-- dump date 20140620_070756 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1230587000001 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1230587000002 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1230587000003 DNA binding residues [nucleotide binding] 1230587000004 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 1230587000005 P-loop; other site 1230587000006 Magnesium ion binding site [ion binding]; other site 1230587000007 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 1230587000008 Magnesium ion binding site [ion binding]; other site 1230587000009 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1230587000010 ParB-like nuclease domain; Region: ParBc; pfam02195 1230587000011 replication initiation protein RepC; Provisional; Region: PRK13824 1230587000012 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1230587000013 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1230587000014 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1230587000015 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1230587000016 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1230587000017 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 1230587000018 Walker A motif; other site 1230587000019 ATP binding site [chemical binding]; other site 1230587000020 Walker B motif; other site 1230587000021 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1230587000022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1230587000023 Integrase core domain; Region: rve; pfam00665 1230587000024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1230587000025 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 1230587000026 ATP binding site [chemical binding]; other site 1230587000027 Mg2+ binding site [ion binding]; other site 1230587000028 G-X-G motif; other site 1230587000029 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1230587000030 active site 1230587000031 catalytic triad [active] 1230587000032 dimer interface [polypeptide binding]; other site 1230587000033 Bacterial SH3 domain; Region: SH3_3; pfam08239 1230587000034 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1230587000035 active site 1230587000036 ATP binding site [chemical binding]; other site 1230587000037 substrate binding site [chemical binding]; other site 1230587000038 activation loop (A-loop); other site 1230587000039 Protein phosphatase 2C; Region: PP2C_2; pfam13672 1230587000040 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1230587000041 metal ion-dependent adhesion site (MIDAS); other site 1230587000042 His-Xaa-Ser repeat protein HxsA; Region: His_Ser_Rich; TIGR03979 1230587000043 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587000044 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 1230587000045 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 1230587000046 FeS/SAM binding site; other site 1230587000047 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 1230587000048 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 1230587000049 FeS/SAM binding site; other site 1230587000050 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1230587000051 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587000052 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587000053 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587000054 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587000055 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587000056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587000057 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587000058 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 1230587000059 non-specific DNA binding site [nucleotide binding]; other site 1230587000060 salt bridge; other site 1230587000061 sequence-specific DNA binding site [nucleotide binding]; other site 1230587000062 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 1230587000063 DNA-binding site [nucleotide binding]; DNA binding site 1230587000064 RNA-binding motif; other site 1230587000065 Bacterial TniB protein; Region: TniB; pfam05621 1230587000066 AAA ATPase domain; Region: AAA_16; pfam13191 1230587000067 AAA domain; Region: AAA_22; pfam13401 1230587000068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587000069 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1230587000070 NAD(P) binding site [chemical binding]; other site 1230587000071 active site 1230587000072 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 1230587000073 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587000074 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 1230587000075 substrate binding site [chemical binding]; other site 1230587000076 ATP binding site [chemical binding]; other site 1230587000077 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587000078 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587000079 Walker A/P-loop; other site 1230587000080 ATP binding site [chemical binding]; other site 1230587000081 Q-loop/lid; other site 1230587000082 ABC transporter signature motif; other site 1230587000083 Walker B; other site 1230587000084 D-loop; other site 1230587000085 H-loop/switch region; other site 1230587000086 TOBE domain; Region: TOBE_2; pfam08402 1230587000087 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587000088 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000089 dimer interface [polypeptide binding]; other site 1230587000090 conserved gate region; other site 1230587000091 putative PBP binding loops; other site 1230587000092 ABC-ATPase subunit interface; other site 1230587000093 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1230587000094 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000095 dimer interface [polypeptide binding]; other site 1230587000096 conserved gate region; other site 1230587000097 putative PBP binding loops; other site 1230587000098 ABC-ATPase subunit interface; other site 1230587000099 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587000100 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587000101 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587000102 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587000103 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1230587000104 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1230587000105 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1230587000106 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1230587000107 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 1230587000108 tetramer interface [polypeptide binding]; other site 1230587000109 TPP-binding site [chemical binding]; other site 1230587000110 heterodimer interface [polypeptide binding]; other site 1230587000111 phosphorylation loop region [posttranslational modification] 1230587000112 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1230587000113 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 1230587000114 alpha subunit interface [polypeptide binding]; other site 1230587000115 TPP binding site [chemical binding]; other site 1230587000116 heterodimer interface [polypeptide binding]; other site 1230587000117 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587000118 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1230587000119 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 1230587000120 E3 interaction surface; other site 1230587000121 lipoyl attachment site [posttranslational modification]; other site 1230587000122 e3 binding domain; Region: E3_binding; pfam02817 1230587000123 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1230587000124 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1230587000125 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1230587000126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587000127 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1230587000128 lipoyl synthase; Provisional; Region: PRK05481 1230587000129 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 1230587000130 FeS/SAM binding site; other site 1230587000131 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1230587000132 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587000133 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 1230587000134 putative NAD(P) binding site [chemical binding]; other site 1230587000135 catalytic Zn binding site [ion binding]; other site 1230587000136 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587000137 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587000138 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587000139 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587000140 Walker A/P-loop; other site 1230587000141 ATP binding site [chemical binding]; other site 1230587000142 Q-loop/lid; other site 1230587000143 ABC transporter signature motif; other site 1230587000144 Walker B; other site 1230587000145 D-loop; other site 1230587000146 H-loop/switch region; other site 1230587000147 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587000148 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587000149 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 1230587000150 TM-ABC transporter signature motif; other site 1230587000151 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1230587000152 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587000153 DNA binding residues [nucleotide binding] 1230587000154 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587000155 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587000156 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 1230587000157 substrate binding site [chemical binding]; other site 1230587000158 ATP binding site [chemical binding]; other site 1230587000159 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 1230587000160 catalytic residue [active] 1230587000161 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 1230587000162 dimer interface [polypeptide binding]; other site 1230587000163 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587000164 substrate binding site [chemical binding]; other site 1230587000165 ATP binding site [chemical binding]; other site 1230587000166 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587000167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587000168 NAD(P) binding site [chemical binding]; other site 1230587000169 active site 1230587000170 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587000171 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 1230587000172 DNA binding residues [nucleotide binding] 1230587000173 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587000174 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 1230587000175 N- and C-terminal domain interface [polypeptide binding]; other site 1230587000176 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1230587000177 active site 1230587000178 MgATP binding site [chemical binding]; other site 1230587000179 catalytic site [active] 1230587000180 metal binding site [ion binding]; metal-binding site 1230587000181 putative homotetramer interface [polypeptide binding]; other site 1230587000182 putative homodimer interface [polypeptide binding]; other site 1230587000183 glycerol binding site [chemical binding]; other site 1230587000184 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1230587000185 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 1230587000186 PYR/PP interface [polypeptide binding]; other site 1230587000187 dimer interface [polypeptide binding]; other site 1230587000188 TPP binding site [chemical binding]; other site 1230587000189 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587000190 transketolase; Reviewed; Region: PRK05899 1230587000191 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 1230587000192 TPP-binding site [chemical binding]; other site 1230587000193 dimer interface [polypeptide binding]; other site 1230587000194 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587000195 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 1230587000196 TM-ABC transporter signature motif; other site 1230587000197 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1230587000198 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587000199 ligand binding site [chemical binding]; other site 1230587000200 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587000201 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587000202 Walker A/P-loop; other site 1230587000203 ATP binding site [chemical binding]; other site 1230587000204 Q-loop/lid; other site 1230587000205 ABC transporter signature motif; other site 1230587000206 Walker B; other site 1230587000207 D-loop; other site 1230587000208 H-loop/switch region; other site 1230587000209 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587000210 short chain dehydrogenase; Provisional; Region: PRK06114 1230587000211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587000212 NAD(P) binding site [chemical binding]; other site 1230587000213 active site 1230587000214 triosephosphate isomerase; Provisional; Region: PRK14567 1230587000215 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 1230587000216 dimer interface [polypeptide binding]; other site 1230587000217 substrate binding site [chemical binding]; other site 1230587000218 catalytic triad [active] 1230587000219 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 1230587000220 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1230587000221 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 1230587000222 TPP-binding site [chemical binding]; other site 1230587000223 dimer interface [polypeptide binding]; other site 1230587000224 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 1230587000225 PYR/PP interface [polypeptide binding]; other site 1230587000226 dimer interface [polypeptide binding]; other site 1230587000227 TPP binding site [chemical binding]; other site 1230587000228 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587000229 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1230587000230 active site 1230587000231 intersubunit interactions; other site 1230587000232 catalytic residue [active] 1230587000233 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1230587000234 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1230587000235 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1230587000236 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587000237 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587000238 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1230587000239 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1230587000240 active site 1230587000241 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587000242 dimer interface [polypeptide binding]; other site 1230587000243 substrate binding site [chemical binding]; other site 1230587000244 catalytic residues [active] 1230587000245 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587000246 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1230587000247 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587000248 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 1230587000249 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587000250 DNA-binding site [nucleotide binding]; DNA binding site 1230587000251 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 1230587000252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587000253 homodimer interface [polypeptide binding]; other site 1230587000254 catalytic residue [active] 1230587000255 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1230587000256 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1230587000257 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1230587000258 succinic semialdehyde dehydrogenase; Region: PLN02278 1230587000259 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1230587000260 tetramerization interface [polypeptide binding]; other site 1230587000261 NAD(P) binding site [chemical binding]; other site 1230587000262 catalytic residues [active] 1230587000263 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587000264 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000265 dimer interface [polypeptide binding]; other site 1230587000266 conserved gate region; other site 1230587000267 putative PBP binding loops; other site 1230587000268 ABC-ATPase subunit interface; other site 1230587000269 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000270 dimer interface [polypeptide binding]; other site 1230587000271 conserved gate region; other site 1230587000272 putative PBP binding loops; other site 1230587000273 ABC-ATPase subunit interface; other site 1230587000274 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587000275 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587000276 Walker A/P-loop; other site 1230587000277 ATP binding site [chemical binding]; other site 1230587000278 Q-loop/lid; other site 1230587000279 ABC transporter signature motif; other site 1230587000280 Walker B; other site 1230587000281 D-loop; other site 1230587000282 H-loop/switch region; other site 1230587000283 TOBE domain; Region: TOBE_2; pfam08402 1230587000284 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587000285 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587000286 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 1230587000287 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587000288 DNA-binding site [nucleotide binding]; DNA binding site 1230587000289 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 1230587000290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587000291 homodimer interface [polypeptide binding]; other site 1230587000292 catalytic residue [active] 1230587000293 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1230587000294 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1230587000295 homodimer interface [polypeptide binding]; other site 1230587000296 substrate-cofactor binding pocket; other site 1230587000297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587000298 catalytic residue [active] 1230587000299 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1230587000300 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1230587000301 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 1230587000302 Metal-binding active site; metal-binding site 1230587000303 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1230587000304 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587000305 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1230587000306 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1230587000307 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1230587000308 Walker A/P-loop; other site 1230587000309 ATP binding site [chemical binding]; other site 1230587000310 Q-loop/lid; other site 1230587000311 ABC transporter signature motif; other site 1230587000312 Walker B; other site 1230587000313 D-loop; other site 1230587000314 H-loop/switch region; other site 1230587000315 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1230587000316 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1230587000317 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587000318 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587000319 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1230587000320 Walker A/P-loop; other site 1230587000321 ATP binding site [chemical binding]; other site 1230587000322 Q-loop/lid; other site 1230587000323 ABC transporter signature motif; other site 1230587000324 Walker B; other site 1230587000325 D-loop; other site 1230587000326 H-loop/switch region; other site 1230587000327 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 1230587000328 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587000329 TM-ABC transporter signature motif; other site 1230587000330 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 1230587000331 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1230587000332 TM-ABC transporter signature motif; other site 1230587000333 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1230587000334 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 1230587000335 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587000336 active site 1230587000337 catalytic tetrad [active] 1230587000338 NIPSNAP; Region: NIPSNAP; pfam07978 1230587000339 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 1230587000340 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1230587000341 trimer interface [polypeptide binding]; other site 1230587000342 active site 1230587000343 dimer interface [polypeptide binding]; other site 1230587000344 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1230587000345 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1230587000346 active site 1230587000347 dimer interface [polypeptide binding]; other site 1230587000348 metal binding site [ion binding]; metal-binding site 1230587000349 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1230587000350 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 1230587000351 active site pocket [active] 1230587000352 SnoaL-like domain; Region: SnoaL_4; pfam13577 1230587000353 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 1230587000354 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 1230587000355 dimer interface [polypeptide binding]; other site 1230587000356 active site 1230587000357 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1230587000358 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 1230587000359 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 1230587000360 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1230587000361 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1230587000362 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 1230587000363 heterodimer interface [polypeptide binding]; other site 1230587000364 active site 1230587000365 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 1230587000366 heterodimer interface [polypeptide binding]; other site 1230587000367 multimer interface [polypeptide binding]; other site 1230587000368 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1230587000369 active site 1230587000370 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1230587000371 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1230587000372 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1230587000373 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1230587000374 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587000375 Coenzyme A transferase; Region: CoA_trans; cl17247 1230587000376 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1230587000377 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1230587000378 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 1230587000379 dimer interface [polypeptide binding]; other site 1230587000380 active site 1230587000381 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587000382 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587000383 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587000384 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587000385 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587000386 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1230587000387 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1230587000388 ligand binding site [chemical binding]; other site 1230587000389 homodimer interface [polypeptide binding]; other site 1230587000390 NAD(P) binding site [chemical binding]; other site 1230587000391 trimer interface B [polypeptide binding]; other site 1230587000392 trimer interface A [polypeptide binding]; other site 1230587000393 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1230587000394 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 1230587000395 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1230587000396 Transposase; Region: HTH_Tnp_1; pfam01527 1230587000397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1230587000398 HTH-like domain; Region: HTH_21; pfam13276 1230587000399 Integrase core domain; Region: rve; pfam00665 1230587000400 Integrase core domain; Region: rve_3; pfam13683 1230587000401 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587000402 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587000403 DNA binding site [nucleotide binding] 1230587000404 domain linker motif; other site 1230587000405 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587000406 dimerization interface [polypeptide binding]; other site 1230587000407 ligand binding site [chemical binding]; other site 1230587000408 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587000409 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587000410 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587000411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000412 dimer interface [polypeptide binding]; other site 1230587000413 conserved gate region; other site 1230587000414 putative PBP binding loops; other site 1230587000415 ABC-ATPase subunit interface; other site 1230587000416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000417 dimer interface [polypeptide binding]; other site 1230587000418 conserved gate region; other site 1230587000419 putative PBP binding loops; other site 1230587000420 ABC-ATPase subunit interface; other site 1230587000421 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587000422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587000423 Walker A/P-loop; other site 1230587000424 ATP binding site [chemical binding]; other site 1230587000425 Q-loop/lid; other site 1230587000426 ABC transporter signature motif; other site 1230587000427 Walker B; other site 1230587000428 D-loop; other site 1230587000429 H-loop/switch region; other site 1230587000430 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587000431 classical (c) SDRs; Region: SDR_c; cd05233 1230587000432 NAD(P) binding site [chemical binding]; other site 1230587000433 active site 1230587000434 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587000435 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587000436 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587000437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587000438 Walker A/P-loop; other site 1230587000439 ATP binding site [chemical binding]; other site 1230587000440 Q-loop/lid; other site 1230587000441 ABC transporter signature motif; other site 1230587000442 Walker B; other site 1230587000443 D-loop; other site 1230587000444 H-loop/switch region; other site 1230587000445 TOBE domain; Region: TOBE_2; pfam08402 1230587000446 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587000447 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000448 dimer interface [polypeptide binding]; other site 1230587000449 conserved gate region; other site 1230587000450 putative PBP binding loops; other site 1230587000451 ABC-ATPase subunit interface; other site 1230587000452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000453 dimer interface [polypeptide binding]; other site 1230587000454 conserved gate region; other site 1230587000455 putative PBP binding loops; other site 1230587000456 ABC-ATPase subunit interface; other site 1230587000457 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1230587000458 dimer interface [polypeptide binding]; other site 1230587000459 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587000460 active site 1230587000461 metal binding site [ion binding]; metal-binding site 1230587000462 glutathione binding site [chemical binding]; other site 1230587000463 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 1230587000464 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1230587000465 ligand binding site [chemical binding]; other site 1230587000466 NAD binding site [chemical binding]; other site 1230587000467 catalytic site [active] 1230587000468 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1230587000469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587000470 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587000471 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1230587000472 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 1230587000473 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587000474 catalytic residue [active] 1230587000475 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1230587000476 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1230587000477 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1230587000478 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1230587000479 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1230587000480 SnoaL-like domain; Region: SnoaL_2; pfam12680 1230587000481 choline dehydrogenase; Validated; Region: PRK02106 1230587000482 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1230587000483 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587000484 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 1230587000485 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1230587000486 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 1230587000487 Ligand Binding Site [chemical binding]; other site 1230587000488 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1230587000489 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587000490 MULE transposase domain; Region: MULE; pfam10551 1230587000491 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587000492 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1230587000493 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 1230587000494 Ligand binding site [chemical binding]; other site 1230587000495 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 1230587000496 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1230587000497 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1230587000498 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 1230587000499 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1230587000500 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587000501 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 1230587000502 putative active site [active] 1230587000503 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587000504 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587000505 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587000506 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587000507 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587000508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587000509 Walker A/P-loop; other site 1230587000510 ATP binding site [chemical binding]; other site 1230587000511 Q-loop/lid; other site 1230587000512 ABC transporter signature motif; other site 1230587000513 Walker B; other site 1230587000514 D-loop; other site 1230587000515 H-loop/switch region; other site 1230587000516 TOBE domain; Region: TOBE_2; pfam08402 1230587000517 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587000518 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000519 dimer interface [polypeptide binding]; other site 1230587000520 conserved gate region; other site 1230587000521 putative PBP binding loops; other site 1230587000522 ABC-ATPase subunit interface; other site 1230587000523 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587000524 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587000525 dimer interface [polypeptide binding]; other site 1230587000526 conserved gate region; other site 1230587000527 putative PBP binding loops; other site 1230587000528 ABC-ATPase subunit interface; other site 1230587000529 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1230587000530 classical (c) SDRs; Region: SDR_c; cd05233 1230587000531 NAD(P) binding site [chemical binding]; other site 1230587000532 active site 1230587000533 haloalkane dehalogenase; Provisional; Region: PRK03592 1230587000534 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1230587000535 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 1230587000536 tetramer interface [polypeptide binding]; other site 1230587000537 TPP-binding site [chemical binding]; other site 1230587000538 heterodimer interface [polypeptide binding]; other site 1230587000539 phosphorylation loop region [posttranslational modification] 1230587000540 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1230587000541 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 1230587000542 alpha subunit interface [polypeptide binding]; other site 1230587000543 TPP binding site [chemical binding]; other site 1230587000544 heterodimer interface [polypeptide binding]; other site 1230587000545 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587000546 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1230587000547 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 1230587000548 E3 interaction surface; other site 1230587000549 lipoyl attachment site [posttranslational modification]; other site 1230587000550 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587000551 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587000552 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587000553 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587000554 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587000555 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 1230587000556 DNA interaction; other site 1230587000557 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587000558 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1230587000559 putative ligand binding site [chemical binding]; other site 1230587000560 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587000561 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 1230587000562 TM-ABC transporter signature motif; other site 1230587000563 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1230587000564 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 1230587000565 tetramer interface [polypeptide binding]; other site 1230587000566 TPP-binding site [chemical binding]; other site 1230587000567 heterodimer interface [polypeptide binding]; other site 1230587000568 phosphorylation loop region [posttranslational modification] 1230587000569 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1230587000570 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 1230587000571 alpha subunit interface [polypeptide binding]; other site 1230587000572 TPP binding site [chemical binding]; other site 1230587000573 heterodimer interface [polypeptide binding]; other site 1230587000574 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587000575 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1230587000576 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 1230587000577 E3 interaction surface; other site 1230587000578 lipoyl attachment site [posttranslational modification]; other site 1230587000579 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587000580 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587000581 classical (c) SDRs; Region: SDR_c; cd05233 1230587000582 NAD(P) binding site [chemical binding]; other site 1230587000583 active site 1230587000584 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1230587000585 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 1230587000586 OsmC-like protein; Region: OsmC; pfam02566 1230587000587 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1230587000588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587000589 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 1230587000590 dimerization interface [polypeptide binding]; other site 1230587000591 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1230587000592 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 1230587000593 tetramer interface [polypeptide binding]; other site 1230587000594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587000595 catalytic residue [active] 1230587000596 Domain of unknown function (DUF4392); Region: DUF4392; pfam14336 1230587000597 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 1230587000598 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 1230587000599 homotrimer interaction site [polypeptide binding]; other site 1230587000600 putative active site [active] 1230587000601 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1230587000602 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 1230587000603 ligand binding site [chemical