gi|225851882|ref|YP_002732115.1| MATE efflux family protein 1104320009771 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1104320009772 multidrug efflux protein; Reviewed; Region: PRK01766 1104320009773 cation binding site [ion binding]; other site 1104320009774 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1104320009775 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1104320009776 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1104320009777 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1104320009778 NAD(P) binding pocket [chemical binding]; other site 1104320009779 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1104320009780 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1104320009781 dimer interface [polypeptide binding]; other site 1104320009782 active site 1104320009783 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104320009784 catalytic residues [active] 1104320009785 substrate binding site [chemical binding]; other site 1104320009786 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1104320009787 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1104320009788 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 1104320009789 FAD binding pocket [chemical binding]; other site 1104320009790 FAD binding motif [chemical binding]; other site 1104320009791 phosphate binding motif [ion binding]; other site 1104320009792 beta-alpha-beta structure motif; other site 1104320009793 NAD binding pocket [chemical binding]; other site 1104320009794 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 1104320009795 active site 1104320009796 oligomerization interface [polypeptide binding]; other site 1104320009797 metal binding site [ion binding]; metal-binding site 1104320009798 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1104320009799 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1104320009800 active site 1104320009801 ATP-binding site [chemical binding]; other site 1104320009802 pantoate-binding site; other site 1104320009803 HXXH motif; other site 1104320009804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1104320009805 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1104320009806 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1104320009807 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104320009808 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104320009809 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1104320009810 putative dimerization interface [polypeptide binding]; other site 1104320009811 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 1104320009812 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 1104320009813 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1104320009814 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 1104320009815 putative active site [active] 1104320009816 putative metal binding site [ion binding]; other site 1104320009817 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1104320009818 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 1104320009819 substrate-cofactor binding pocket; other site 1104320009820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320009821 catalytic residue [active] 1104320009822 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1104320009823 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1104320009824 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1104320009825 Na binding site [ion binding]; other site 1104320009826 PAS fold; Region: PAS_7; pfam12860 1104320009827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320009828 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 1104320009829 dimer interface [polypeptide binding]; other site 1104320009830 phosphorylation site [posttranslational modification] 1104320009831 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 1104320009832 ATP binding site [chemical binding]; other site 1104320009833 Mg2+ binding site [ion binding]; other site 1104320009834 G-X-G motif; other site 1104320009835 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1104320009836 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 1104320009837 active site 1104320009838 phosphorylation site [posttranslational modification] 1104320009839 intermolecular recognition site; other site 1104320009840 dimerization interface [polypeptide binding]; other site 1104320009841 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104320009842 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 1104320009843 active site 1104320009844 phosphorylation site [posttranslational modification] 1104320009845 intermolecular recognition site; other site 1104320009846 dimerization interface [polypeptide binding]; other site 1104320009847 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 1104320009848 DNA binding residues [nucleotide binding] 1104320009849 dimerization interface [polypeptide binding]; other site 1104320009850 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1104320009851 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1104320009852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 1104320009853 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1104320009854 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 1104320009855 quinone interaction residues [chemical binding]; other site 1104320009856 active site 1104320009857 catalytic residues [active] 1104320009858 FMN binding site [chemical binding]; other site 1104320009859 substrate binding site [chemical binding]; other site 1104320009860 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1104320009861 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1104320009862 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1104320009863 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 1104320009864 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1104320009865 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1104320009866 conserved cys residue [active] 1104320009867 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 1104320009868 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1104320009869 trimer interface [polypeptide binding]; other site 1104320009870 active site 1104320009871 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 1104320009872 trimer interface [polypeptide binding]; other site 1104320009873 active site 1104320009874 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 1104320009875 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 1104320009876 homodimer interface [polypeptide binding]; other site 1104320009877 substrate-cofactor binding pocket; other site 1104320009878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320009879 catalytic residue [active] 1104320009880 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1104320009881 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 1104320009882 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1104320009883 dimerization interface [polypeptide binding]; other site 1104320009884 domain crossover