binding]; other site 1230587000604 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587000605 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587000606 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587000607 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587000608 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587000609 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587000610 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587000611 DNA binding site [nucleotide binding] 1230587000612 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587000613 ligand binding site [chemical binding]; other site 1230587000614 dimerization interface [polypeptide binding]; other site 1230587000615 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587000616 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587000617 DNA binding site [nucleotide binding] 1230587000618 domain linker motif; other site 1230587000619 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587000620 dimerization interface [polypeptide binding]; other site 1230587000621 ligand binding site [chemical binding]; other site 1230587000622 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587000623 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587000624 Walker A/P-loop; other site 1230587000625 ATP binding site [chemical binding]; other site 1230587000626 Q-loop/lid; other site 1230587000627 ABC transporter signature motif; other site 1230587000628 Walker B; other site 1230587000629 D-loop; other site 1230587000630 H-loop/switch region; other site 1230587000631 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587000632 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1230587000633 putative active site [active] 1230587000634 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1230587000635 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1230587000636 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1230587000637 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1230587000638 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1230587000639 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1230587000640 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1230587000641 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 1230587000642 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 1230587000643 carboxyltransferase (CT) interaction site; other site 1230587000644 biotinylation site [posttranslational modification]; other site 1230587000645 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1230587000646 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587000647 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587000648 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1230587000649 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1230587000650 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 1230587000651 Cysteine-rich domain; Region: CCG; pfam02754 1230587000652 Cysteine-rich domain; Region: CCG; pfam02754 1230587000653 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1230587000654 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587000655 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1230587000656 homodimer interface [polypeptide binding]; other site 1230587000657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587000658 catalytic residue [active] 1230587000659 serine racemase; Region: PLN02970 1230587000660 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 1230587000661 tetramer interface [polypeptide binding]; other site 1230587000662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587000663 catalytic residue [active] 1230587000664 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1230587000665 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 1230587000666 dimer interface [polypeptide binding]; other site 1230587000667 active site 1230587000668 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587000669 substrate binding site [chemical binding]; other site 1230587000670 catalytic residue [active] 1230587000671 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1230587000672 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1230587000673 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1230587000674 lipoyl synthase; Provisional; Region: PRK05481 1230587000675 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 1230587000676 FeS/SAM binding site; other site 1230587000677 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 1230587000678 active site 1230587000679 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1230587000680 DNA binding residues [nucleotide binding] 1230587000681 dimerization interface [polypeptide binding]; other site 1230587000682 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1230587000683 Toprim-like; Region: Toprim_2; pfam13155 1230587000684 active site 1230587000685 metal binding site [ion binding]; metal-binding site 1230587000686 plasmid partitioning protein; Provisional; Region: PRK13832 1230587000687 ParB-like nuclease domain; Region: ParB; smart00470 1230587000688 plasmid partitioning protein; Provisional; Region: PRK13832 1230587000689 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1230587000690 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1230587000691 Uncharacterized conserved protein [Function unknown]; Region: COG5489 1230587000692 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 1230587000693 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 1230587000694 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 1230587000695 Walker A motif; other site 1230587000696 ATP binding site [chemical binding]; other site 1230587000697 Walker B motif; other site 1230587000698 conjugal transfer protein TraD; Provisional; Region: PRK13847 1230587000699 Dtr system oriT relaxase; Provisional; Region: PRK13826 1230587000700 MobA/MobL family; Region: MobA_MobL; pfam03389 1230587000701 AAA domain; Region: AAA_30; pfam13604 1230587000702 Family description; Region: UvrD_C_2; pfam13538 1230587000703 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1230587000704 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1230587000705 conjugal transfer protein TraB; Provisional; Region: PRK13825 1230587000706 active site 1230587000707 catalytic triad [active] 1230587000708 dimer interface [polypeptide binding]; other site 1230587000709 conjugal transfer protein TraH; Provisional; Region: PRK13843 1230587000710 Protein of unknown function (DUF433); Region: DUF433; pfam04255 1230587000711 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1230587000712 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 1230587000713 non-specific DNA binding site [nucleotide binding]; other site 1230587000714 salt bridge; other site 1230587000715 sequence-specific DNA binding site [nucleotide binding]; other site 1230587000716 Prokaryotic Transcriptional repressor TraM; Region: Prok-TraM; pfam09228 1230587000717 transcriptional regulator TraR; Provisional; Region: PRK13870 1230587000718 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1230587000719 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 1230587000720 DNA binding residues [nucleotide binding] 1230587000721 dimerization interface [polypeptide binding]; other site 1230587000722 conjugal transfer protein TrbI; Provisional; Region: PRK13831 1230587000723 conjugal transfer protein TrbH; Provisional; Region: PRK13835 1230587000724 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 1230587000725 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1230587000726 VirB7 interaction site; other site 1230587000727 conjugal transfer protein TrbF; Provisional; Region: PRK13836 1230587000728 conjugal transfer protein TrbL; Provisional; Region: PRK13841 1230587000729 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1230587000730 Protein of unknown function (DUF2749); Region: DUF2749; pfam10907 1230587000731 conjugal transfer protein TrbJ; Provisional; Region: PRK13842 1230587000732 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 1230587000733 conjugal transfer protein TrbE; Provisional; Region: PRK13830 1230587000734 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1230587000735 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1230587000736 conjugal transfer protein TrbD; Provisional; Region: PRK13823 1230587000737 conjugal transfer protein TrbC; Provisional; Region: PRK13871 1230587000738 conjugal transfer protein TrbB; Provisional; Region: PRK13833 1230587000739 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 1230587000740 ATP binding site [chemical binding]; other site 1230587000741 Walker A motif; other site 1230587000742 hexamer interface [polypeptide binding]; other site 1230587000743 Walker B motif; other site 1230587000744 putative autoinducer synthesis protein; Provisional; Region: PRK13834 1230587000745 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1230587000746 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 1230587000747 P-loop; other site 1230587000748 Magnesium ion binding site [ion binding]; other site 1230587000749 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 1230587000750 Magnesium ion binding site [ion binding]; other site 1230587000751 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1230587000752 ParB-like nuclease domain; Region: ParB; smart00470 1230587000753 replication initiation protein RepC; Provisional; Region: PRK13824 1230587000754 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1230587000755 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1230587000756 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1230587000757 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587000758 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587000759 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1230587000760 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587000761 Walker A/P-loop; other site 1230587000762 ATP binding site [chemical binding]; other site 1230587000763 Q-loop/lid; other site 1230587000764 ABC transporter signature motif; other site 1230587000765 Walker B; other site 1230587000766 D-loop; other site 1230587000767 H-loop/switch region; other site 1230587000768 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587000769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587000770 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587000771 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1230587000772 NADP binding site [chemical binding]; other site 1230587000773 dimer interface [polypeptide binding]; other site 1230587000774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587000775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587000776 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587000777 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587000778 NAD(P) binding site [chemical binding]; other site 1230587000779 catalytic residues [active] 1230587000780 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587000781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587000782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587000783 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 1230587000784 putative effector binding pocket; other site 1230587000785 putative dimerization interface [polypeptide binding]; other site 1230587000786 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1230587000787 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1230587000788 dimer interface [polypeptide binding]; other site 1230587000789 active site 1230587000790 heme binding site [chemical binding]; other site 1230587000791 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1230587000792 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 1230587000793 putative substrate translocation pore; other site 1230587000794 Transcriptional activator [Transcription]; Region: ChrR; COG3806 1230587000795 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1230587000796 cytosine deaminase; Validated; Region: PRK07572 1230587000797 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1230587000798 active site 1230587000799 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587000800 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 1230587000801 TM-ABC transporter signature motif; other site 1230587000802 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587000803 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 1230587000804 TM-ABC transporter signature motif; other site 1230587000805 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1230587000806 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587000807 Walker A/P-loop; other site 1230587000808 ATP binding site [chemical binding]; other site 1230587000809 Q-loop/lid; other site 1230587000810 ABC transporter signature motif; other site 1230587000811 Walker B; other site 1230587000812 D-loop; other site 1230587000813 H-loop/switch region; other site 1230587000814 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587000815 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1230587000816 Amidase; Region: Amidase; cl11426 1230587000817 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1230587000818 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 1230587000819 putative ligand binding site [chemical binding]; other site 1230587000820 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1230587000821 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587000822 cyclase homology domain; Region: CHD; cd07302 1230587000823 nucleotidyl binding site; other site 1230587000824 metal binding site [ion binding]; metal-binding site 1230587000825 dimer interface [polypeptide binding]; other site 1230587000826 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1230587000827 active site 1230587000828 DNA polymerase IV; Validated; Region: PRK02406 1230587000829 DNA binding site [nucleotide binding] 1230587000830 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587000831 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587000832 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587000833 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1230587000834 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1230587000835 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 1230587000836 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 1230587000837 catalytic loop [active] 1230587000838 iron binding site [ion binding]; other site 1230587000839 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587000840 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 1230587000841 S-adenosylmethionine binding site [chemical binding]; other site 1230587000842 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 1230587000843 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1230587000844 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1230587000845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587000846 NAD(P) binding site [chemical binding]; other site 1230587000847 active site 1230587000848 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587000849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587000850 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 1230587000851 putative effector binding pocket; other site 1230587000852 putative dimerization interface [polypeptide binding]; other site 1230587000853 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1230587000854 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1230587000855 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1230587000856 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1230587000857 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1230587000858 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1230587000859 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1230587000860 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1230587000861 Ligand Binding Site [chemical binding]; other site 1230587000862 GAF domain; Region: GAF_3; pfam13492 1230587000863 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 1230587000864 dimer interface [polypeptide binding]; other site 1230587000865 phosphorylation site [posttranslational modification] 1230587000866 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 1230587000867 ATP binding site [chemical binding]; other site 1230587000868 Mg2+ binding site [ion binding]; other site 1230587000869 G-X-G motif; other site 1230587000870 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587000871 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 1230587000872 active site 1230587000873 phosphorylation site [posttranslational modification] 1230587000874 intermolecular recognition site; other site 1230587000875 dimerization interface [polypeptide binding]; other site 1230587000876 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 1230587000877 DNA binding site [nucleotide binding] 1230587000878 Ion channel; Region: Ion_trans_2; pfam07885 1230587000879 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1230587000880 Part of AAA domain; Region: AAA_19; pfam13245 1230587000881 Family description; Region: UvrD_C_2; pfam13538 1230587000882 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1230587000883 putative C-terminal domain interface [polypeptide binding]; other site 1230587000884 putative GSH binding site (G-site) [chemical binding]; other site 1230587000885 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587000886 putative dimer interface [polypeptide binding]; other site 1230587000887 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1230587000888 dimer interface [polypeptide binding]; other site 1230587000889 N-terminal domain interface [polypeptide binding]; other site 1230587000890 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587000891 aminoglycoside resistance protein; Provisional; Region: PRK13746 1230587000892 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1230587000893 active site 1230587000894 NTP binding site [chemical binding]; other site 1230587000895 metal binding triad [ion binding]; metal-binding site 1230587000896 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1230587000897 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587000898 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587000899 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587000900 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 1230587000901 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587000902 active site 1230587000903 catalytic tetrad [active] 1230587000904 non-specific DNA interactions [nucleotide binding]; other site 1230587000905 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; cl17320 1230587000906 DNA binding site [nucleotide binding] 1230587000907 sequence specific DNA binding site [nucleotide binding]; other site 1230587000908 putative cAMP binding site [chemical binding]; other site 1230587000909 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1230587000910 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1230587000911 nucleotide binding site [chemical binding]; other site 1230587000912 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1230587000913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587000914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587000915 metal binding site [ion binding]; metal-binding site 1230587000916 active site 1230587000917 I-site; other site 1230587000918 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1230587000919 Bacterial SH3 domain; Region: SH3_3; pfam08239 1230587000920 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1230587000921 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1230587000922 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1230587000923 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1230587000924 Transglycosylase; Region: Transgly; pfam00912 1230587000925 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1230587000926 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587000927 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587000928 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 1230587000929 dimerization interface [polypeptide binding]; other site 1230587000930 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1230587000931 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_family; cd02803 1230587000932 active site 1230587000933 FMN binding site [chemical binding]; other site 1230587000934 substrate binding site [chemical binding]; other site 1230587000935 putative catalytic residue [active] 1230587000936 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 1230587000937 homotrimer interaction site [polypeptide binding]; other site 1230587000938 putative active site [active] 1230587000939 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587000940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587000941 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1230587000942 dimerization interface [polypeptide binding]; other site 1230587000943 substrate binding pocket [chemical binding]; other site 1230587000944 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_7; cd08353 1230587000945 putative dimer interface [polypeptide binding]; other site 1230587000946 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587000947 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 1230587000948 active site 1230587000949 DNA binding site [nucleotide binding] 1230587000950 Int/Topo IB signature motif; other site 1230587000951 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1230587000952 Predicted transcriptional regulator [Transcription]; Region: COG3905 1230587000953 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587000954 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1230587000955 putative active site [active] 1230587000956 homotetrameric interface [polypeptide binding]; other site 1230587000957 metal binding site [ion binding]; metal-binding site 1230587000958 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1230587000959 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 1230587000960 HTH DNA binding domain; Region: HTH_13; pfam11972 1230587000961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587000962 AAA domain; Region: AAA_23; pfam13476 1230587000963 AAA domain; Region: AAA_21; pfam13304 1230587000964 Walker A/P-loop; other site 1230587000965 ATP binding site [chemical binding]; other site 1230587000966 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1230587000967 putative active site [active] 1230587000968 putative metal-binding site [ion binding]; other site 1230587000969 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1230587000970 Family description; Region: UvrD_C_2; pfam13538 1230587000971 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 1230587000972 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 1230587000973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587000974 AAA domain; Region: AAA_21; pfam13304 1230587000975 Walker A/P-loop; other site 1230587000976 ATP binding site [chemical binding]; other site 1230587000977 Q-loop/lid; other site 1230587000978 ABC transporter signature motif; other site 1230587000979 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587000980 Walker B; other site 1230587000981 D-loop; other site 1230587000982 H-loop/switch region; other site 1230587000983 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 1230587000984 active site 1230587000985 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1230587000986 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587000987 Walker A/P-loop; other site 1230587000988 ATP binding site [chemical binding]; other site 1230587000989 Q-loop/lid; other site 1230587000990 ABC transporter signature motif; other site 1230587000991 Walker B; other site 1230587000992 D-loop; other site 1230587000993 H-loop/switch region; other site 1230587000994 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1230587000995 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1230587000996 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587000997 Walker A/P-loop; other site 1230587000998 ATP binding site [chemical binding]; other site 1230587000999 Q-loop/lid; other site 1230587001000 ABC transporter signature motif; other site 1230587001001 Walker B; other site 1230587001002 D-loop; other site 1230587001003 H-loop/switch region; other site 1230587001004 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587001005 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587001006 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001007 dimer interface [polypeptide binding]; other site 1230587001008 conserved gate region; other site 1230587001009 ABC-ATPase subunit interface; other site 1230587001010 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587001011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001012 conserved gate region; other site 1230587001013 dimer interface [polypeptide binding]; other site 1230587001014 putative PBP binding loops; other site 1230587001015 ABC-ATPase subunit interface; other site 1230587001016 Cupin domain; Region: Cupin_2; cl17218 1230587001017 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587001018 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1230587001019 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587001020 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001021 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1230587001022 dimerization interface [polypeptide binding]; other site 1230587001023 substrate binding pocket [chemical binding]; other site 1230587001024 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1230587001025 active sites [active] 1230587001026 tetramer interface [polypeptide binding]; other site 1230587001027 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1230587001028 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001029 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 1230587001030 putative dimerization interface [polypeptide binding]; other site 1230587001031 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1230587001032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001034 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 1230587001035 putative effector binding pocket; other site 1230587001036 putative dimerization interface [polypeptide binding]; other site 1230587001037 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 1230587001038 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1230587001039 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1230587001040 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1230587001041 Cupin; Region: Cupin_6; pfam12852 1230587001042 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1230587001043 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587001044 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587001045 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1230587001046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001047 NAD(P) binding site [chemical binding]; other site 1230587001048 active site 1230587001049 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1230587001050 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1230587001051 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1230587001052 short chain dehydrogenase; Provisional; Region: PRK06180 1230587001053 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1230587001054 NADP binding site [chemical binding]; other site 1230587001055 active site 1230587001056 steroid binding site; other site 1230587001057 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1230587001058 classical (c) SDRs; Region: SDR_c; cd05233 1230587001059 NAD(P) binding site [chemical binding]; other site 1230587001060 active site 1230587001061 Predicted membrane protein [Function unknown]; Region: COG2259 1230587001062 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1230587001063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001064 NAD(P) binding site [chemical binding]; other site 1230587001065 active site 1230587001066 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 1230587001067 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587001068 classical (c) SDRs; Region: SDR_c; cd05233 1230587001069 NAD(P) binding site [chemical binding]; other site 1230587001070 active site 1230587001071 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1230587001072 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587001073 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1230587001074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001076 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1230587001077 substrate binding pocket [chemical binding]; other site 1230587001078 dimerization interface [polypeptide binding]; other site 1230587001079 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1230587001080 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1230587001081 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1230587001082 Pirin-related protein [General function prediction only]; Region: COG1741 1230587001083 Pirin; Region: Pirin; pfam02678 1230587001084 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1230587001085 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001086 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001087 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1230587001088 dimerization interface [polypeptide binding]; other site 1230587001089 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001090 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001091 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1230587001092 dimerization interface [polypeptide binding]; other site 1230587001093 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587001094 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1230587001095 catalytic triad [active] 1230587001096 dimer interface [polypeptide binding]; other site 1230587001097 conserved cis-peptide bond; other site 1230587001098 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 1230587001099 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1230587001100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001101 NAD(P) binding site [chemical binding]; other site 1230587001102 active site 1230587001103 Predicted acetyltransferase [General function prediction only]; Region: COG3153 1230587001104 Homeodomain-like domain; Region: HTH_23; cl17451 1230587001105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1230587001106 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1230587001107 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1230587001108 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1230587001109 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1230587001110 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 1230587001111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001113 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 1230587001114 putative effector binding pocket; other site 1230587001115 dimerization interface [polypeptide binding]; other site 1230587001116 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1230587001117 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587001118 Zn binding site [ion binding]; other site 1230587001119 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1230587001120 Zn binding site [ion binding]; other site 1230587001121 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1230587001122 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587001123 catalytic triad [active] 1230587001124 dimer interface [polypeptide binding]; other site 1230587001125 conserved cis-peptide bond; other site 1230587001126 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 1230587001127 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1230587001128 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 1230587001129 active site 1230587001130 Predicted membrane protein [Function unknown]; Region: COG2259 1230587001131 Transmembrane secretion effector; Region: MFS_3; pfam05977 1230587001132 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 1230587001133 putative substrate translocation pore; other site 1230587001134 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 1230587001135 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 1230587001136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587001137 homodimer interface [polypeptide binding]; other site 1230587001138 catalytic residue [active] 1230587001139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001140 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1230587001141 NAD(P) binding site [chemical binding]; other site 1230587001142 active site 1230587001143 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587001144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587001145 Walker A/P-loop; other site 1230587001146 ATP binding site [chemical binding]; other site 1230587001147 Q-loop/lid; other site 1230587001148 ABC transporter signature motif; other site 1230587001149 Walker B; other site 1230587001150 D-loop; other site 1230587001151 H-loop/switch region; other site 1230587001152 TOBE domain; Region: TOBE_2; pfam08402 1230587001153 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587001154 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587001155 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001156 dimer interface [polypeptide binding]; other site 1230587001157 conserved gate region; other site 1230587001158 putative PBP binding loops; other site 1230587001159 ABC-ATPase subunit interface; other site 1230587001160 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587001161 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001162 dimer interface [polypeptide binding]; other site 1230587001163 conserved gate region; other site 1230587001164 putative PBP binding loops; other site 1230587001165 ABC-ATPase subunit interface; other site 1230587001166 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1230587001167 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 1230587001168 NAD binding site [chemical binding]; other site 1230587001169 dimerization interface [polypeptide binding]; other site 1230587001170 product binding site; other site 1230587001171 substrate binding site [chemical binding]; other site 1230587001172 zinc binding site [ion binding]; other site 1230587001173 catalytic residues [active] 1230587001174 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587001175 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587001176 NAD(P) binding site [chemical binding]; other site 1230587001177 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1230587001178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587001179 DNA-binding site [nucleotide binding]; DNA binding site 1230587001180 UTRA domain; Region: UTRA; pfam07702 1230587001181 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1230587001182 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 1230587001183 phosphate binding site [ion binding]; other site 1230587001184 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587001185 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587001186 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1230587001187 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1230587001188 ligand binding site [chemical binding]; other site 1230587001189 active site 1230587001190 choline dehydrogenase; Validated; Region: PRK02106 1230587001191 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587001192 NIPSNAP; Region: NIPSNAP; pfam07978 1230587001193 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587001194 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1230587001195 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1230587001196 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587001197 Walker A/P-loop; other site 1230587001198 ATP binding site [chemical binding]; other site 1230587001199 Q-loop/lid; other site 1230587001200 ABC transporter signature motif; other site 1230587001201 Walker B; other site 1230587001202 D-loop; other site 1230587001203 H-loop/switch region; other site 1230587001204 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587001205 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587001206 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 1230587001207 TM-ABC transporter signature motif; other site 1230587001208 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587001209 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 1230587001210 TM-ABC transporter signature motif; other site 1230587001211 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 1230587001212 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587001213 active site 1230587001214 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 1230587001215 active site 1230587001216 tetramer interface [polypeptide binding]; other site 1230587001217 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 1230587001218 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1230587001219 active site 1230587001220 putative substrate binding pocket [chemical binding]; other site 1230587001221 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587001222 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 1230587001223 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1230587001224 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1230587001225 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1230587001226 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 1230587001227 AAA domain; Region: AAA_18; pfam13238 1230587001228 active site 1230587001229 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 1230587001230 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1230587001231 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1230587001232 conserved cys residue [active] 1230587001233 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1230587001234 BA14K-like protein; Region: BA14K; pfam07886 1230587001235 EF-hand domain pair; Region: EF_hand_5; pfam13499 1230587001236 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1230587001237 Ca2+ binding site [ion binding]; other site 1230587001238 EF-hand domain pair; Region: EF_hand_5; pfam13499 1230587001239 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1230587001240 Ca2+ binding site [ion binding]; other site 1230587001241 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1230587001242 Ca2+ binding site [ion binding]; other site 1230587001243 RNA polymerase sigma factor; Reviewed; Region: PRK05602 1230587001244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587001245 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 1230587001246 DNA binding residues [nucleotide binding] 1230587001247 Heavy-metal resistance; Region: Metal_resist; pfam13801 1230587001248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001249 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1230587001250 NAD(P) binding site [chemical binding]; other site 1230587001251 active site 1230587001252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001253 NmrA-like family; Region: NmrA; pfam05368 1230587001254 NAD(P) binding site [chemical binding]; other site 1230587001255 active site 1230587001256 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1230587001257 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1230587001258 NADP binding site [chemical binding]; other site 1230587001259 active site 1230587001260 steroid binding site; other site 1230587001261 short chain dehydrogenase; Provisional; Region: PRK12937 1230587001262 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1230587001263 NADP binding site [chemical binding]; other site 1230587001264 homodimer interface [polypeptide binding]; other site 1230587001265 active site 1230587001266 substrate binding site [chemical binding]; other site 1230587001267 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001269 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1230587001270 putative effector binding pocket; other site 1230587001271 putative dimerization interface [polypeptide binding]; other site 1230587001272 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587001273 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1230587001274 substrate binding site [chemical binding]; other site 1230587001275 ATP binding site [chemical binding]; other site 1230587001276 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587001277 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587001278 DNA binding site [nucleotide binding] 1230587001279 domain linker motif; other site 1230587001280 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587001281 dimerization interface [polypeptide binding]; other site 1230587001282 ligand binding site [chemical binding]; other site 1230587001283 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 1230587001284 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587001285 substrate binding pocket [chemical binding]; other site 1230587001286 membrane-bound complex binding site; other site 1230587001287 hinge residues; other site 1230587001288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001289 dimer interface [polypeptide binding]; other site 1230587001290 conserved gate region; other site 1230587001291 putative PBP binding loops; other site 1230587001292 ABC-ATPase subunit interface; other site 1230587001293 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587001294 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587001295 Walker A/P-loop; other site 1230587001296 ATP binding site [chemical binding]; other site 1230587001297 Q-loop/lid; other site 1230587001298 ABC transporter signature motif; other site 1230587001299 Walker B; other site 1230587001300 D-loop; other site 1230587001301 H-loop/switch region; other site 1230587001302 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1230587001303 ornithine cyclodeaminase; Validated; Region: PRK06141 1230587001304 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1230587001305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587001306 DNA-binding site [nucleotide binding]; DNA binding site 1230587001307 UTRA domain; Region: UTRA; pfam07702 1230587001308 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1230587001309 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 1230587001310 putative active site [active] 1230587001311 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1230587001312 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1230587001313 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587001314 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1230587001315 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 1230587001316 DNA interaction; other site 1230587001317 Metal-binding active site; metal-binding site 1230587001318 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1230587001319 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 1230587001320 putative active site [active] 1230587001321 putative FMN binding site [chemical binding]; other site 1230587001322 putative catalytic residue [active] 1230587001323 putative substrate binding site [chemical binding]; other site 1230587001324 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587001325 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1230587001326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001327 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 1230587001328 dimerization interface [polypeptide binding]; other site 1230587001329 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587001330 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001331 dimer interface [polypeptide binding]; other site 1230587001332 conserved gate region; other site 1230587001333 putative PBP binding loops; other site 1230587001334 ABC-ATPase subunit interface; other site 1230587001335 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587001336 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001337 dimer interface [polypeptide binding]; other site 1230587001338 conserved gate region; other site 1230587001339 putative PBP binding loops; other site 1230587001340 ABC-ATPase subunit interface; other site 1230587001341 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1230587001342 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587001343 Walker A/P-loop; other site 1230587001344 ATP binding site [chemical binding]; other site 1230587001345 Q-loop/lid; other site 1230587001346 ABC transporter signature motif; other site 1230587001347 Walker B; other site 1230587001348 D-loop; other site 1230587001349 H-loop/switch region; other site 1230587001350 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1230587001351 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 1230587001352 substrate binding pocket [chemical binding]; other site 1230587001353 membrane-bound complex binding site; other site 1230587001354 hinge residues; other site 1230587001355 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587001356 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587001357 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1230587001358 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1230587001359 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1230587001360 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 1230587001361 homotrimer interaction site [polypeptide binding]; other site 1230587001362 putative active site [active] 1230587001363 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1230587001364 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 1230587001365 active site pocket [active] 1230587001366 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1230587001367 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 1230587001368 dimer interface [polypeptide binding]; other site 1230587001369 active site 1230587001370 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587001371 substrate binding site [chemical binding]; other site 1230587001372 catalytic residue [active] 1230587001373 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587001374 aldolase II superfamily protein; Provisional; Region: PRK07044 1230587001375 active site 1230587001376 intersubunit interface [polypeptide binding]; other site 1230587001377 Zn2+ binding site [ion binding]; other site 1230587001378 aspartate aminotransferase; Provisional; Region: PRK06108 1230587001379 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 1230587001380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587001381 homodimer interface [polypeptide binding]; other site 1230587001382 catalytic residue [active] 1230587001383 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1230587001384 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1230587001385 metal binding site [ion binding]; metal-binding site 1230587001386 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587001387 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587001388 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1230587001389 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 1230587001390 active site 1230587001391 catalytic site [active] 1230587001392 Zn binding site [ion binding]; other site 1230587001393 tetramer interface [polypeptide binding]; other site 1230587001394 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587001395 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 1230587001396 substrate binding pocket [chemical binding]; other site 1230587001397 membrane-bound complex binding site; other site 1230587001398 hinge residues; other site 1230587001399 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587001400 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001401 dimer interface [polypeptide binding]; other site 1230587001402 conserved gate region; other site 1230587001403 putative PBP binding loops; other site 1230587001404 ABC-ATPase subunit interface; other site 1230587001405 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587001406 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587001407 Walker A/P-loop; other site 1230587001408 ATP binding site [chemical binding]; other site 1230587001409 Q-loop/lid; other site 1230587001410 ABC transporter signature motif; other site 1230587001411 Walker B; other site 1230587001412 D-loop; other site 1230587001413 H-loop/switch region; other site 1230587001414 allantoate amidohydrolase; Reviewed; Region: PRK12892 1230587001415 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1230587001416 active site 1230587001417 metal binding site [ion binding]; metal-binding site 1230587001418 dimer interface [polypeptide binding]; other site 1230587001419 hypothetical protein; Provisional; Region: PRK07524 1230587001420 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587001421 PYR/PP interface [polypeptide binding]; other site 1230587001422 dimer interface [polypeptide binding]; other site 1230587001423 TPP binding site [chemical binding]; other site 1230587001424 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587001425 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 1230587001426 TPP-binding site [chemical binding]; other site 1230587001427 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 1230587001428 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 1230587001429 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587001430 catalytic residue [active] 1230587001431 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 1230587001432 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587001433 substrate binding pocket [chemical binding]; other site 1230587001434 membrane-bound complex binding site; other site 1230587001435 hinge residues; other site 1230587001436 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587001437 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001438 dimer interface [polypeptide binding]; other site 1230587001439 conserved gate region; other site 1230587001440 putative PBP binding loops; other site 1230587001441 ABC-ATPase subunit interface; other site 1230587001442 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587001443 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587001444 Walker A/P-loop; other site 1230587001445 ATP binding site [chemical binding]; other site 1230587001446 Q-loop/lid; other site 1230587001447 ABC transporter signature motif; other site 1230587001448 Walker B; other site 1230587001449 D-loop; other site 1230587001450 H-loop/switch region; other site 1230587001451 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1230587001452 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587001453 NAD binding site [chemical binding]; other site 1230587001454 catalytic residues [active] 1230587001455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1230587001456 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1230587001457 Sterile alpha motif; Region: SAM; smart00454 1230587001458 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 1230587001459 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 1230587001460 cyclase homology domain; Region: CHD; cd07302 1230587001461 nucleotidyl binding site; other site 1230587001462 metal binding site [ion binding]; metal-binding site 1230587001463 dimer interface [polypeptide binding]; other site 1230587001464 AAA ATPase domain; Region: AAA_16; pfam13191 1230587001465 SnoaL-like domain; Region: SnoaL_4; pfam13577 1230587001466 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1230587001467 active site 1230587001468 catalytic residues [active] 1230587001469 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1230587001470 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1230587001471 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1230587001472 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 1230587001473 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1230587001474 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587001475 putative NAD(P) binding site [chemical binding]; other site 1230587001476 Predicted transcriptional regulators [Transcription]; Region: COG1733 1230587001477 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1230587001478 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587001479 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587001480 catalytic residues [active] 1230587001481 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1230587001482 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1230587001483 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1230587001484 catalytic Zn binding site [ion binding]; other site 1230587001485 NAD binding site [chemical binding]; other site 1230587001486 structural Zn binding site [ion binding]; other site 1230587001487 LysR family transcriptional regulator; Provisional; Region: PRK14997 1230587001488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001489 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 1230587001490 putative effector binding pocket; other site 1230587001491 dimerization interface [polypeptide binding]; other site 1230587001492 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1230587001493 classical (c) SDRs; Region: SDR_c; cd05233 1230587001494 NAD(P) binding site [chemical binding]; other site 1230587001495 active site 1230587001496 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587001497 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587001498 NAD(P) binding site [chemical binding]; other site 1230587001499 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1230587001500 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1230587001501 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001503 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 1230587001504 putative effector binding pocket; other site 1230587001505 dimerization interface [polypeptide binding]; other site 1230587001506 Pirin-related protein [General function prediction only]; Region: COG1741 1230587001507 Pirin; Region: Pirin; pfam02678 1230587001508 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1230587001509 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587001510 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587001511 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587001512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001514 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1230587001515 substrate binding pocket [chemical binding]; other site 1230587001516 dimerization interface [polypeptide binding]; other site 1230587001517 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587001518 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587001519 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 1230587001520 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587001521 active site 1230587001522 catalytic tetrad [active] 1230587001523 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587001524 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587001525 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587001526 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587001527 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 1230587001528 active site 1230587001529 phosphorylation site [posttranslational modification] 1230587001530 intermolecular recognition site; other site 1230587001531 dimerization interface [polypeptide binding]; other site 1230587001532 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 1230587001533 DNA binding site [nucleotide binding] 1230587001534 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587001535 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 1230587001536 dimer interface [polypeptide binding]; other site 1230587001537 phosphorylation site [posttranslational modification] 1230587001538 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 1230587001539 ATP binding site [chemical binding]; other site 1230587001540 Mg2+ binding site [ion binding]; other site 1230587001541 G-X-G motif; other site 1230587001542 CAAX protease self-immunity; Region: Abi; pfam02517 1230587001543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587001544 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587001545 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001547 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 1230587001548 putative effector binding pocket; other site 1230587001549 dimerization interface [polypeptide binding]; other site 1230587001550 Prolyl oligopeptidase, N-terminal beta-propeller domain; Region: Peptidase_S9_N; pfam02897 1230587001551 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1230587001552 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1230587001553 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1230587001554 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587001555 Walker A/P-loop; other site 1230587001556 ATP binding site [chemical binding]; other site 1230587001557 Q-loop/lid; other site 1230587001558 ABC transporter signature motif; other site 1230587001559 Walker B; other site 1230587001560 D-loop; other site 1230587001561 H-loop/switch region; other site 1230587001562 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1230587001563 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587001564 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1230587001565 Walker A/P-loop; other site 1230587001566 ATP binding site [chemical binding]; other site 1230587001567 Q-loop/lid; other site 1230587001568 ABC transporter signature motif; other site 1230587001569 Walker B; other site 1230587001570 D-loop; other site 1230587001571 H-loop/switch region; other site 1230587001572 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587001573 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587001574 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_10; cd08515 1230587001575 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587001576 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001577 dimer interface [polypeptide binding]; other site 1230587001578 conserved gate region; other site 1230587001579 putative PBP binding loops; other site 1230587001580 ABC-ATPase subunit interface; other site 1230587001581 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587001582 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001583 dimer interface [polypeptide binding]; other site 1230587001584 ABC-ATPase subunit interface; other site 1230587001585 putative PBP binding loops; other site 1230587001586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001588 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 1230587001589 dimerization interface [polypeptide binding]; other site 1230587001590 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1230587001591 putative NAD(P) binding site [chemical binding]; other site 1230587001592 short chain dehydrogenase; Provisional; Region: PRK06523 1230587001593 putative active site [active] 1230587001594 Cupin domain; Region: Cupin_2; pfam07883 1230587001595 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587001596 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 1230587001597 substrate binding pocket [chemical binding]; other site 1230587001598 membrane-bound complex binding site; other site 1230587001599 hinge residues; other site 1230587001600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001601 dimer interface [polypeptide binding]; other site 1230587001602 conserved gate region; other site 1230587001603 putative PBP binding loops; other site 1230587001604 ABC-ATPase subunit interface; other site 1230587001605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001606 ABC-ATPase subunit interface; other site 1230587001607 putative PBP binding loops; other site 1230587001608 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587001609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587001610 Walker A/P-loop; other site 1230587001611 ATP binding site [chemical binding]; other site 1230587001612 Q-loop/lid; other site 1230587001613 ABC transporter signature motif; other site 1230587001614 Walker B; other site 1230587001615 D-loop; other site 1230587001616 H-loop/switch region; other site 1230587001617 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587001618 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1230587001619 inhibitor site; inhibition site 1230587001620 active site 1230587001621 dimer interface [polypeptide binding]; other site 1230587001622 catalytic residue [active] 1230587001623 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 1230587001624 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 1230587001625 active site 1230587001626 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1230587001627 Amidase; Region: Amidase; cl11426 1230587001628 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1230587001629 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587001630 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587001631 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587001632 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1230587001633 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1230587001634 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1230587001635 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587001636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001637 dimer interface [polypeptide binding]; other site 1230587001638 conserved gate region; other site 1230587001639 putative PBP binding loops; other site 1230587001640 ABC-ATPase subunit interface; other site 1230587001641 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587001642 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1230587001643 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001644 dimer interface [polypeptide binding]; other site 1230587001645 conserved gate region; other site 1230587001646 putative PBP binding loops; other site 1230587001647 ABC-ATPase subunit interface; other site 1230587001648 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1230587001649 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587001650 Walker A/P-loop; other site 1230587001651 ATP binding site [chemical binding]; other site 1230587001652 Q-loop/lid; other site 1230587001653 ABC transporter signature motif; other site 1230587001654 Walker B; other site 1230587001655 D-loop; other site 1230587001656 H-loop/switch region; other site 1230587001657 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587001658 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1230587001659 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587001660 Walker A/P-loop; other site 1230587001661 ATP binding site [chemical binding]; other site 1230587001662 Q-loop/lid; other site 1230587001663 ABC transporter signature motif; other site 1230587001664 Walker B; other site 1230587001665 D-loop; other site 1230587001666 H-loop/switch region; other site 1230587001667 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1230587001668 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1230587001669 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1230587001670 metal binding site [ion binding]; metal-binding site 1230587001671 dimer interface [polypeptide binding]; other site 1230587001672 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1230587001673 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1230587001674 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1230587001675 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 1230587001676 NmrA-like family; Region: NmrA; pfam05368 1230587001677 NADP binding site [chemical binding]; other site 1230587001678 active site 1230587001679 regulatory binding site [polypeptide binding]; other site 1230587001680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001682 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 1230587001683 putative effector binding pocket; other site 1230587001684 dimerization interface [polypeptide binding]; other site 1230587001685 Fic family protein [Function unknown]; Region: COG3177 1230587001686 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1230587001687 Fic/DOC family; Region: Fic; pfam02661 1230587001688 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1230587001689 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1230587001690 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 1230587001691 Moco binding site; other site 1230587001692 metal coordination site [ion binding]; other site 1230587001693 dimerization interface [polypeptide binding]; other site 1230587001694 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1230587001695 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1230587001696 active site 1230587001697 non-prolyl cis peptide bond; other site 1230587001698 Putative NADH-flavin reductase [General function prediction only]; Region: COG2910 1230587001699 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1230587001700 NAD(P) binding site [chemical binding]; other site 1230587001701 active site 1230587001702 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1230587001703 hypothetical protein; Provisional; Region: PRK07236 1230587001704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001705 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1230587001706 NAD(P) binding site [chemical binding]; other site 1230587001707 active site 1230587001708 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1230587001709 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1230587001710 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1230587001711 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1230587001712 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1230587001713 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1230587001714 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587001715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001716 dimer interface [polypeptide binding]; other site 1230587001717 conserved gate region; other site 1230587001718 putative PBP binding loops; other site 1230587001719 ABC-ATPase subunit interface; other site 1230587001720 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587001721 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001722 dimer interface [polypeptide binding]; other site 1230587001723 conserved gate region; other site 1230587001724 putative PBP binding loops; other site 1230587001725 ABC-ATPase subunit interface; other site 1230587001726 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1230587001727 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587001728 Walker A/P-loop; other site 1230587001729 ATP binding site [chemical binding]; other site 1230587001730 Q-loop/lid; other site 1230587001731 ABC transporter signature motif; other site 1230587001732 Walker B; other site 1230587001733 D-loop; other site 1230587001734 H-loop/switch region; other site 1230587001735 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587001736 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1230587001737 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587001738 Walker A/P-loop; other site 1230587001739 ATP binding site [chemical binding]; other site 1230587001740 Q-loop/lid; other site 1230587001741 ABC transporter signature motif; other site 1230587001742 Walker B; other site 1230587001743 D-loop; other site 1230587001744 H-loop/switch region; other site 1230587001745 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1230587001746 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 1230587001747 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587001748 active site 1230587001749 catalytic tetrad [active] 1230587001750 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587001751 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 1230587001752 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1230587001753 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1230587001754 Flavin binding site [chemical binding]; other site 1230587001755 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1230587001756 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1230587001757 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1230587001758 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1230587001759 Walker A/P-loop; other site 1230587001760 ATP binding site [chemical binding]; other site 1230587001761 Q-loop/lid; other site 1230587001762 ABC transporter signature motif; other site 1230587001763 Walker B; other site 1230587001764 D-loop; other site 1230587001765 H-loop/switch region; other site 1230587001766 TOBE-like domain; Region: TOBE_3; pfam12857 1230587001767 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587001768 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 1230587001769 active site 1230587001770 phosphorylation site [posttranslational modification] 1230587001771 intermolecular recognition site; other site 1230587001772 dimerization interface [polypeptide binding]; other site 1230587001773 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1230587001774 HWE histidine kinase; Region: HWE_HK; pfam07536 1230587001775 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 1230587001776 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 1230587001777 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 1230587001778 Walker A motif; other site 1230587001779 Walker A motif; other site 1230587001780 ATP binding site [chemical binding]; other site 1230587001781 Walker B motif; other site 1230587001782 KaiC; Region: KaiC; pfam06745 1230587001783 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 1230587001784 Walker A motif; other site 1230587001785 ATP binding site [chemical binding]; other site 1230587001786 Walker B motif; other site 1230587001787 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587001788 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587001789 DNA binding site [nucleotide binding] 1230587001790 Predicted transcriptional regulator [Transcription]; Region: COG2944 1230587001791 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 1230587001792 non-specific DNA binding site [nucleotide binding]; other site 1230587001793 salt bridge; other site 1230587001794 sequence-specific DNA binding site [nucleotide binding]; other site 1230587001795 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1230587001796 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1230587001797 ParB-like nuclease domain; Region: ParB; smart00470 1230587001798 RepB plasmid partitioning protein; Region: RepB; pfam07506 1230587001799 RepB plasmid partitioning protein; Region: RepB; pfam07506 1230587001800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1230587001801 Transposase; Region: HTH_Tnp_1; pfam01527 1230587001802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587001803 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587001804 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587001805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587001806 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587001807 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587001808 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587001809 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1230587001810 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1230587001811 catalytic residues [active] 1230587001812 catalytic nucleophile [active] 1230587001813 Recombinase; Region: Recombinase; pfam07508 1230587001814 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1230587001815 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587001816 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587001817 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 1230587001818 DNA-binding site [nucleotide binding]; DNA binding site 1230587001819 RNA-binding motif; other site 1230587001820 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587001821 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 1230587001822 active site 1230587001823 phosphorylation site [posttranslational modification] 1230587001824 intermolecular recognition site; other site 1230587001825 dimerization interface [polypeptide binding]; other site 1230587001826 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 1230587001827 PAS domain; Region: PAS_9; pfam13426 1230587001828 putative active site [active] 1230587001829 