interface; other site 1104320009885 redox-dependent activation switch; other site 1104320009886 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1104320009887 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104320009888 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104320009889 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1104320009890 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 1104320009891 inhibitor-cofactor binding pocket; inhibition site 1104320009892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104320009893 catalytic residue [active] 1104320009894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 1104320009895 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1104320009896 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 1104320009897 dimer interface [polypeptide binding]; other site 1104320009898 phosphorylation site [posttranslational modification] 1104320009899 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 1104320009900 ATP binding site [chemical binding]; other site 1104320009901 Mg2+ binding site [ion binding]; other site 1104320009902 G-X-G motif; other site 1104320009903 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1104320009904 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 1104320009905 DXD motif; other site 1104320009906 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104320009907 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 1104320009908 substrate binding pocket [chemical binding]; other site 1104320009909 membrane-bound complex binding site; other site 1104320009910 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1104320009911 Protein export membrane protein; Region: SecD_SecF; cl14618 1104320009912 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104320009913 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320009914 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320009915 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1104320009916 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104320009917 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1104320009918 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1104320009919 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1104320009920 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1104320009921 acyl-activating enzyme (AAE) consensus motif; other site 1104320009922 putative AMP binding site [chemical binding]; other site 1104320009923 putative active site [active] 1104320009924 putative CoA binding site [chemical binding]; other site 1104320009925 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1104320009926 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1104320009927 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 1104320009928 motif II; other site 1104320009929 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1104320009930 Predicted deacylase [General function prediction only]; Region: COG3608 1104320009931 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1104320009932 active site 1104320009933 Zn binding site [ion binding]; other site 1104320009934 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1104320009935 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 1104320009936 active site 1104320009937 dimer interface [polypeptide binding]; other site 1104320009938 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 1104320009939 dimer interface [polypeptide binding]; other site 1104320009940 active site 1104320009941 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1104320009942 putative hydrophobic ligand binding site [chemical binding]; other site 1104320009943 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1104320009944 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104320009945 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104320009946 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1104320009947 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 1104320009948 homodimer interface [polypeptide binding]; other site 1104320009949 active site 1104320009950 FMN binding site [chemical binding]; other site 1104320009951 substrate binding site [chemical binding]; other site 1104320009952 4Fe-4S binding domain; Region: Fer4; cl02805 1104320009953 4Fe-4S binding domain; Region: Fer4; pfam00037 1104320009954 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1104320009955 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104320009956 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1104320009957 allantoate amidohydrolase; Reviewed; Region: PRK12893 1104320009958 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1104320009959 active site 1104320009960 metal binding site [ion binding]; metal-binding site 1104320009961 dimer interface [polypeptide binding]; other site 1104320009962 potential frameshift: common BLAST hit: gi|256368739|ref|YP_003106245.1| phenylhydantoinase 1104320009963 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 1104320009964 active site 1104320009965 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 1104320009966 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104320009967 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104320009968 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104320009969 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104320009970 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104320009971 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 1104320009972 ATP binding site [chemical binding]; other site 1104320009973 Mg2+ binding site [ion binding]; other site 1104320009974 G-X-G motif; other site 1104320009975 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104320009976 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1104320009977 UreF; Region: UreF; pfam01730 1104320009978 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 1104320009979 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 1104320009980 dimer interface [polypeptide binding]; other site 1104320009981 catalytic residues [active] 1104320009982 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1104320009983 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 1104320009984 subunit interactions [polypeptide binding]; other site 1104320009985 active site 1104320009986 flap region; other site 1104320009987 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 1104320009988 gamma-beta subunit interface [polypeptide binding]; other site 1104320009989 alpha-beta subunit interface [polypeptide binding]; other site 1104320009990 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 1104320009991 alpha-gamma subunit interface [polypeptide binding]; other site 1104320009992 beta-gamma subunit interface [polypeptide binding]; other site 1104320009993 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1104320009994 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...; Region: PNPsynthase; cl00541 1104320009995 dimerization interface [polypeptide binding]; other site