heme pocket [chemical binding]; other site 1230587001830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1230587001831 Histidine kinase; Region: HisKA_2; pfam07568 1230587001832 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 1230587001833 ATP binding site [chemical binding]; other site 1230587001834 Mg2+ binding site [ion binding]; other site 1230587001835 G-X-G motif; other site 1230587001836 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 1230587001837 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 1230587001838 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 1230587001839 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1230587001840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1230587001841 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1230587001842 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1230587001843 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 1230587001844 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587001845 DNA-binding site [nucleotide binding]; DNA binding site 1230587001846 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587001847 FCD domain; Region: FCD; pfam07729 1230587001848 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 1230587001849 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587001850 substrate binding pocket [chemical binding]; other site 1230587001851 membrane-bound complex binding site; other site 1230587001852 hinge residues; other site 1230587001853 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587001854 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587001855 Walker A/P-loop; other site 1230587001856 ATP binding site [chemical binding]; other site 1230587001857 Q-loop/lid; other site 1230587001858 ABC transporter signature motif; other site 1230587001859 Walker B; other site 1230587001860 D-loop; other site 1230587001861 H-loop/switch region; other site 1230587001862 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587001863 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001864 dimer interface [polypeptide binding]; other site 1230587001865 conserved gate region; other site 1230587001866 putative PBP binding loops; other site 1230587001867 ABC-ATPase subunit interface; other site 1230587001868 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587001869 dimer interface [polypeptide binding]; other site 1230587001870 conserved gate region; other site 1230587001871 putative PBP binding loops; other site 1230587001872 ABC-ATPase subunit interface; other site 1230587001873 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587001874 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1230587001875 inhibitor site; inhibition site 1230587001876 active site 1230587001877 dimer interface [polypeptide binding]; other site 1230587001878 catalytic residue [active] 1230587001879 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587001880 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587001881 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1230587001882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001883 NAD(P) binding site [chemical binding]; other site 1230587001884 active site 1230587001885 betaine aldehyde dehydrogenase; Region: PLN02467 1230587001886 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 1230587001887 NAD(P) binding site [chemical binding]; other site 1230587001888 catalytic residues [active] 1230587001889 catalytic residues [active] 1230587001890 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1230587001891 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1230587001892 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587001893 classical (c) SDRs; Region: SDR_c; cd05233 1230587001894 NAD(P) binding site [chemical binding]; other site 1230587001895 active site 1230587001896 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1230587001897 classical (c) SDRs; Region: SDR_c; cd05233 1230587001898 NAD(P) binding site [chemical binding]; other site 1230587001899 active site 1230587001900 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1230587001901 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1230587001902 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1230587001903 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1230587001904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001905 NAD(P) binding site [chemical binding]; other site 1230587001906 active site 1230587001907 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1230587001908 Uncharacterized conserved protein [Function unknown]; Region: COG4925 1230587001909 Uncharacterized conserved protein [Function unknown]; Region: COG4925 1230587001910 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1230587001911 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 1230587001912 putative substrate translocation pore; other site 1230587001913 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587001915 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 1230587001916 dimerization interface [polypeptide binding]; other site 1230587001917 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587001918 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 1230587001919 putative effector binding pocket; other site 1230587001920 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587001921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587001922 DNA-binding site [nucleotide binding]; DNA binding site 1230587001923 FCD domain; Region: FCD; pfam07729 1230587001924 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587001925 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587001926 NAD(P) binding site [chemical binding]; other site 1230587001927 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1230587001928 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1230587001929 NAD(P) binding site [chemical binding]; other site 1230587001930 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 1230587001931 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587001932 PYR/PP interface [polypeptide binding]; other site 1230587001933 dimer interface [polypeptide binding]; other site 1230587001934 TPP binding site [chemical binding]; other site 1230587001935 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587001936 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 1230587001937 TPP-binding site [chemical binding]; other site 1230587001938 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1230587001939 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587001940 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 1230587001941 TM-ABC transporter signature motif; other site 1230587001942 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 1230587001943 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1230587001944 TM-ABC transporter signature motif; other site 1230587001945 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587001946 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1230587001947 Walker A/P-loop; other site 1230587001948 ATP binding site [chemical binding]; other site 1230587001949 Q-loop/lid; other site 1230587001950 ABC transporter signature motif; other site 1230587001951 Walker B; other site 1230587001952 D-loop; other site 1230587001953 H-loop/switch region; other site 1230587001954 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1230587001955 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1230587001956 Walker A/P-loop; other site 1230587001957 ATP binding site [chemical binding]; other site 1230587001958 Q-loop/lid; other site 1230587001959 ABC transporter signature motif; other site 1230587001960 Walker B; other site 1230587001961 D-loop; other site 1230587001962 H-loop/switch region; other site 1230587001963 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587001964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587001965 NAD(P) binding site [chemical binding]; other site 1230587001966 active site 1230587001967 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1230587001968 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1230587001969 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1230587001970 shikimate binding site; other site 1230587001971 NAD(P) binding site [chemical binding]; other site 1230587001972 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1230587001973 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587001974 choline dehydrogenase; Validated; Region: PRK02106 1230587001975 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587001976 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 1230587001977 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1230587001978 formate dehydrogenase; Provisional; Region: PRK07574 1230587001979 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 1230587001980 dimerization interface [polypeptide binding]; other site 1230587001981 ligand binding site [chemical binding]; other site 1230587001982 NAD binding site [chemical binding]; other site 1230587001983 catalytic site [active] 1230587001984 RepB plasmid partitioning protein; Region: RepB; pfam07506 1230587001985 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587001986 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 1230587001987 active site 1230587001988 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1230587001989 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 1230587001990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587001991 catalytic residue [active] 1230587001992 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1230587001993 ornithine cyclodeaminase; Validated; Region: PRK06823 1230587001994 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587001995 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587001996 Walker A/P-loop; other site 1230587001997 ATP binding site [chemical binding]; other site 1230587001998 Q-loop/lid; other site 1230587001999 ABC transporter signature motif; other site 1230587002000 Walker B; other site 1230587002001 D-loop; other site 1230587002002 H-loop/switch region; other site 1230587002003 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587002004 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002005 dimer interface [polypeptide binding]; other site 1230587002006 conserved gate region; other site 1230587002007 putative PBP binding loops; other site 1230587002008 ABC-ATPase subunit interface; other site 1230587002009 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587002010 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002011 dimer interface [polypeptide binding]; other site 1230587002012 conserved gate region; other site 1230587002013 putative PBP binding loops; other site 1230587002014 ABC-ATPase subunit interface; other site 1230587002015 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 1230587002016 membrane-bound complex binding site; other site 1230587002017 hinge residues; other site 1230587002018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1230587002019 YheO-like PAS domain; Region: PAS_6; pfam08348 1230587002020 HTH domain; Region: HTH_22; pfam13309 1230587002021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587002022 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 1230587002023 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 1230587002024 dimerization interface [polypeptide binding]; other site 1230587002025 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 1230587002026 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1230587002027 Zn2+ binding site [ion binding]; other site 1230587002028 Mg2+ binding site [ion binding]; other site 1230587002029 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587002030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002031 dimer interface [polypeptide binding]; other site 1230587002032 conserved gate region; other site 1230587002033 putative PBP binding loops; other site 1230587002034 ABC-ATPase subunit interface; other site 1230587002035 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587002036 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002037 dimer interface [polypeptide binding]; other site 1230587002038 conserved gate region; other site 1230587002039 putative PBP binding loops; other site 1230587002040 ABC-ATPase subunit interface; other site 1230587002041 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587002042 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 1230587002043 substrate binding pocket [chemical binding]; other site 1230587002044 membrane-bound complex binding site; other site 1230587002045 hinge residues; other site 1230587002046 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1230587002047 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587002048 Walker A/P-loop; other site 1230587002049 ATP binding site [chemical binding]; other site 1230587002050 Q-loop/lid; other site 1230587002051 ABC transporter signature motif; other site 1230587002052 Walker B; other site 1230587002053 D-loop; other site 1230587002054 H-loop/switch region; other site 1230587002055 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1230587002056 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1230587002057 putative ligand binding site [chemical binding]; other site 1230587002058 NAD binding site [chemical binding]; other site 1230587002059 catalytic site [active] 1230587002060 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 1230587002061 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 1230587002062 putative NAD(P) binding site [chemical binding]; other site 1230587002063 catalytic Zn binding site [ion binding]; other site 1230587002064 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 1230587002065 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1230587002066 NADP binding site [chemical binding]; other site 1230587002067 homodimer interface [polypeptide binding]; other site 1230587002068 active site 1230587002069 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1230587002070 AAA domain; Region: AAA_33; pfam13671 1230587002071 ATP-binding site [chemical binding]; other site 1230587002072 Gluconate-6-phosphate binding site [chemical binding]; other site 1230587002073 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1230587002074 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1230587002075 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1230587002076 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587002077 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1230587002078 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587002079 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587002080 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587002081 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002082 dimer interface [polypeptide binding]; other site 1230587002083 conserved gate region; other site 1230587002084 putative PBP binding loops; other site 1230587002085 ABC-ATPase subunit interface; other site 1230587002086 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002087 dimer interface [polypeptide binding]; other site 1230587002088 conserved gate region; other site 1230587002089 putative PBP binding loops; other site 1230587002090 ABC-ATPase subunit interface; other site 1230587002091 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587002092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587002093 Walker A/P-loop; other site 1230587002094 ATP binding site [chemical binding]; other site 1230587002095 Q-loop/lid; other site 1230587002096 ABC transporter signature motif; other site 1230587002097 Walker B; other site 1230587002098 D-loop; other site 1230587002099 H-loop/switch region; other site 1230587002100 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 1230587002101 catalytic core [active] 1230587002102 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 1230587002103 S-adenosylmethionine binding site [chemical binding]; other site 1230587002104 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1230587002105 SnoaL-like domain; Region: SnoaL_3; pfam13474 1230587002106 PRC-barrel domain; Region: PRC; pfam05239 1230587002107 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1230587002108 putative active site [active] 1230587002109 homotetrameric interface [polypeptide binding]; other site 1230587002110 metal binding site [ion binding]; metal-binding site 1230587002111 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1230587002112 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587002113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002114 dimer interface [polypeptide binding]; other site 1230587002115 conserved gate region; other site 1230587002116 putative PBP binding loops; other site 1230587002117 ABC-ATPase subunit interface; other site 1230587002118 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1230587002119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002120 dimer interface [polypeptide binding]; other site 1230587002121 conserved gate region; other site 1230587002122 putative PBP binding loops; other site 1230587002123 ABC-ATPase subunit interface; other site 1230587002124 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587002125 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587002126 Walker A/P-loop; other site 1230587002127 ATP binding site [chemical binding]; other site 1230587002128 Q-loop/lid; other site 1230587002129 ABC transporter signature motif; other site 1230587002130 Walker B; other site 1230587002131 D-loop; other site 1230587002132 H-loop/switch region; other site 1230587002133 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587002134 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587002135 Walker A/P-loop; other site 1230587002136 ATP binding site [chemical binding]; other site 1230587002137 Q-loop/lid; other site 1230587002138 ABC transporter signature motif; other site 1230587002139 Walker B; other site 1230587002140 D-loop; other site 1230587002141 H-loop/switch region; other site 1230587002142 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587002143 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587002144 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 1230587002145 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1230587002146 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1230587002147 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 1230587002148 active site 1230587002149 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587002150 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587002151 Walker A/P-loop; other site 1230587002152 ATP binding site [chemical binding]; other site 1230587002153 Q-loop/lid; other site 1230587002154 ABC transporter signature motif; other site 1230587002155 Walker B; other site 1230587002156 D-loop; other site 1230587002157 H-loop/switch region; other site 1230587002158 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587002159 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587002160 Walker A/P-loop; other site 1230587002161 ATP binding site [chemical binding]; other site 1230587002162 Q-loop/lid; other site 1230587002163 ABC transporter signature motif; other site 1230587002164 Walker B; other site 1230587002165 D-loop; other site 1230587002166 H-loop/switch region; other site 1230587002167 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587002168 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587002169 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002170 dimer interface [polypeptide binding]; other site 1230587002171 conserved gate region; other site 1230587002172 putative PBP binding loops; other site 1230587002173 ABC-ATPase subunit interface; other site 1230587002174 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587002175 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002176 dimer interface [polypeptide binding]; other site 1230587002177 conserved gate region; other site 1230587002178 putative PBP binding loops; other site 1230587002179 ABC-ATPase subunit interface; other site 1230587002180 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587002181 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1230587002182 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 1230587002183 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 1230587002184 active site 1230587002185 cytosine deaminase; Provisional; Region: PRK05985 1230587002186 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1230587002187 active site 1230587002188 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 1230587002189 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 1230587002190 active site 1230587002191 allantoinase; Provisional; Region: PRK06189 1230587002192 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 1230587002193 active site 1230587002194 Uncharacterized conserved protein [Function unknown]; Region: COG5588 1230587002195 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587002196 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 1230587002197 active site 1230587002198 phosphorylation site [posttranslational modification] 1230587002199 intermolecular recognition site; other site 1230587002200 dimerization interface [polypeptide binding]; other site 1230587002201 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1230587002202 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1230587002203 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1230587002204 active site 1230587002205 DNA binding site [nucleotide binding] 1230587002206 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1230587002207 DNA binding site [nucleotide binding] 1230587002208 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1230587002209 nucleotide binding site [chemical binding]; other site 1230587002210 GXWXG protein; Region: GXWXG; pfam14231 1230587002211 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 1230587002212 Protein of unknown function (DUF768); Region: DUF768; pfam05589 1230587002213 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 1230587002214 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1230587002215 active site 1230587002216 DNA binding site [nucleotide binding] 1230587002217 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1230587002218 DNA binding site [nucleotide binding] 1230587002219 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 1230587002220 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1230587002221 heterodimer interface [polypeptide binding]; other site 1230587002222 DNA binding site [nucleotide binding] 1230587002223 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1230587002224 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 1230587002225 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1230587002226 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587002227 DNA-binding site [nucleotide binding]; DNA binding site 1230587002228 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587002229 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587002230 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 1230587002231 homotrimer interaction site [polypeptide binding]; other site 1230587002232 putative active site [active] 1230587002233 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587002234 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587002235 Walker A/P-loop; other site 1230587002236 ATP binding site [chemical binding]; other site 1230587002237 Q-loop/lid; other site 1230587002238 ABC transporter signature motif; other site 1230587002239 Walker B; other site 1230587002240 D-loop; other site 1230587002241 H-loop/switch region; other site 1230587002242 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587002243 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002244 dimer interface [polypeptide binding]; other site 1230587002245 conserved gate region; other site 1230587002246 putative PBP binding loops; other site 1230587002247 ABC-ATPase subunit interface; other site 1230587002248 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002249 dimer interface [polypeptide binding]; other site 1230587002250 conserved gate region; other site 1230587002251 putative PBP binding loops; other site 1230587002252 ABC-ATPase subunit interface; other site 1230587002253 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587002254 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 1230587002255 substrate binding pocket [chemical binding]; other site 1230587002256 membrane-bound complex binding site; other site 1230587002257 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1230587002258 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1230587002259 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1230587002260 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1230587002261 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1230587002262 aspartate aminotransferase; Provisional; Region: PRK05764 1230587002263 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 1230587002264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587002265 homodimer interface [polypeptide binding]; other site 1230587002266 catalytic residue [active] 1230587002267 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1230587002268 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587002269 putative active site [active] 1230587002270 catalytic residue [active] 1230587002271 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1230587002272 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587002273 NAD(P) binding site [chemical binding]; other site 1230587002274 catalytic residues [active] 1230587002275 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1230587002276 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1230587002277 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1230587002278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587002279 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 1230587002280 putative dimerization interface [polypeptide binding]; other site 1230587002281 Domain of unknown function (DUF4392); Region: DUF4392; pfam14336 1230587002282 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1230587002283 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1230587002284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1230587002285 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 1230587002286 homotrimer interaction site [polypeptide binding]; other site 1230587002287 putative active site [active] 1230587002288 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587002289 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587002290 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587002291 Integrase core domain; Region: rve; pfam00665 1230587002292 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587002293 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587002294 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587002295 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1230587002296 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1230587002297 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1230587002298 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1230587002299 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587002300 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587002301 Thioredoxin; Region: Thioredoxin_4; cl17273 1230587002302 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 1230587002303 Helix-turn-helix; Region: HTH_3; pfam01381 1230587002304 Domain of unknown function (DUF955); Region: DUF955; cl01076 1230587002305 formate dehydrogenase; Provisional; Region: PRK07574 1230587002306 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 1230587002307 dimerization interface [polypeptide binding]; other site 1230587002308 ligand binding site [chemical binding]; other site 1230587002309 NAD binding site [chemical binding]; other site 1230587002310 catalytic site [active] 1230587002311 RepB plasmid partitioning protein; Region: RepB; pfam07506 1230587002312 Domain of unknown function (DUF4206); Region: DUF4206; pfam13901 1230587002313 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 1230587002314 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 1230587002315 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1230587002316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587002317 DNA-binding site [nucleotide binding]; DNA binding site 1230587002318 UTRA domain; Region: UTRA; pfam07702 1230587002319 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1230587002320 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1230587002321 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1230587002322 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587002323 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587002324 hypothetical protein; Provisional; Region: PRK07475 1230587002325 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1230587002326 Flavoprotein; Region: Flavoprotein; pfam02441 1230587002327 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1230587002328 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1230587002329 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587002330 DNA-binding site [nucleotide binding]; DNA binding site 1230587002331 UTRA domain; Region: UTRA; pfam07702 1230587002332 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587002333 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1230587002334 NAD(P) binding site [chemical binding]; other site 1230587002335 catalytic residues [active] 1230587002336 thiamine pyrophosphate protein; Validated; Region: PRK08199 1230587002337 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587002338 PYR/PP interface [polypeptide binding]; other site 1230587002339 dimer interface [polypeptide binding]; other site 1230587002340 TPP binding site [chemical binding]; other site 1230587002341 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587002342 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 1230587002343 TPP-binding site [chemical binding]; other site 1230587002344 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1230587002345 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587002346 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587002347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587002348 Walker A/P-loop; other site 1230587002349 ATP binding site [chemical binding]; other site 1230587002350 Q-loop/lid; other site 1230587002351 ABC transporter signature motif; other site 1230587002352 Walker B; other site 1230587002353 D-loop; other site 1230587002354 H-loop/switch region; other site 1230587002355 TOBE domain; Region: TOBE; pfam03459 1230587002356 TOBE domain; Region: TOBE_2; pfam08402 1230587002357 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587002358 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002359 dimer interface [polypeptide binding]; other site 1230587002360 conserved gate region; other site 1230587002361 putative PBP binding loops; other site 1230587002362 ABC-ATPase subunit interface; other site 1230587002363 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587002364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002365 putative PBP binding loops; other site 1230587002366 ABC-ATPase subunit interface; other site 1230587002367 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 1230587002368 homotrimer interaction site [polypeptide binding]; other site 1230587002369 putative active site [active] 1230587002370 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 1230587002371 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587002372 substrate binding pocket [chemical binding]; other site 1230587002373 membrane-bound complex binding site; other site 1230587002374 hinge residues; other site 1230587002375 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587002376 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002377 dimer interface [polypeptide binding]; other site 1230587002378 conserved gate region; other site 1230587002379 putative PBP binding loops; other site 1230587002380 ABC-ATPase subunit interface; other site 1230587002381 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587002382 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587002383 Walker A/P-loop; other site 1230587002384 ATP binding site [chemical binding]; other site 1230587002385 Q-loop/lid; other site 1230587002386 ABC transporter signature motif; other site 1230587002387 Walker B; other site 1230587002388 D-loop; other site 1230587002389 H-loop/switch region; other site 1230587002390 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587002391 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587002392 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587002393 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587002394 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587002395 DNA-binding site [nucleotide binding]; DNA binding site 1230587002396 FCD domain; Region: FCD; pfam07729 1230587002397 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1230587002398 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 1230587002399 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1230587002400 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 1230587002401 substrate binding pocket [chemical binding]; other site 1230587002402 membrane-bound complex binding site; other site 1230587002403 hinge residues; other site 1230587002404 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587002405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002406 dimer interface [polypeptide binding]; other site 1230587002407 conserved gate region; other site 1230587002408 putative PBP binding loops; other site 1230587002409 ABC-ATPase subunit interface; other site 1230587002410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002411 dimer interface [polypeptide binding]; other site 1230587002412 conserved gate region; other site 1230587002413 putative PBP binding loops; other site 1230587002414 ABC-ATPase subunit interface; other site 1230587002415 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587002416 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587002417 Walker A/P-loop; other site 1230587002418 ATP binding site [chemical binding]; other site 1230587002419 Q-loop/lid; other site 1230587002420 ABC transporter signature motif; other site 1230587002421 Walker B; other site 1230587002422 D-loop; other site 1230587002423 H-loop/switch region; other site 1230587002424 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1230587002425 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 1230587002426 tetramer interface [polypeptide binding]; other site 1230587002427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587002428 catalytic residue [active] 1230587002429 aspartate aminotransferase; Provisional; Region: PRK06207 1230587002430 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 1230587002431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587002432 homodimer interface [polypeptide binding]; other site 1230587002433 catalytic residue [active] 1230587002434 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 1230587002435 homotrimer interaction site [polypeptide binding]; other site 1230587002436 putative active site [active] 1230587002437 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 1230587002438 TPP-binding site [chemical binding]; other site 1230587002439 dimer interface [polypeptide binding]; other site 1230587002440 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1230587002441 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 1230587002442 PYR/PP interface [polypeptide binding]; other site 1230587002443 dimer interface [polypeptide binding]; other site 1230587002444 TPP binding site [chemical binding]; other site 1230587002445 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587002446 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1230587002447 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 1230587002448 inhibitor-cofactor binding pocket; inhibition site 1230587002449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587002450 catalytic residue [active] 1230587002451 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587002452 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587002453 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587002454 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587002455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002456 dimer interface [polypeptide binding]; other site 1230587002457 conserved gate region; other site 1230587002458 putative PBP binding loops; other site 1230587002459 ABC-ATPase subunit interface; other site 1230587002460 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587002461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002462 dimer interface [polypeptide binding]; other site 1230587002463 conserved gate region; other site 1230587002464 putative PBP binding loops; other site 1230587002465 ABC-ATPase subunit interface; other site 1230587002466 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587002467 classical (c) SDRs; Region: SDR_c; cd05233 1230587002468 NAD(P) binding site [chemical binding]; other site 1230587002469 active site 1230587002470 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587002471 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587002472 DNA-binding site [nucleotide binding]; DNA binding site 1230587002473 FCD domain; Region: FCD; pfam07729 1230587002474 aminotransferase; Provisional; Region: PRK06105 1230587002475 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 1230587002476 inhibitor-cofactor binding pocket; inhibition site 1230587002477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587002478 catalytic residue [active] 1230587002479 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1230587002480 Amidase; Region: Amidase; pfam01425 1230587002481 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587002482 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587002483 Walker A/P-loop; other site 1230587002484 ATP binding site [chemical binding]; other site 1230587002485 Q-loop/lid; other site 1230587002486 ABC transporter signature motif; other site 1230587002487 Walker B; other site 1230587002488 D-loop; other site 1230587002489 H-loop/switch region; other site 1230587002490 TOBE domain; Region: TOBE_2; pfam08402 1230587002491 succinic semialdehyde dehydrogenase; Region: PLN02278 1230587002492 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1230587002493 tetramerization interface [polypeptide binding]; other site 1230587002494 NAD(P) binding site [chemical binding]; other site 1230587002495 catalytic residues [active] 1230587002496 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1230587002497 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1230587002498 active site 1230587002499 Zn binding site [ion binding]; other site 1230587002500 TMAO reductase system periplasmic protein TorT; Region: TMAO_TorT; TIGR02955 1230587002501 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587002502 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587002503 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587002504 Walker A/P-loop; other site 1230587002505 ATP binding site [chemical binding]; other site 1230587002506 Q-loop/lid; other site 1230587002507 ABC transporter signature motif; other site 1230587002508 Walker B; other site 1230587002509 D-loop; other site 1230587002510 H-loop/switch region; other site 1230587002511 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587002512 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 1230587002513 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587002514 TM-ABC transporter signature motif; other site 1230587002515 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 1230587002516 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587002517 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 1230587002518 TM-ABC transporter signature motif; other site 1230587002519 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1230587002520 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1230587002521 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1230587002522 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1230587002523 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1230587002524 short chain dehydrogenase; Provisional; Region: PRK06500 1230587002525 classical (c) SDRs; Region: SDR_c; cd05233 1230587002526 NAD(P) binding site [chemical binding]; other site 1230587002527 active site 1230587002528 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587002529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587002530 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1230587002531 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1230587002532 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 1230587002533 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587002534 active site 1230587002535 catalytic tetrad [active] 1230587002536 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1230587002537 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587002538 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1230587002539 Coenzyme A binding pocket [chemical binding]; other site 1230587002540 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1230587002541 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 1230587002542 dimerization interface [polypeptide binding]; other site 1230587002543 ligand binding site [chemical binding]; other site 1230587002544 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 1230587002545 dimerization interface [polypeptide binding]; other site 1230587002546 PAS fold; Region: PAS_7; pfam12860 1230587002547 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587002548 cyclase homology domain; Region: CHD; cd07302 1230587002549 nucleotidyl binding site; other site 1230587002550 metal binding site [ion binding]; metal-binding site 1230587002551 dimer interface [polypeptide binding]; other site 1230587002552 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1230587002553 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1230587002554 Walker A/P-loop; other site 1230587002555 ATP binding site [chemical binding]; other site 1230587002556 Q-loop/lid; other site 1230587002557 ABC transporter signature motif; other site 1230587002558 Walker B; other site 1230587002559 D-loop; other site 1230587002560 H-loop/switch region; other site 1230587002561 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1230587002562 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002563 putative PBP binding loops; other site 1230587002564 dimer interface [polypeptide binding]; other site 1230587002565 ABC-ATPase subunit interface; other site 1230587002566 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1230587002567 NMT1-like family; Region: NMT1_2; pfam13379 1230587002568 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1230587002569 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; cl00290 1230587002570 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 1230587002571 S-adenosylmethionine binding site [chemical binding]; other site 1230587002572 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587002573 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1230587002574 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1230587002575 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_22; cd08359 1230587002576 putative dimer interface [polypeptide binding]; other site 1230587002577 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587002578 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 1230587002579 C-terminal domain interface [polypeptide binding]; other site 1230587002580 GSH binding site (G-site) [chemical binding]; other site 1230587002581 dimer interface [polypeptide binding]; other site 1230587002582 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1230587002583 dimer interface [polypeptide binding]; other site 1230587002584 substrate binding pocket (H-site) [chemical binding]; other site 1230587002585 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1230587002586 conserved cys residue [active] 1230587002587 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587002588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587002589 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1230587002590 hydrophobic ligand binding site; other site 1230587002591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1230587002592 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587002593 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 1230587002594 TPR motif; other site 1230587002595 binding surface 1230587002596 TPR repeat; Region: TPR_11; pfam13414 1230587002597 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 1230587002598 binding surface 1230587002599 TPR motif; other site 1230587002600 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 1230587002601 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1230587002602 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1230587002603 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 1230587002604 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1230587002605 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1230587002606 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1230587002607 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1230587002608 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 1230587002609 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1230587002610 Low-spin heme binding site [chemical binding]; other site 1230587002611 Putative water exit pathway; other site 1230587002612 Binuclear center (active site) [active] 1230587002613 Putative proton exit pathway; other site 1230587002614 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1230587002615 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1230587002616 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 1230587002617 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1230587002618 Cytochrome c; Region: Cytochrom_C; pfam00034 1230587002619 Cytochrome c; Region: Cytochrom_C; pfam00034 1230587002620 FixH; Region: FixH; pfam05751 1230587002621 Predicted integral membrane protein [Function unknown]; Region: COG5473 1230587002622 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1230587002623 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 1230587002624 metal-binding site [ion binding] 1230587002625 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1230587002626 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 1230587002627 motif II; other site 1230587002628 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 1230587002629 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1230587002630 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1230587002631 ligand binding site [chemical binding]; other site 1230587002632 Predicted periplasmic protein [Function unknown]; Region: COG3900 1230587002633 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 1230587002634 amphipathic channel; other site 1230587002635 Asn-Pro-Ala signature motifs; other site 1230587002636 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 1230587002637 amphipathic channel; other site 1230587002638 Asn-Pro-Ala signature motifs; other site 1230587002639 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1230587002640 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1230587002641 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1230587002642 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 1230587002643 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1230587002644 phosphate acetyltransferase; Provisional; Region: PRK11890 1230587002645 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1230587002646 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1230587002647 propionate/acetate kinase; Provisional; Region: PRK12379 1230587002648 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 1230587002649 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1230587002650 NAD binding site [chemical binding]; other site 1230587002651 homotetramer interface [polypeptide binding]; other site 1230587002652 homodimer interface [polypeptide binding]; other site 1230587002653 substrate binding site [chemical binding]; other site 1230587002654 active site 1230587002655 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1230587002656 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1230587002657 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1230587002658 FOG: CBS domain [General function prediction only]; Region: COG0517 1230587002659 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 1230587002660 BON domain; Region: BON; pfam04972 1230587002661 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1230587002662 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1230587002663 NAD binding site [chemical binding]; other site 1230587002664 substrate binding site [chemical binding]; other site 1230587002665 catalytic Zn binding site [ion binding]; other site 1230587002666 tetramer interface [polypeptide binding]; other site 1230587002667 structural Zn binding site [ion binding]; other site 1230587002668 putative phosphoketolase; Provisional; Region: PRK05261 1230587002669 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 1230587002670 TPP-binding site; other site 1230587002671 XFP C-terminal domain; Region: XFP_C; pfam09363 1230587002672 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 1230587002673 catalytic core [active] 1230587002674 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1230587002675 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1230587002676 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1230587002677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1230587002678 Putative glucoamylase; Region: Glycoamylase; pfam10091 1230587002679 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1230587002680 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1230587002681 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 1230587002682 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587002683 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1230587002684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587002685 active site 1230587002686 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587002687 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587002688 NAD(P) binding site [chemical binding]; other site 1230587002689 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587002690 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587002691 SnoaL-like domain; Region: SnoaL_4; pfam13577 1230587002692 Cupin; Region: Cupin_6; pfam12852 1230587002693 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587002694 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587002695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587002696 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 1230587002697 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587002698 active site 1230587002699 phosphorylation site [posttranslational modification] 1230587002700 intermolecular recognition site; other site 1230587002701 dimerization interface [polypeptide binding]; other site 1230587002702 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1230587002703 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 1230587002704 active site 1230587002705 phosphorylation site [posttranslational modification] 1230587002706 intermolecular recognition site; other site 1230587002707 dimerization interface [polypeptide binding]; other site 1230587002708 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 1230587002709 DNA binding residues [nucleotide binding] 1230587002710 dimerization interface [polypeptide binding]; other site 1230587002711 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 1230587002712 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587002713 putative active site [active] 1230587002714 heme pocket [chemical binding]; other site 1230587002715 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 1230587002716 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587002717 putative active site [active] 1230587002718 heme pocket [chemical binding]; other site 1230587002719 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 1230587002720 putative active site [active] 1230587002721 heme pocket [chemical binding]; other site 1230587002722 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 1230587002723 ATP binding site [chemical binding]; other site 1230587002724 G-X-G motif; other site 1230587002725 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587002726 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587002727 Tubulin like; Region: Tubulin_2; pfam13809 1230587002728 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1230587002729 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1230587002730 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1230587002731 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1230587002732 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 1230587002733 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587002734 catalytic residue [active] 1230587002735 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1230587002736 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587002737 putative NAD(P) binding site [chemical binding]; other site 1230587002738 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587002739 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 1230587002740 dimerization interface [polypeptide binding]; other site 1230587002741 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1230587002742 cyclase homology domain; Region: CHD; cd07302 1230587002743 nucleotidyl binding site; other site 1230587002744 metal binding site [ion binding]; metal-binding site 1230587002745 dimer interface [polypeptide binding]; other site 1230587002746 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1230587002747 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1230587002748 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1230587002749 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1230587002750 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; cd00569 1230587002751 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587002752 DNA-binding interface [nucleotide binding]; DNA binding site 1230587002753 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 1230587002754 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 1230587002755 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1230587002756 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 1230587002757 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 1230587002758 ligand binding site [chemical binding]; other site 1230587002759 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 1230587002760 putative switch regulator; other site 1230587002761 non-specific DNA interactions [nucleotide binding]; other site 1230587002762 DNA binding site [nucleotide binding] 1230587002763 sequence specific DNA binding site [nucleotide binding]; other site 1230587002764 putative cAMP binding site [chemical binding]; other site 1230587002765 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587002766 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1230587002767 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1230587002768 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587002769 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1230587002770 CCC1-related family of proteins; Region: CCC1_like; cl00278 1230587002771 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1230587002772 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1230587002773 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1230587002774 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 1230587002775 substrate binding pocket [chemical binding]; other site 1230587002776 membrane-bound complex binding site; other site 1230587002777 hinge residues; other site 1230587002778 putrescine transporter; Provisional; Region: potE; PRK10655 1230587002779 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1230587002780 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1230587002781 ornithine decarboxylase; Provisional; Region: PRK13578 1230587002782 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 1230587002783 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587002784 catalytic residue [active] 1230587002785 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1230587002786 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1230587002787 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1230587002788 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 1230587002789 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587002790 catalytic residue [active] 1230587002791 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1230587002792 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: COG3965 1230587002793 arginine:agmatin antiporter; Provisional; Region: PRK10644 1230587002794 arginine:agmatin antiporter; Provisional; Region: PRK10644 1230587002795 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1230587002796 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1230587002797 arginine deiminase; Provisional; Region: PRK01388 1230587002798 ornithine carbamoyltransferase; Validated; Region: PRK02102 1230587002799 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1230587002800 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1230587002801 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1230587002802 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1230587002803 putative substrate binding site [chemical binding]; other site 1230587002804 nucleotide binding site [chemical binding]; other site 1230587002805 nucleotide binding site [chemical binding]; other site 1230587002806 homodimer interface [polypeptide binding]; other site 1230587002807 Ion channel; Region: Ion_trans_2; pfam07885 1230587002808 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1230587002809 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1230587002810 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587002811 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1230587002812 inhibitor site; inhibition site 1230587002813 active site 1230587002814 dimer interface [polypeptide binding]; other site 1230587002815 catalytic residue [active] 1230587002816 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 1230587002817 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1230587002818 active site pocket [active] 1230587002819 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587002820 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587002821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002822 dimer interface [polypeptide binding]; other site 1230587002823 conserved gate region; other site 1230587002824 putative PBP binding loops; other site 1230587002825 ABC-ATPase subunit interface; other site 1230587002826 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587002827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002828 dimer interface [polypeptide binding]; other site 1230587002829 conserved gate region; other site 1230587002830 putative PBP binding loops; other site 1230587002831 ABC-ATPase subunit interface; other site 1230587002832 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587002833 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587002834 Walker A/P-loop; other site 1230587002835 ATP binding site [chemical binding]; other site 1230587002836 Q-loop/lid; other site 1230587002837 ABC transporter signature motif; other site 1230587002838 Walker B; other site 1230587002839 D-loop; other site 1230587002840 H-loop/switch region; other site 1230587002841 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587002842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587002843 NAD(P) binding site [chemical binding]; other site 1230587002844 active site 1230587002845 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587002846 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1230587002847 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587002848 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1230587002849 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1230587002850 classical (c) SDRs; Region: SDR_c; cd05233 1230587002851 NAD(P) binding site [chemical binding]; other site 1230587002852 active site 1230587002853 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_10; cd07251 1230587002854 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587002855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587002856 Coenzyme A binding pocket [chemical binding]; other site 1230587002857 Uncharacterized conserved protein [Function unknown]; Region: COG5556 1230587002858 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1230587002859 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 1230587002860 DNA-binding site [nucleotide binding]; DNA binding site 1230587002861 RNA-binding motif; other site 1230587002862 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1230587002863 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 1230587002864 ring oligomerisation interface [polypeptide binding]; other site 1230587002865 ATP/Mg binding site [chemical binding]; other site 1230587002866 stacking interactions; other site 1230587002867 hinge regions; other site 1230587002868 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 1230587002869 roof hairpin; other site 1230587002870 oligomerisation interface [polypeptide binding]; other site 1230587002871 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 1230587002872 mobile loop; other site 1230587002873 Predicted transcriptional regulator [Transcription]; Region: COG4957 1230587002874 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1230587002875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587002876 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 1230587002877 dimerization interface [polypeptide binding]; other site 1230587002878 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1230587002879 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 1230587002880 [2Fe-2S] cluster binding site [ion binding]; other site 1230587002881 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 1230587002882 putative alpha subunit interface [polypeptide binding]; other site 1230587002883 putative active site [active] 1230587002884 putative substrate binding site [chemical binding]; other site 1230587002885 Fe binding site [ion binding]; other site 1230587002886 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1230587002887 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 1230587002888 FAD binding pocket [chemical binding]; other site 1230587002889 FAD binding motif [chemical binding]; other site 1230587002890 phosphate binding motif [ion binding]; other site 1230587002891 beta-alpha-beta structure motif; other site 1230587002892 NAD binding pocket [chemical binding]; other site 1230587002893 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 1230587002894 catalytic loop [active] 1230587002895 iron binding site [ion binding]; other site 1230587002896 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1230587002897 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587002898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587002899 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 1230587002900 putative substrate binding pocket [chemical binding]; other site 1230587002901 putative dimerization interface [polypeptide binding]; other site 1230587002902 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1230587002903 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 1230587002904 dimerization interface [polypeptide binding]; other site 1230587002905 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 1230587002906 DNA binding residues [nucleotide binding] 1230587002907 dimerization interface [polypeptide binding]; other site 1230587002908 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1230587002909 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 1230587002910 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 1230587002911 ligand binding site [chemical binding]; other site 1230587002912 flexible hinge region; other site 1230587002913 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 1230587002914 putative switch regulator; other site 1230587002915 non-specific DNA interactions [nucleotide binding]; other site 1230587002916 DNA binding site [nucleotide binding] 1230587002917 sequence specific DNA binding site [nucleotide binding]; other site 1230587002918 putative cAMP binding site [chemical binding]; other site 1230587002919 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 1230587002920 Low-spin heme binding site [chemical binding]; other site 1230587002921 Putative water exit pathway; other site 1230587002922 Binuclear center (active site) [active] 1230587002923 Putative proton exit pathway; other site 1230587002924 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1230587002925 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1230587002926 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 1230587002927 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1230587002928 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1230587002929 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1230587002930 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1230587002931 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1230587002932 maltose O-acetyltransferase; Provisional; Region: PRK10092 1230587002933 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1230587002934 active site 1230587002935 substrate binding site [chemical binding]; other site 1230587002936 trimer interface [polypeptide binding]; other site 1230587002937 CoA binding site [chemical binding]; other site 1230587002938 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1230587002939 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 1230587002940 S-adenosylmethionine binding site [chemical binding]; other site 1230587002941 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587002942 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587002943 DNA-binding site [nucleotide binding]; DNA binding site 1230587002944 FCD domain; Region: FCD; pfam07729 1230587002945 Amino acid synthesis; Region: AA_synth; pfam06684 1230587002946 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587002947 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1230587002948 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1230587002949 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1230587002950 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587002951 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1230587002952 NAD(P) binding site [chemical binding]; other site 1230587002953 catalytic residues [active] 1230587002954 NIPSNAP; Region: NIPSNAP; pfam07978 1230587002955 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587002956 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587002957 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 1230587002958 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587002959 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587002960 dimer interface [polypeptide binding]; other site 1230587002961 conserved gate region; other site 1230587002962 putative PBP binding loops; other site 1230587002963 ABC-ATPase subunit interface; other site 1230587002964 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587002965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587002966 Walker A/P-loop; other site 1230587002967 ATP binding site [chemical binding]; other site 1230587002968 Q-loop/lid; other site 1230587002969 ABC transporter signature motif; other site 1230587002970 Walker B; other site 1230587002971 D-loop; other site 1230587002972 H-loop/switch region; other site 1230587002973 TOBE domain; Region: TOBE_2; pfam08402 1230587002974 succinic semialdehyde dehydrogenase; Region: PLN02278 1230587002975 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1230587002976 tetramerization interface [polypeptide binding]; other site 1230587002977 NAD(P) binding site [chemical binding]; other site 1230587002978 catalytic residues [active] 1230587002979 Transposase; Region: HTH_Tnp_1; cl17663 1230587002980 Nitrogen fixation protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NifU; COG5554 1230587002981 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 1230587002982 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 1230587002983 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 1230587002984 FeS/SAM binding site; other site 1230587002985 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 1230587002986 Nif-specific regulatory protein; Region: nifA; TIGR01817 1230587002987 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1230587002988 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 1230587002989 Walker A motif; other site 1230587002990 ATP binding site [chemical binding]; other site 1230587002991 Walker B motif; other site 1230587002992 arginine finger; other site 1230587002993 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1230587002994 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1230587002995 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1230587002996 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587002997 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1230587002998 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 1230587002999 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1230587003000 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 1230587003001 Ligand binding site [chemical binding]; other site 1230587003002 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1230587003003 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1230587003004 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 1230587003005 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 1230587003006 Nucleotide-binding sites [chemical binding]; other site 1230587003007 Walker A motif; other site 1230587003008 Switch I region of nucleotide binding site; other site 1230587003009 Fe4S4 binding sites [ion binding]; other site 1230587003010 Switch II region of nucleotide binding site; other site 1230587003011 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 1230587003012 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 1230587003013 MoFe protein alpha/beta subunit interactions; other site 1230587003014 Alpha subunit P cluster binding residues; other site 1230587003015 FeMoco binding residues [chemical binding]; other site 1230587003016 MoFe protein alpha subunit/Fe protein contacts; other site 1230587003017 MoFe protein dimer/ dimer interactions; other site 1230587003018 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 1230587003019 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 1230587003020 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 1230587003021 MoFe protein beta/alpha subunit interactions; other site 1230587003022 Beta subunit P cluster binding residues; other site 1230587003023 MoFe protein beta subunit/Fe protein contacts; other site 1230587003024 MoFe protein dimer/ dimer interactions; other site 1230587003025 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 1230587003026 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 1230587003027 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 1230587003028 Rop-like; Region: Rop-like; cl02247 1230587003029 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 1230587003030 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1230587003031 Exopolysaccharide production repressor; Region: SyrA; pfam11089 1230587003032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587003033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587003034 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 1230587003035 putative substrate binding pocket [chemical binding]; other site 1230587003036 putative dimerization interface [polypeptide binding]; other site 1230587003037 Transposase; Region: HTH_Tnp_1; pfam01527 1230587003038 Integrase core domain; Region: rve; pfam00665 1230587003039 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 1230587003040 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587003041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587003042 The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold; Region: PBP2_SyrM; cd08467 1230587003043 putative substrate binding pocket [chemical binding]; other site 1230587003044 putative dimerization interface [polypeptide binding]; other site 1230587003045 Transposase; Region: HTH_Tnp_1; pfam01527 1230587003046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1230587003047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587003048 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587003049 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587003050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587003051 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587003052 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587003053 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587003054 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1230587003055 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 1230587003056 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1230587003057 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1230587003058 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 1230587003059 dimer interface [polypeptide binding]; other site 1230587003060 active site 1230587003061 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1230587003062 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1230587003063 NAD(P) binding site [chemical binding]; other site 1230587003064 homotetramer interface [polypeptide binding]; other site 1230587003065 homodimer interface [polypeptide binding]; other site 1230587003066 active site 1230587003067 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1230587003068 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 1230587003069 Active Sites [active] 1230587003070 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1230587003071 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1230587003072 CysD dimerization site [polypeptide binding]; other site 1230587003073 G1 box; other site 1230587003074 putative GEF interaction site [polypeptide binding]; other site 1230587003075 GTP/Mg2+ binding site [chemical binding]; other site 1230587003076 Switch I region; other site 1230587003077 G2 box; other site 1230587003078 G3 box; other site 1230587003079 Switch II region; other site 1230587003080 G4 box; other site 1230587003081 G5 box; other site 1230587003082 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 1230587003083 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 1230587003084 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 1230587003085 ligand-binding site [chemical binding]; other site 1230587003086 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587003087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587003088 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587003089 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1230587003090 ABC-2 type transporter, NodJ family; Region: nodJ; TIGR01291 1230587003091 nodulation factor exporter subunit NodI; Provisional; Region: PRK13536 1230587003092 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1230587003093 Walker A/P-loop; other site 1230587003094 ATP binding site [chemical binding]; other site 1230587003095 Q-loop/lid; other site 1230587003096 ABC transporter signature motif; other site 1230587003097 Walker B; other site 1230587003098 D-loop; other site 1230587003099 H-loop/switch region; other site 1230587003100 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 1230587003101 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1230587003102 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1230587003103 DXD motif; other site 1230587003104 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1230587003105 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1230587003106 Nodulation protein A (NodA); Region: NodA; pfam02474 1230587003107 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587003108 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587003109 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 1230587003110 putative substrate binding pocket [chemical binding]; other site 1230587003111 putative dimerization interface [polypeptide binding]; other site 1230587003112 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 1230587003113 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1230587003114 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 1230587003115 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 1230587003116 active site 1 [active] 1230587003117 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1230587003118 Protein export membrane protein; Region: SecD_SecF; cl14618 1230587003119 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1230587003120 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587003121 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1230587003122 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 1230587003123 glutaminase active site [active] 1230587003124 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 1230587003125 dimer interface [polypeptide binding]; other site 1230587003126 active site 1230587003127 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 1230587003128 dimer interface [polypeptide binding]; other site 1230587003129 active site 1230587003130 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1230587003131 Y-family of DNA polymerases; Region: PolY; cl12025 1230587003132 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1230587003133 Y-family of DNA polymerases; Region: PolY; cl12025 1230587003134 active site 1230587003135 Y-family of DNA polymerases; Region: PolY; cl12025 1230587003136 DNA binding site [nucleotide binding] 1230587003137 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1230587003138 DNA Polymerase Y-family; Region: PolY_like; cd03468 1230587003139 active site 1230587003140 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1230587003141 DNA binding site [nucleotide binding] 1230587003142 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1230587003143 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1230587003144 putative active site [active] 1230587003145 putative PHP Thumb interface [polypeptide binding]; other site 1230587003146 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 1230587003147 generic binding surface I; other site 1230587003148 generic binding surface II; other site 1230587003149 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1230587003150 Antirestriction protein; Region: Antirestrict; pfam03230 1230587003151 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 1230587003152 Helicase_C-like; Region: Helicase_C_4; pfam13871 1230587003153 Toprim domain; Region: Toprim_3; pfam13362 1230587003154 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 1230587003155 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1230587003156 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1230587003157 Uncharacterized conserved protein [Function unknown]; Region: COG5489 1230587003158 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 1230587003159 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 1230587003160 Walker A motif; other site 1230587003161 ATP binding site [chemical binding]; other site 1230587003162 Walker B motif; other site 1230587003163 Conjugal transfer protein TraD; Region: TraD; pfam06412 1230587003164 TraC-like protein; Region: TraC; pfam07820 1230587003165 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 1230587003166 MobA/MobL family; Region: MobA_MobL; pfam03389 1230587003167 AAA domain; Region: AAA_30; pfam13604 1230587003168 Family description; Region: UvrD_C_2; pfam13538 1230587003169 Dtr system oriT relaxase; Provisional; Region: PRK13826 1230587003170 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1230587003171 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1230587003172 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1230587003173 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587003174 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1230587003175 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1230587003176 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587003177 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 1230587003178 dimer interface [polypeptide binding]; other site 1230587003179 phosphorylation site [posttranslational modification] 1230587003180 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 1230587003181 ATP binding site [chemical binding]; other site 1230587003182 Mg2+ binding site [ion binding]; other site 1230587003183 G-X-G motif; other site 1230587003184 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1230587003185 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 1230587003186 active site 1230587003187 phosphorylation site [posttranslational modification] 1230587003188 intermolecular recognition site; other site 1230587003189 dimerization interface [polypeptide binding]; other site 1230587003190 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 1230587003191 DNA binding residues [nucleotide binding] 1230587003192 dimerization interface [polypeptide binding]; other site 1230587003193 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1230587003194 Sulfatase; Region: Sulfatase; pfam00884 1230587003195 Sulfatase; Region: Sulfatase; cl17466 1230587003196 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1230587003197 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1230587003198 metal binding site [ion binding]; metal-binding site 1230587003199 dimer interface [polypeptide binding]; other site 1230587003200 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1230587003201 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 1230587003202 putative active site [active] 1230587003203 putative metal binding site [ion binding]; other site 1230587003204 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1230587003205 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587003206 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587003207 Walker A/P-loop; other site 1230587003208 ATP binding site [chemical binding]; other site 1230587003209 Q-loop/lid; other site 1230587003210 ABC transporter signature motif; other site 1230587003211 Walker B; other site 1230587003212 D-loop; other site 1230587003213 H-loop/switch region; other site 1230587003214 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587003215 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587003216 Walker A/P-loop; other site 1230587003217 ATP binding site [chemical binding]; other site 1230587003218 Q-loop/lid; other site 1230587003219 ABC transporter signature motif; other site 1230587003220 Walker B; other site 1230587003221 D-loop; other site 1230587003222 H-loop/switch region; other site 1230587003223 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587003224 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587003225 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003226 dimer interface [polypeptide binding]; other site 1230587003227 conserved gate region; other site 1230587003228 putative PBP binding loops; other site 1230587003229 ABC-ATPase subunit interface; other site 1230587003230 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587003231 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003232 dimer interface [polypeptide binding]; other site 1230587003233 conserved gate region; other site 1230587003234 putative PBP binding loops; other site 1230587003235 ABC-ATPase subunit interface; other site 1230587003236 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587003237 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1230587003238 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1230587003239 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587003240 Coenzyme A binding pocket [chemical binding]; other site 1230587003241 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1230587003242 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 1230587003243 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1230587003244 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 1230587003245 DNA binding residues [nucleotide binding] 1230587003246 dimerization interface [polypeptide binding]; other site 1230587003247 Autoinducer synthetase; Region: Autoind_synth; cl17404 1230587003248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587003249 transcriptional regulator TraR; Provisional; Region: PRK13870 1230587003250 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1230587003251 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 1230587003252 DNA binding residues [nucleotide binding] 1230587003253 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587003254 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587003255 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587003256 Integrase core domain; Region: rve; pfam00665 1230587003257 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1230587003258 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; cd00569 1230587003259 DNA-binding interface [nucleotide binding]; DNA binding site 1230587003260 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587003261 Integrase core domain; Region: rve; pfam00665 1230587003262 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587003263 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587003264 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587003265 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1230587003266 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1230587003267 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 1230587003268 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1230587003269 oligomeric interface; other site 1230587003270 putative active site [active] 1230587003271 homodimer interface [polypeptide binding]; other site 1230587003272 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1230587003273 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 1230587003274 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587003275 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 1230587003276 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587003277 active site 1230587003278 catalytic tetrad [active] 1230587003279 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1230587003280 active site 1 [active] 1230587003281 dimer interface [polypeptide binding]; other site 1230587003282 hexamer interface [polypeptide binding]; other site 1230587003283 active site 2 [active] 1230587003284 short chain dehydrogenase; Provisional; Region: PRK12937 1230587003285 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1230587003286 NADP binding site [chemical binding]; other site 1230587003287 homodimer interface [polypeptide binding]; other site 1230587003288 active site 1230587003289 substrate binding site [chemical binding]; other site 1230587003290 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587003291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587003292 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1230587003293 putative effector binding pocket; other site 1230587003294 putative dimerization interface [polypeptide binding]; other site 1230587003295 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587003296 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587003297 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587003298 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1230587003299 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1230587003300 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1230587003301 diiron binding motif [ion binding]; other site 1230587003302 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1230587003303 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1230587003304 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1230587003305 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1230587003306 nitrous-oxide reductase; Validated; Region: PRK02888 1230587003307 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1230587003308 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1230587003309 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1230587003310 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1230587003311 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1230587003312 Walker A/P-loop; other site 1230587003313 ATP binding site [chemical binding]; other site 1230587003314 Q-loop/lid; other site 1230587003315 ABC transporter signature motif; other site 1230587003316 Walker B; other site 1230587003317 D-loop; other site 1230587003318 H-loop/switch region; other site 1230587003319 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1230587003320 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 1230587003321 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1230587003322 ApbE family; Region: ApbE; pfam02424 1230587003323 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1230587003324 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1230587003325 heme-binding site [chemical binding]; other site 1230587003326 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1230587003327 FAD binding pocket [chemical binding]; other site 1230587003328 FAD binding motif [chemical binding]; other site 1230587003329 phosphate binding motif [ion binding]; other site 1230587003330 beta-alpha-beta structure motif; other site 1230587003331 NAD binding pocket [chemical binding]; other site 1230587003332 Heme binding pocket [chemical binding]; other site 1230587003333 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 1230587003334 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 1230587003335 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1230587003336 Hemerythrin-like domain; Region: Hr-like; cd12108 1230587003337 Fe binding site [ion binding]; other site 1230587003338 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 1230587003339 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1230587003340 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1230587003341 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1230587003342 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 1230587003343 ligand binding site [chemical binding]; other site 1230587003344 flexible hinge region; other site 1230587003345 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1230587003346 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 1230587003347 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1230587003348 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 1230587003349 metal-binding site [ion binding] 1230587003350 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1230587003351 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1230587003352 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 1230587003353 FixH; Region: FixH; pfam05751 1230587003354 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1230587003355 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1230587003356 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1230587003357 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1230587003358 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1230587003359 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1230587003360 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 1230587003361 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1230587003362 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1230587003363 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 1230587003364 Low-spin heme binding site [chemical binding]; other site 1230587003365 Putative water exit pathway; other site 1230587003366 Binuclear center (active site) [active] 1230587003367 Putative proton exit pathway; other site 1230587003368 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1230587003369 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 1230587003370 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 1230587003371 ligand binding site [chemical binding]; other site 1230587003372 flexible hinge region; other site 1230587003373 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 1230587003374 putative switch regulator; other site 1230587003375 non-specific DNA interactions [nucleotide binding]; other site 1230587003376 DNA binding site [nucleotide binding] 1230587003377 sequence specific DNA binding site [nucleotide binding]; other site 1230587003378 putative cAMP binding site [chemical binding]; other site 1230587003379 response regulator FixJ; Provisional; Region: fixJ; PRK09390 1230587003380 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 1230587003381 active site 1230587003382 phosphorylation site [posttranslational modification] 1230587003383 intermolecular recognition site; other site 1230587003384 dimerization interface [polypeptide binding]; other site 1230587003385 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 1230587003386 DNA binding residues [nucleotide binding] 1230587003387 dimerization interface [polypeptide binding]; other site 1230587003388 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1230587003389 PAS domain S-box; Region: sensory_box; TIGR00229 1230587003390 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 1230587003391 putative active site [active] 1230587003392 heme pocket [chemical binding]; other site 1230587003393 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 1230587003394 dimer interface [polypeptide binding]; other site 1230587003395 phosphorylation site [posttranslational modification] 1230587003396 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 1230587003397 ATP binding site [chemical binding]; other site 1230587003398 Mg2+ binding site [ion binding]; other site 1230587003399 G-X-G motif; other site 1230587003400 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 1230587003401 Ligand Binding Site [chemical binding]; other site 1230587003402 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1230587003403 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 1230587003404 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 1230587003405 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1230587003406 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1230587003407 [4Fe-4S] binding site [ion binding]; other site 1230587003408 molybdopterin cofactor binding site; other site 1230587003409 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1230587003410 molybdopterin cofactor binding site; other site 1230587003411 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 1230587003412 ferredoxin-type protein; Provisional; Region: PRK10194 1230587003413 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1230587003414 4Fe-4S binding domain; Region: Fer4; pfam00037 1230587003415 Periplasmic nitrate reductase system, NapE component [Energy production and conversion]; Region: NapE; COG4459 1230587003416 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1230587003417 pseudoazurin; Region: pseudoazurin; TIGR02375 1230587003418 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1230587003419 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 1230587003420 ligand binding site [chemical binding]; other site 1230587003421 flexible hinge region; other site 1230587003422 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 1230587003423 putative switch regulator; other site 1230587003424 non-specific DNA interactions [nucleotide binding]; other site 1230587003425 DNA binding site [nucleotide binding] 1230587003426 sequence specific DNA binding site [nucleotide binding]; other site 1230587003427 putative cAMP binding site [chemical binding]; other site 1230587003428 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1230587003429 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1230587003430 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1230587003431 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1230587003432 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1230587003433 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 1230587003434 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1230587003435 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1230587003436 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1230587003437 Uncharacterized conserved protein [Function unknown]; Region: COG4309 1230587003438 Pirin-related protein [General function prediction only]; Region: COG1741 1230587003439 Pirin; Region: Pirin; pfam02678 1230587003440 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1230587003441 LabA_like proteins; Region: LabA_like/DUF88; cl10034 1230587003442 putative metal binding site [ion binding]; other site 1230587003443 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1230587003444 LabA_like proteins; Region: LabA_like/DUF88; cl10034 1230587003445 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1230587003446 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 1230587003447 FeS/SAM binding site; other site 1230587003448 HemN C-terminal domain; Region: HemN_C; pfam06969 1230587003449 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1230587003450 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1230587003451 putative active site [active] 1230587003452 putative NTP binding site [chemical binding]; other site 1230587003453 putative nucleic acid binding site [nucleotide binding]; other site 1230587003454 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1230587003455 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1230587003456 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 1230587003457 metal ion-dependent adhesion site (MIDAS); other site 1230587003458 MoxR-like ATPases [General function prediction only]; Region: COG0714 1230587003459 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1230587003460 Walker A motif; other site 1230587003461 ATP binding site [chemical binding]; other site 1230587003462 Walker B motif; other site 1230587003463 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1230587003464 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1230587003465 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 1230587003466 D-pathway; other site 1230587003467 K-pathway; other site 1230587003468 Binuclear center (active site) [active] 1230587003469 Putative proton exit pathway; other site 1230587003470 Cytochrome c; Region: Cytochrom_C; pfam00034 1230587003471 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 1230587003472 Subunit I/III interface [polypeptide binding]; other site 1230587003473 Predicted membrane protein [Function unknown]; Region: COG4094 1230587003474 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1230587003475 Flavoprotein; Region: Flavoprotein; pfam02441 1230587003476 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1230587003477 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1230587003478 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1230587003479 Peptidase family U32; Region: Peptidase_U32; pfam01136 1230587003480 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1230587003481 putative protease; Provisional; Region: PRK15447 1230587003482 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1230587003483 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587003484 Predicted membrane protein [Function unknown]; Region: COG3619 1230587003485 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587003486 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587003487 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 1230587003488 putative substrate translocation pore; other site 1230587003489 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1230587003490 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1230587003491 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 1230587003492 Walker A motif; other site 1230587003493 hexamer interface [polypeptide binding]; other site 1230587003494 ATP binding site [chemical binding]; other site 1230587003495 Walker B motif; other site 1230587003496 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1230587003497 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1230587003498 VirB7 interaction site; other site 1230587003499 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1230587003500 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1230587003501 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1230587003502 Type IV secretion system proteins; Region: T4SS; pfam07996 1230587003503 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 1230587003504 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1230587003505 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 1230587003506 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1230587003507 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1230587003508 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1230587003509 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587003510 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587003511 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1230587003512 TAP-like protein; Region: Abhydrolase_4; pfam08386 1230587003513 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 1230587003514 metabolite-proton symporter; Region: 2A0106; TIGR00883 1230587003515 putative substrate translocation pore; other site 1230587003516 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1230587003517 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1230587003518 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 1230587003519 active site 1230587003520 Thermophilic glucose-6-phosphate isomerase and related metalloenzymes [Carbohydrate transport and metabolism / General function prediction only]; Region: COG2140 1230587003521 Cupin domain; Region: Cupin_2; pfam07883 1230587003522 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 1230587003523 Uncharacterized conserved protein [Function unknown]; Region: COG5441 1230587003524 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1230587003525 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587003526 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587003527 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1230587003528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003529 conserved gate region; other site 1230587003530 dimer interface [polypeptide binding]; other site 1230587003531 putative PBP binding loops; other site 1230587003532 ABC-ATPase subunit interface; other site 1230587003533 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587003534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003535 dimer interface [polypeptide binding]; other site 1230587003536 conserved gate region; other site 1230587003537 putative PBP binding loops; other site 1230587003538 ABC-ATPase subunit interface; other site 1230587003539 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587003540 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587003541 Walker A/P-loop; other site 1230587003542 ATP binding site [chemical binding]; other site 1230587003543 Q-loop/lid; other site 1230587003544 ABC transporter signature motif; other site 1230587003545 Walker B; other site 1230587003546 D-loop; other site 1230587003547 H-loop/switch region; other site 1230587003548 TOBE domain; Region: TOBE_2; pfam08402 1230587003549 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587003550 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587003551 Walker A/P-loop; other site 1230587003552 ATP binding site [chemical binding]; other site 1230587003553 Q-loop/lid; other site 1230587003554 ABC transporter signature motif; other site 1230587003555 Walker B; other site 1230587003556 D-loop; other site 1230587003557 H-loop/switch region; other site 1230587003558 TOBE domain; Region: TOBE_2; pfam08402 1230587003559 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1230587003560 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1230587003561 ligand binding site [chemical binding]; other site 1230587003562 NAD binding site [chemical binding]; other site 1230587003563 dimerization interface [polypeptide binding]; other site 1230587003564 catalytic site [active] 1230587003565 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587003566 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587003567 DNA-binding site [nucleotide binding]; DNA binding site 1230587003568 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587003569 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1230587003570 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 1230587003571 active site pocket [active] 1230587003572 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587003573 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 1230587003574 DNA interaction; other site 1230587003575 Metal-binding active site; metal-binding site 1230587003576 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587003577 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 1230587003578 Metal-binding active site; metal-binding site 1230587003579 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1230587003580 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1230587003581 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 1230587003582 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587003583 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1230587003584 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1230587003585 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1230587003586 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1230587003587 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 1230587003588 Walker A motif; other site 1230587003589 ATP binding site [chemical binding]; other site 1230587003590 Walker B motif; other site 1230587003591 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1230587003592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1230587003593 Integrase core domain; Region: rve; pfam00665 1230587003594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1230587003595 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 1230587003596 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587003597 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003598 dimer interface [polypeptide binding]; other site 1230587003599 conserved gate region; other site 1230587003600 putative PBP binding loops; other site 1230587003601 ABC-ATPase subunit interface; other site 1230587003602 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1230587003603 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003604 dimer interface [polypeptide binding]; other site 1230587003605 putative PBP binding loops; other site 1230587003606 ABC-ATPase subunit interface; other site 1230587003607 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587003608 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587003609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587003610 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587003611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587003612 NAD(P) binding site [chemical binding]; other site 1230587003613 active site 1230587003614 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1230587003615 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587003616 Walker A/P-loop; other site 1230587003617 ATP binding site [chemical binding]; other site 1230587003618 Q-loop/lid; other site 1230587003619 ABC transporter signature motif; other site 1230587003620 Walker B; other site 1230587003621 D-loop; other site 1230587003622 H-loop/switch region; other site 1230587003623 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1230587003624 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1230587003625 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587003626 Walker A/P-loop; other site 1230587003627 ATP binding site [chemical binding]; other site 1230587003628 Q-loop/lid; other site 1230587003629 ABC transporter signature motif; other site 1230587003630 Walker B; other site 1230587003631 D-loop; other site 1230587003632 H-loop/switch region; other site 1230587003633 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587003634 dipeptide transporter; Provisional; Region: PRK10913 1230587003635 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003636 dimer interface [polypeptide binding]; other site 1230587003637 conserved gate region; other site 1230587003638 putative PBP binding loops; other site 1230587003639 ABC-ATPase subunit interface; other site 1230587003640 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587003641 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003642 dimer interface [polypeptide binding]; other site 1230587003643 conserved gate region; other site 1230587003644 putative PBP binding loops; other site 1230587003645 ABC-ATPase subunit interface; other site 1230587003646 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587003647 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1230587003648 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1230587003649 Amidase; Region: Amidase; cl11426 1230587003650 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587003651 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1230587003652 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1230587003653 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1230587003654 catalytic loop [active] 1230587003655 iron binding site [ion binding]; other site 1230587003656 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587003657 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587003658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587003659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587003660 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 1230587003661 dimerization interface [polypeptide binding]; other site 1230587003662 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1230587003663 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 1230587003664 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1230587003665 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 1230587003666 Ligand binding site [chemical binding]; other site 1230587003667 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1230587003668 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1230587003669 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 1230587003670 Metal-binding active site; metal-binding site 1230587003671 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1230587003672 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1230587003673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587003674 NAD(P) binding site [chemical binding]; other site 1230587003675 active site 1230587003676 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1230587003677 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1230587003678 active site 1230587003679 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 1230587003680 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587003681 active site 1230587003682 catalytic tetrad [active] 1230587003683 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1230587003684 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1230587003685 MOFRL family; Region: MOFRL; pfam05161 1230587003686 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1230587003687 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 1230587003688 substrate binding site [chemical binding]; other site 1230587003689 oxyanion hole (OAH) forming residues; other site 1230587003690 trimer interface [polypeptide binding]; other site 1230587003691 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1230587003692 Coenzyme A transferase; Region: CoA_trans; smart00882 1230587003693 Coenzyme A transferase; Region: CoA_trans; cl17247 1230587003694 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 1230587003695 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587003696 active site 1230587003697 catalytic tetrad [active] 1230587003698 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1230587003699 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1230587003700 choline dehydrogenase; Validated; Region: PRK02106 1230587003701 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587003702 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587003703 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1230587003704 NAD(P) binding site [chemical binding]; other site 1230587003705 catalytic residues [active] 1230587003706 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587003707 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587003708 NAD(P) binding site [chemical binding]; other site 1230587003709 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 1230587003710 TM-ABC transporter signature motif; other site 1230587003711 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587003712 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587003713 Walker A/P-loop; other site 1230587003714 ATP binding site [chemical binding]; other site 1230587003715 Q-loop/lid; other site 1230587003716 ABC transporter signature motif; other site 1230587003717 Walker B; other site 1230587003718 D-loop; other site 1230587003719 H-loop/switch region; other site 1230587003720 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587003721 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587003722 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 1230587003723 TM-ABC transporter signature motif; other site 1230587003724 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587003725 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1230587003726 ligand binding site [chemical binding]; other site 1230587003727 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587003728 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587003729 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587003730 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587003731 NAD(P) binding site [chemical binding]; other site 1230587003732 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587003733 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 1230587003734 active site 1230587003735 metal binding site [ion binding]; metal-binding site 1230587003736 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587003737 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587003738 Walker A/P-loop; other site 1230587003739 ATP binding site [chemical binding]; other site 1230587003740 Q-loop/lid; other site 1230587003741 ABC transporter signature motif; other site 1230587003742 Walker B; other site 1230587003743 D-loop; other site 1230587003744 H-loop/switch region; other site 1230587003745 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1230587003746 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587003747 Walker A/P-loop; other site 1230587003748 ATP binding site [chemical binding]; other site 1230587003749 Q-loop/lid; other site 1230587003750 ABC transporter signature motif; other site 1230587003751 Walker B; other site 1230587003752 D-loop; other site 1230587003753 H-loop/switch region; other site 1230587003754 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587003755 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587003756 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003757 dimer interface [polypeptide binding]; other site 1230587003758 conserved gate region; other site 1230587003759 putative PBP binding loops; other site 1230587003760 ABC-ATPase subunit interface; other site 1230587003761 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587003762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003763 dimer interface [polypeptide binding]; other site 1230587003764 conserved gate region; other site 1230587003765 putative PBP binding loops; other site 1230587003766 ABC-ATPase subunit interface; other site 1230587003767 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587003768 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_12; cd08491 1230587003769 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1230587003770 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587003771 putative active site [active] 1230587003772 catalytic residue [active] 1230587003773 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587003774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587003775 DNA-binding site [nucleotide binding]; DNA binding site 1230587003776 FCD domain; Region: FCD; pfam07729 1230587003777 Ferritin-like domain; Region: Ferritin_2; pfam13668 1230587003778 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 1230587003779 putative substrate translocation pore; other site 1230587003780 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 1230587003781 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1230587003782 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 1230587003783 dimer interface [polypeptide binding]; other site 1230587003784 active site 1230587003785 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1230587003786 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587003787 NAD(P) binding site [chemical binding]; other site 1230587003788 active site 1230587003789 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1230587003790 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587003791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587003792 Uncharacterized conserved protein [Function unknown]; Region: COG5654 1230587003793 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1230587003794 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1230587003795 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1230587003796 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 1230587003797 active site pocket [active] 1230587003798 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1230587003799 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1230587003800 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003801 dimer interface [polypeptide binding]; other site 1230587003802 conserved gate region; other site 1230587003803 putative PBP binding loops; other site 1230587003804 ABC-ATPase subunit interface; other site 1230587003805 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1230587003806 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1230587003807 Walker A/P-loop; other site 1230587003808 ATP binding site [chemical binding]; other site 1230587003809 Q-loop/lid; other site 1230587003810 ABC transporter signature motif; other site 1230587003811 Walker B; other site 1230587003812 D-loop; other site 1230587003813 H-loop/switch region; other site 1230587003814 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 1230587003815 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587003816 dimer interface [polypeptide binding]; other site 1230587003817 conserved gate region; other site 1230587003818 ABC-ATPase subunit interface; other site 1230587003819 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587003820 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1230587003821 catalytic triad [active] 1230587003822 conserved cis-peptide bond; other site 1230587003823 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1230587003824 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1230587003825 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 1230587003826 active site 1230587003827 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1230587003828 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1230587003829 conserved cys residue [active] 1230587003830 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587003831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587003832 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 1230587003833 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587003834 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587003835 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 1230587003836 dimerization interface [polypeptide binding]; other site 1230587003837 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587003838 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587003839 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1230587003840 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1230587003841 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587003842 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 1230587003843 putative substrate translocation pore; other site 1230587003844 Uncharacterized conserved protein [Function unknown]; Region: COG4925 1230587003845 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1230587003846 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587003847 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587003848 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587003849 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587003850 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587003851 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 1230587003852 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 1230587003853 catalytic loop [active] 1230587003854 iron binding site [ion binding]; other site 1230587003855 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587003856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587003857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587003858 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 1230587003859 putative effector binding pocket; other site 1230587003860 putative dimerization interface [polypeptide binding]; other site 1230587003861 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1230587003862 homodimer interface [polypeptide binding]; other site 1230587003863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587003864 catalytic residue [active] 1230587003865 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587003866 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 1230587003867 putative C-terminal domain interface [polypeptide binding]; other site 1230587003868 putative GSH binding site (G-site) [chemical binding]; other site 1230587003869 putative dimer interface [polypeptide binding]; other site 1230587003870 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1230587003871 putative N-terminal domain interface [polypeptide binding]; other site 1230587003872 putative dimer interface [polypeptide binding]; other site 1230587003873 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587003874 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 1230587003875 [2Fe-2S] cluster binding site [ion binding]; other site 1230587003876 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1230587003877 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1230587003878 FMN-binding pocket [chemical binding]; other site 1230587003879 flavin binding motif; other site 1230587003880 phosphate binding motif [ion binding]; other site 1230587003881 beta-alpha-beta structure motif; other site 1230587003882 NAD binding pocket [chemical binding]; other site 1230587003883 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 1230587003884 catalytic loop [active] 1230587003885 iron binding site [ion binding]; other site 1230587003886 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1230587003887 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1230587003888 hydrophobic ligand binding site; other site 1230587003889 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1230587003890 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1230587003891 hydrophobic ligand binding site; other site 1230587003892 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587003893 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587003894 DNA-binding site [nucleotide binding]; DNA binding site 1230587003895 FCD domain; Region: FCD; pfam07729 1230587003896 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1230587003897 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 1230587003898 putative ligand binding site [chemical binding]; other site 1230587003899 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1230587003900 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587003901 Walker A/P-loop; other site 1230587003902 ATP binding site [chemical binding]; other site 1230587003903 Q-loop/lid; other site 1230587003904 ABC transporter signature motif; other site 1230587003905 Walker B; other site 1230587003906 D-loop; other site 1230587003907 H-loop/switch region; other site 1230587003908 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587003909 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587003910 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 1230587003911 TM-ABC transporter signature motif; other site 1230587003912 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587003913 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 1230587003914 TM-ABC transporter signature motif; other site 1230587003915 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1230587003916 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1230587003917 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1230587003918 4Fe-4S binding domain; Region: Fer4; pfam00037 1230587003919 FOG: CBS domain [General function prediction only]; Region: COG0517 1230587003920 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 1230587003921 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1230587003922 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 1230587003923 catalytic loop [active] 1230587003924 iron binding site [ion binding]; other site 1230587003925 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1230587003926 4Fe-4S binding domain; Region: Fer4; pfam00037 1230587003927 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 1230587003928 [4Fe-4S] binding site [ion binding]; other site 1230587003929 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 1230587003930 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 1230587003931 SLBB domain; Region: SLBB; pfam10531 1230587003932 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1230587003933 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 1230587003934 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 1230587003935 putative dimer interface [polypeptide binding]; other site 1230587003936 [2Fe-2S] cluster binding site [ion binding]; other site 1230587003937 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1230587003938 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1230587003939 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 1230587003940 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1230587003941 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1230587003942 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 1230587003943 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 1230587003944 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587003945 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 1230587003946 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587003947 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 1230587003948 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587003949 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1230587003950 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587003951 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 1230587003952 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1230587003953 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1230587003954 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1230587003955 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 1230587003956 S-adenosylmethionine binding site [chemical binding]; other site 1230587003957 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 1230587003958 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587003959 putative active site [active] 1230587003960 heme pocket [chemical binding]; other site 1230587003961 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587003962 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 1230587003963 putative active site [active] 1230587003964 heme pocket [chemical binding]; other site 1230587003965 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 1230587003966 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587003967 putative active site [active] 1230587003968 heme pocket [chemical binding]; other site 1230587003969 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 1230587003970 putative active site [active] 1230587003971 heme pocket [chemical binding]; other site 1230587003972 PAS domain; Region: PAS; smart00091 1230587003973 PAS fold; Region: PAS_4; pfam08448 1230587003974 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587003975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587003976 metal binding site [ion binding]; metal-binding site 1230587003977 active site 1230587003978 I-site; other site 1230587003979 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 1230587003980 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587003981 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 1230587003982 active site 1230587003983 phosphorylation site [posttranslational modification] 1230587003984 intermolecular recognition site; other site 1230587003985 dimerization interface [polypeptide binding]; other site 1230587003986 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 1230587003987 DNA binding residues [nucleotide binding] 1230587003988 dimerization interface [polypeptide binding]; other site 1230587003989 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1230587003990 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1230587003991 TPR repeat; Region: TPR_11; pfam13414 1230587003992 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1230587003993 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1230587003994 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1230587003995 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1230587003996 dimer interface [polypeptide binding]; other site 1230587003997 putative CheW interface [polypeptide binding]; other site 1230587003998 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1230587003999 putative binding surface; other site 1230587004000 active site 1230587004001 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1230587004002 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 1230587004003 ATP binding site [chemical binding]; other site 1230587004004 Mg2+ binding site [ion binding]; other site 1230587004005 G-X-G motif; other site 1230587004006 CheW-like domain; Region: CheW; pfam01584 1230587004007 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 1230587004008 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587004009 active site 1230587004010 phosphorylation site [posttranslational modification] 1230587004011 intermolecular recognition site; other site 1230587004012 dimerization interface [polypeptide binding]; other site 1230587004013 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1230587004014 CheB methylesterase; Region: CheB_methylest; pfam01339 1230587004015 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1230587004016 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1230587004017 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1230587004018 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1230587004019 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1230587004020 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 1230587004021 ATP binding site [chemical binding]; other site 1230587004022 Walker A motif; other site 1230587004023 hexamer interface [polypeptide binding]; other site 1230587004024 Walker B motif; other site 1230587004025 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1230587004026 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1230587004027 TadE-like protein; Region: TadE; pfam07811 1230587004028 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 1230587004029 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 1230587004030 active site 1230587004031 dimerization interface [polypeptide binding]; other site 1230587004032 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1230587004033 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1230587004034 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1230587004035 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1230587004036 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1230587004037 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1230587004038 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1230587004039 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1230587004040 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1230587004041 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587004042 cyclase homology domain; Region: CHD; cd07302 1230587004043 nucleotidyl binding site; other site 1230587004044 metal binding site [ion binding]; metal-binding site 1230587004045 dimer interface [polypeptide binding]; other site 1230587004046 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587004047 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 1230587004048 TPR motif; other site 1230587004049 TPR repeat; Region: TPR_11; pfam13414 1230587004050 binding surface 1230587004051 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 1230587004052 binding surface 1230587004053 TPR motif; other site 1230587004054 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1230587004055 Transposase; Region: HTH_Tnp_1; cl17663 1230587004056 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1230587004057 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 1230587004058 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1230587004059 active site 1230587004060 catalytic residues [active] 1230587004061 Predicted ester cyclase [General function prediction only]; Region: COG5485 1230587004062 Sterile alpha motif; Region: SAM; smart00454 1230587004063 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 1230587004064 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587004065 cyclase homology domain; Region: CHD; cd07302 1230587004066 nucleotidyl binding site; other site 1230587004067 metal binding site [ion binding]; metal-binding site 1230587004068 dimer interface [polypeptide binding]; other site 1230587004069 Predicted ATPase [General function prediction only]; Region: COG3899 1230587004070 AAA ATPase domain; Region: AAA_16; pfam13191 1230587004071 Predicted ATPase [General function prediction only]; Region: COG3903 1230587004072 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587004073 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1230587004074 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 1230587004075 [2Fe-2S] cluster binding site [ion binding]; other site 1230587004076 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 1230587004077 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1230587004078 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1230587004079 putative cation:proton antiport protein; Provisional; Region: PRK10669 1230587004080 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1230587004081 TrkA-N domain; Region: TrkA_N; pfam02254 1230587004082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004083 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 1230587004084 putative effector binding pocket; other site 1230587004085 dimerization interface [polypeptide binding]; other site 1230587004086 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1230587004087 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 1230587004088 FMN binding site [chemical binding]; other site 1230587004089 active site 1230587004090 substrate binding site [chemical binding]; other site 1230587004091 catalytic residue [active] 1230587004092 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1230587004093 NAD(P) binding site [chemical binding]; other site 1230587004094 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1230587004095 putative active site [active] 1230587004096 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004098 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1230587004099 substrate binding pocket [chemical binding]; other site 1230587004100 dimerization interface [polypeptide binding]; other site 1230587004101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1230587004102 short chain dehydrogenase; Provisional; Region: PRK06523 1230587004103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587004104 NAD(P) binding site [chemical binding]; other site 1230587004105 active site 1230587004106 SnoaL-like domain; Region: SnoaL_2; pfam12680 1230587004107 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004108 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004109 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 1230587004110 putative effector binding pocket; other site 1230587004111 putative dimerization interface [polypeptide binding]; other site 1230587004112 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 1230587004113 putative homodimer interface [polypeptide binding]; other site 1230587004114 putative homotetramer interface [polypeptide binding]; other site 1230587004115 putative metal binding site [ion binding]; other site 1230587004116 putative homodimer-homodimer interface [polypeptide binding]; other site 1230587004117 putative allosteric switch controlling residues; other site 1230587004118 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 1230587004119 putative substrate translocation pore; other site 1230587004120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1230587004121 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1230587004122 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1230587004123 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587004124 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587004125 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1230587004126 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1230587004127 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587004128 Walker A/P-loop; other site 1230587004129 ATP binding site [chemical binding]; other site 1230587004130 Q-loop/lid; other site 1230587004131 ABC transporter signature motif; other site 1230587004132 Walker B; other site 1230587004133 D-loop; other site 1230587004134 H-loop/switch region; other site 1230587004135 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1230587004136 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1230587004137 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587004138 Walker A/P-loop; other site 1230587004139 ATP binding site [chemical binding]; other site 1230587004140 Q-loop/lid; other site 1230587004141 ABC transporter signature motif; other site 1230587004142 Walker B; other site 1230587004143 D-loop; other site 1230587004144 H-loop/switch region; other site 1230587004145 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587004146 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587004147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587004148 dimer interface [polypeptide binding]; other site 1230587004149 conserved gate region; other site 1230587004150 putative PBP binding loops; other site 1230587004151 ABC-ATPase subunit interface; other site 1230587004152 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587004153 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587004154 dimer interface [polypeptide binding]; other site 1230587004155 conserved gate region; other site 1230587004156 putative PBP binding loops; other site 1230587004157 ABC-ATPase subunit interface; other site 1230587004158 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587004159 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1230587004160 substrate binding site [chemical binding]; other site 1230587004161 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1230587004162 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1230587004163 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587004164 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587004165 DNA-binding site [nucleotide binding]; DNA binding site 1230587004166 FCD domain; Region: FCD; pfam07729 1230587004167 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1230587004168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587004169 Coenzyme A binding pocket [chemical binding]; other site 1230587004170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1230587004171 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1230587004172 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1230587004173 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587004174 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587004175 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 1230587004176 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1230587004177 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1230587004178 arginine deiminase; Provisional; Region: PRK01388 1230587004179 Predicted membrane protein [Function unknown]; Region: COG4803 1230587004180 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1230587004181 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1230587004182 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1230587004183 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 1230587004184 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1230587004185 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 1230587004186 active site 1230587004187 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1230587004188 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 1230587004189 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1230587004190 TPR repeat; Region: TPR_11; pfam13414 1230587004191 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 1230587004192 TPR motif; other site 1230587004193 binding surface 1230587004194 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1230587004195 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1230587004196 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 1230587004197 motif II; other site 1230587004198 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1230587004199 Sulfatase; Region: Sulfatase; pfam00884 1230587004200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587004201 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 1230587004202 dimer interface [polypeptide binding]; other site 1230587004203 phosphorylation site [posttranslational modification] 1230587004204 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 1230587004205 ATP binding site [chemical binding]; other site 1230587004206 Mg2+ binding site [ion binding]; other site 1230587004207 G-X-G motif; other site 1230587004208 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1230587004209 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 1230587004210 active site 1230587004211 phosphorylation site [posttranslational modification] 1230587004212 intermolecular recognition site; other site 1230587004213 dimerization interface [polypeptide binding]; other site 1230587004214 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 1230587004215 DNA binding residues [nucleotide binding] 1230587004216 dimerization interface [polypeptide binding]; other site 1230587004217 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587004218 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 1230587004219 active site 1230587004220 phosphorylation site [posttranslational modification] 1230587004221 intermolecular recognition site; other site 1230587004222 dimerization interface [polypeptide binding]; other site 1230587004223 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1230587004224 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1230587004225 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; cl02915 1230587004226 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1230587004227 HWE histidine kinase; Region: HWE_HK; pfam07536 1230587004228 Transposase; Region: HTH_Tnp_1; cl17663 1230587004229 Predicted membrane protein [Function unknown]; Region: COG4292 1230587004230 Predicted transcriptional regulator [Transcription]; Region: COG4957 1230587004231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587004232 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587004233 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587004234 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587004235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587004236 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587004237 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587004238 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 1230587004239 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 1230587004240 active site 1230587004241 Mn binding site [ion binding]; other site 1230587004242 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1230587004243 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 1230587004244 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 1230587004245 active site 1230587004246 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1230587004247 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1230587004248 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 1230587004249 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1230587004250 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1230587004251 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1230587004252 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 1230587004253 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 1230587004254 active site 1230587004255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004257 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 1230587004258 putative effector binding pocket; other site 1230587004259 dimerization interface [polypeptide binding]; other site 1230587004260 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587004261 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1230587004262 catalytic triad [active] 1230587004263 conserved cis-peptide bond; other site 1230587004264 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1230587004265 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1230587004266 conserved cys residue [active] 1230587004267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587004268 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1230587004269 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587004270 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1230587004271 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587004272 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587004273 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1230587004274 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587004275 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1230587004276 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1230587004277 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1230587004278 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587004279 NAD(P) binding site [chemical binding]; other site 1230587004280 catalytic residues [active] 1230587004281 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 1230587004282 iron-sulfur cluster [ion binding]; other site 1230587004283 [2Fe-2S] cluster binding site [ion binding]; other site 1230587004284 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1230587004285 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1230587004286 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 1230587004287 FAD binding pocket [chemical binding]; other site 1230587004288 FAD binding motif [chemical binding]; other site 1230587004289 phosphate binding motif [ion binding]; other site 1230587004290 beta-alpha-beta structure motif; other site 1230587004291 NAD binding pocket [chemical binding]; other site 1230587004292 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 1230587004293 catalytic loop [active] 1230587004294 iron binding site [ion binding]; other site 1230587004295 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004296 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004297 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 1230587004298 dimerization interface [polypeptide binding]; other site 1230587004299 Predicted membrane protein [Function unknown]; Region: COG2855 1230587004300 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 1230587004301 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1230587004302 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1230587004303 FAD binding pocket [chemical binding]; other site 1230587004304 FAD binding motif [chemical binding]; other site 1230587004305 phosphate binding motif [ion binding]; other site 1230587004306 NAD binding pocket [chemical binding]; other site 1230587004307 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1230587004308 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1230587004309 Walker A/P-loop; other site 1230587004310 ATP binding site [chemical binding]; other site 1230587004311 Q-loop/lid; other site 1230587004312 ABC transporter signature motif; other site 1230587004313 Walker B; other site 1230587004314 D-loop; other site 1230587004315 H-loop/switch region; other site 1230587004316 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1230587004317 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 1230587004318 ABC-ATPase subunit interface; other site 1230587004319 dimer interface [polypeptide binding]; other site 1230587004320 putative PBP binding regions; other site 1230587004321 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1230587004322 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 1230587004323 ABC-ATPase subunit interface; other site 1230587004324 dimer interface [polypeptide binding]; other site 1230587004325 putative PBP binding regions; other site 1230587004326 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1230587004327 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 1230587004328 intersubunit interface [polypeptide binding]; other site 1230587004329 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 1230587004330 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 1230587004331 N-terminal plug; other site 1230587004332 ligand-binding site [chemical binding]; other site 1230587004333 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1230587004334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587004335 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587004336 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587004337 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587004338 dimer interface [polypeptide binding]; other site 1230587004339 conserved gate region; other site 1230587004340 putative PBP binding loops; other site 1230587004341 ABC-ATPase subunit interface; other site 1230587004342 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587004343 dimer interface [polypeptide binding]; other site 1230587004344 conserved gate region; other site 1230587004345 putative PBP binding loops; other site 1230587004346 ABC-ATPase subunit interface; other site 1230587004347 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587004348 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1230587004349 Walker A/P-loop; other site 1230587004350 ATP binding site [chemical binding]; other site 1230587004351 Q-loop/lid; other site 1230587004352 ABC transporter signature motif; other site 1230587004353 Walker B; other site 1230587004354 D-loop; other site 1230587004355 H-loop/switch region; other site 1230587004356 TOBE domain; Region: TOBE_2; pfam08402 1230587004357 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587004358 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587004359 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587004360 classical (c) SDRs; Region: SDR_c; cd05233 1230587004361 NAD(P) binding site [chemical binding]; other site 1230587004362 active site 1230587004363 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587004364 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587004365 DNA-binding site [nucleotide binding]; DNA binding site 1230587004366 FCD domain; Region: FCD; pfam07729 1230587004367 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1230587004368 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 1230587004369 active site 1230587004370 ATP binding site [chemical binding]; other site 1230587004371 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1230587004372 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 1230587004373 inhibitor-cofactor binding pocket; inhibition site 1230587004374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587004375 catalytic residue [active] 1230587004376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 1230587004377 Predicted membrane protein [Function unknown]; Region: COG2261 1230587004378 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 1230587004379 active site 1230587004380 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1230587004381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1230587004382 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 1230587004383 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 1230587004384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587004385 Predicted membrane protein [Function unknown]; Region: COG4125 1230587004386 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1230587004387 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1230587004388 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004390 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 1230587004391 dimerization interface [polypeptide binding]; other site 1230587004392 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587004393 MULE transposase domain; Region: MULE; pfam10551 1230587004394 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587004395 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1230587004396 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1230587004397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1230587004398 Sterile alpha motif; Region: SAM; smart00454 1230587004399 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 1230587004400 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587004401 cyclase homology domain; Region: CHD; cd07302 1230587004402 nucleotidyl binding site; other site 1230587004403 metal binding site [ion binding]; metal-binding site 1230587004404 dimer interface [polypeptide binding]; other site 1230587004405 Predicted ATPase [General function prediction only]; Region: COG3899 1230587004406 AAA ATPase domain; Region: AAA_16; pfam13191 1230587004407 Predicted ATPase [General function prediction only]; Region: COG3903 1230587004408 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1230587004409 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587004410 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587004411 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1230587004412 Transmembrane secretion effector; Region: MFS_3; pfam05977 1230587004413 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 1230587004414 putative substrate translocation pore; other site 1230587004415 Predicted membrane protein [Function unknown]; Region: COG2259 1230587004416 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1230587004417 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 1230587004418 active site 1230587004419 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 1230587004420 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1230587004421 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587004422 catalytic triad [active] 1230587004423 dimer interface [polypeptide binding]; other site 1230587004424 conserved cis-peptide bond; other site 1230587004425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587004426 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587004427 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587004428 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587004429 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587004430 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587004431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587004432 Helix-turn-helix domain; Region: HTH_18; pfam12833 1230587004433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587004434 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004435 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004436 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 1230587004437 putative effector binding pocket; other site 1230587004438 dimerization interface [polypeptide binding]; other site 1230587004439 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 1230587004440 active site 1230587004441 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 1230587004442 Predicted esterase [General function prediction only]; Region: COG0400 1230587004443 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1230587004444 putative active site [active] 1230587004445 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1230587004446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1230587004447 acetylornithine deacetylase; Provisional; Region: PRK07522 1230587004448 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1230587004449 metal binding site [ion binding]; metal-binding site 1230587004450 putative dimer interface [polypeptide binding]; other site 1230587004451 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1230587004452 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1230587004453 putative ligand binding site [chemical binding]; other site 1230587004454 NAD binding site [chemical binding]; other site 1230587004455 dimerization interface [polypeptide binding]; other site 1230587004456 catalytic site [active] 1230587004457 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1230587004458 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587004459 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587004460 NAD(P) binding site [chemical binding]; other site 1230587004461 catalytic residues [active] 1230587004462 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1230587004463 tartrate dehydrogenase; Region: TTC; TIGR02089 1230587004464 succinic semialdehyde dehydrogenase; Region: PLN02278 1230587004465 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1230587004466 tetramerization interface [polypeptide binding]; other site 1230587004467 NAD(P) binding site [chemical binding]; other site 1230587004468 catalytic residues [active] 1230587004469 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587004470 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587004471 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1230587004472 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 1230587004473 putative acetyltransferase; Provisional; Region: PRK03624 1230587004474 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587004475 Coenzyme A binding pocket [chemical binding]; other site 1230587004476 hypothetical protein; Provisional; Region: PRK05965 1230587004477 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 1230587004478 inhibitor-cofactor binding pocket; inhibition site 1230587004479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587004480 catalytic residue [active] 1230587004481 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1230587004482 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 1230587004483 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587004484 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1230587004485 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587004486 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587004487 dimer interface [polypeptide binding]; other site 1230587004488 conserved gate region; other site 1230587004489 putative PBP binding loops; other site 1230587004490 ABC-ATPase subunit interface; other site 1230587004491 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587004492 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587004493 dimer interface [polypeptide binding]; other site 1230587004494 conserved gate region; other site 1230587004495 ABC-ATPase subunit interface; other site 1230587004496 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587004497 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587004498 Walker A/P-loop; other site 1230587004499 ATP binding site [chemical binding]; other site 1230587004500 Q-loop/lid; other site 1230587004501 ABC transporter signature motif; other site 1230587004502 Walker B; other site 1230587004503 D-loop; other site 1230587004504 H-loop/switch region; other site 1230587004505 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587004506 Walker A/P-loop; other site 1230587004507 ATP binding site [chemical binding]; other site 1230587004508 Q-loop/lid; other site 1230587004509 ABC transporter signature motif; other site 1230587004510 Walker B; other site 1230587004511 D-loop; other site 1230587004512 H-loop/switch region; other site 1230587004513 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587004514 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587004515 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 1230587004516 putative DNA binding site [nucleotide binding]; other site 1230587004517 putative Zn2+ binding site [ion binding]; other site 1230587004518 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587004519 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587004520 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587004521 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1230587004522 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1230587004523 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1230587004524 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 1230587004525 tetramer interface [polypeptide binding]; other site 1230587004526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587004527 catalytic residue [active] 1230587004528 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1230587004529 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1230587004530 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1230587004531 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 1230587004532 motif II; other site 1230587004533 Family description; Region: DsbD_2; pfam13386 1230587004534 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1230587004535 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1230587004536 Cytochrome c; Region: Cytochrom_C; pfam00034 1230587004537 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1230587004538 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 1230587004539 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1230587004540 Low-spin heme binding site [chemical binding]; other site 1230587004541 D-pathway; other site 1230587004542 Putative water exit pathway; other site 1230587004543 Binuclear center (active site) [active] 1230587004544 K-pathway; other site 1230587004545 Putative proton exit pathway; other site 1230587004546 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1230587004547 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 1230587004548 ring oligomerisation interface [polypeptide binding]; other site 1230587004549 ATP/Mg binding site [chemical binding]; other site 1230587004550 stacking interactions; other site 1230587004551 hinge regions; other site 1230587004552 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1230587004553 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 1230587004554 substrate-cofactor binding pocket; other site 1230587004555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587004556 catalytic residue [active] 1230587004557 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1230587004558 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 1230587004559 Cu(I) binding site [ion binding]; other site 1230587004560 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1230587004561 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1230587004562 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1230587004563 active site 1230587004564 metal binding site [ion binding]; metal-binding site 1230587004565 Cytochrome c [Energy production and conversion]; Region: COG3258 1230587004566 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1230587004567 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1230587004568 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 1230587004569 Cytochrome c; Region: Cytochrom_C; cl11414 1230587004570 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1230587004571 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 1230587004572 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1230587004573 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1230587004574 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587004575 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587004576 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1230587004577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1230587004578 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 1230587004579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587004580 DNA-binding site [nucleotide binding]; DNA binding site 1230587004581 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 1230587004582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587004583 homodimer interface [polypeptide binding]; other site 1230587004584 catalytic residue [active] 1230587004585 Cupin domain; Region: Cupin_2; pfam07883 1230587004586 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1230587004587 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1230587004588 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587004589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587004590 NAD(P) binding site [chemical binding]; other site 1230587004591 active site 1230587004592 putative transcriptional regulator; Provisional; Region: PRK11640 1230587004593 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587004594 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 1230587004595 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1230587004596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1230587004597 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587004598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004600 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 1230587004601 dimerization interface [polypeptide binding]; other site 1230587004602 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1230587004603 SelR domain; Region: SelR; pfam01641 1230587004604 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1230587004605 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1230587004606 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1230587004607 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1230587004608 active site 1230587004609 catalytic residues [active] 1230587004610 Transglycosylase; Region: Transgly; pfam00912 1230587004611 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1230587004612 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1230587004613 BA14K-like protein; Region: BA14K; pfam07886 1230587004614 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1230587004615 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1230587004616 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 1230587004617 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 1230587004618 transmembrane helices; other site 1230587004619 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1230587004620 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 1230587004621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1230587004622 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]; Region: COG1936 1230587004623 AAA domain; Region: AAA_17; pfam13207 1230587004624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004626 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1230587004627 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1230587004628 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587004629 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 1230587004630 putative substrate translocation pore; other site 1230587004631 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1230587004632 hypothetical protein; Provisional; Region: PRK06834 1230587004633 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1230587004634 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004635 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004636 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 1230587004637 dimerization interface [polypeptide binding]; other site 1230587004638 EamA-like transporter family; Region: EamA; pfam00892 1230587004639 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587004640 EamA-like transporter family; Region: EamA; pfam00892 1230587004641 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1230587004642 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 1230587004643 ligand binding site [chemical binding]; other site 1230587004644 flexible hinge region; other site 1230587004645 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1230587004646 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 1230587004647 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1230587004648 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1230587004649 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1230587004650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004652 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1230587004653 substrate binding pocket [chemical binding]; other site 1230587004654 dimerization interface [polypeptide binding]; other site 1230587004655 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004657 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1230587004658 substrate binding pocket [chemical binding]; other site 1230587004659 dimerization interface [polypeptide binding]; other site 1230587004660 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1230587004661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587004662 NAD(P) binding site [chemical binding]; other site 1230587004663 active site 1230587004664 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1230587004665 Predicted transcriptional regulators [Transcription]; Region: COG1733 1230587004666 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1230587004667 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1230587004668 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1230587004669 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1230587004670 CHAD domain; Region: CHAD; cl10506 1230587004671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004673 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 1230587004674 putative effector binding pocket; other site 1230587004675 dimerization interface [polypeptide binding]; other site 1230587004676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587004677 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1230587004678 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1230587004679 potential catalytic triad [active] 1230587004680 conserved cys residue [active] 1230587004681 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1230587004682 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1230587004683 potential catalytic triad [active] 1230587004684 conserved cys residue [active] 1230587004685 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1230587004686 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587004687 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587004688 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 1230587004689 hypothetical protein; Provisional; Region: PRK06486 1230587004690 intersubunit interface [polypeptide binding]; other site 1230587004691 active site 1230587004692 Zn2+ binding site [ion binding]; other site 1230587004693 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1230587004694 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 1230587004695 motif II; other site 1230587004696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004697 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004698 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 1230587004699 dimerization interface [polypeptide binding]; other site 1230587004700 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587004701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587004702 NAD(P) binding site [chemical binding]; other site 1230587004703 active site 1230587004704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004706 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 1230587004707 putative effector binding pocket; other site 1230587004708 dimerization interface [polypeptide binding]; other site 1230587004709 Helix-turn-helix domain; Region: HTH_17; cl17695 1230587004710 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587004711 MULE transposase domain; Region: MULE; pfam10551 1230587004712 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 1230587004713 active site 1230587004714 catalytic triad [active] 1230587004715 oxyanion hole [active] 1230587004716 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587004717 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 1230587004718 TM-ABC transporter signature motif; other site 1230587004719 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587004720 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 1230587004721 TM-ABC transporter signature motif; other site 1230587004722 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587004723 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587004724 Walker A/P-loop; other site 1230587004725 ATP binding site [chemical binding]; other site 1230587004726 Q-loop/lid; other site 1230587004727 ABC transporter signature motif; other site 1230587004728 Walker B; other site 1230587004729 D-loop; other site 1230587004730 H-loop/switch region; other site 1230587004731 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587004732 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587004733 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 1230587004734 putative ligand binding site [chemical binding]; other site 1230587004735 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 1230587004736 active site 1230587004737 catalytic triad [active] 1230587004738 oxyanion hole [active] 1230587004739 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 1230587004740 putative switch regulator; other site 1230587004741 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1230587004742 non-specific DNA interactions [nucleotide binding]; other site 1230587004743 DNA binding site [nucleotide binding] 1230587004744 sequence specific DNA binding site [nucleotide binding]; other site 1230587004745 putative cAMP binding site [chemical binding]; other site 1230587004746 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1230587004747 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1230587004748 nucleotide binding site [chemical binding]; other site 1230587004749 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587004750 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587004751 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 1230587004752 putative dimer interface [polypeptide binding]; other site 1230587004753 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587004754 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1230587004755 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 1230587004756 putative active site [active] 1230587004757 catalytic site [active] 1230587004758 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 1230587004759 putative active site [active] 1230587004760 catalytic site [active] 1230587004761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004762 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 1230587004763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004765 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 1230587004766 dimerization interface [polypeptide binding]; other site 1230587004767 SnoaL-like domain; Region: SnoaL_2; pfam12680 1230587004768 short chain dehydrogenase; Provisional; Region: PRK06523 1230587004769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587004770 active site 1230587004771 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1230587004772 MarR family; Region: MarR; pfam01047 1230587004773 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587004774 Serine hydrolase; Region: Ser_hydrolase; cl17834 1230587004775 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1230587004776 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587004777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004778 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004779 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 1230587004780 putative effector binding pocket; other site 1230587004781 dimerization interface [polypeptide binding]; other site 1230587004782 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587004783 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1230587004784 catalytic triad [active] 1230587004785 dimer interface [polypeptide binding]; other site 1230587004786 conserved cis-peptide bond; other site 1230587004787 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587004788 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1230587004789 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 1230587004790 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1230587004791 classical (c) SDRs; Region: SDR_c; cd05233 1230587004792 NAD(P) binding site [chemical binding]; other site 1230587004793 active site 1230587004794 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 1230587004795 DNA-binding site [nucleotide binding]; DNA binding site 1230587004796 RNA-binding motif; other site 1230587004797 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587004798 cyclase homology domain; Region: CHD; cd07302 1230587004799 dimer interface [polypeptide binding]; other site 1230587004800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587004801 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587004802 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587004803 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587004804 Predicted transcriptional regulator [Transcription]; Region: COG1959 1230587004805 Transcriptional regulator; Region: Rrf2; pfam02082 1230587004806 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1230587004807 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 1230587004808 FAD binding pocket [chemical binding]; other site 1230587004809 FAD binding motif [chemical binding]; other site 1230587004810 phosphate binding motif [ion binding]; other site 1230587004811 beta-alpha-beta structure motif; other site 1230587004812 NAD binding pocket [chemical binding]; other site 1230587004813 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 1230587004814 catalytic loop [active] 1230587004815 iron binding site [ion binding]; other site 1230587004816 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1230587004817 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 1230587004818 [2Fe-2S] cluster binding site [ion binding]; other site 1230587004819 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 1230587004820 putative alpha subunit interface [polypeptide binding]; other site 1230587004821 putative active site [active] 1230587004822 putative substrate binding site [chemical binding]; other site 1230587004823 Fe binding site [ion binding]; other site 1230587004824 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1230587004825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004826 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 1230587004827 dimerization interface [polypeptide binding]; other site 1230587004828 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1230587004829 Predicted membrane protein [Function unknown]; Region: COG2855 1230587004830 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 1230587004831 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587004832 PYR/PP interface [polypeptide binding]; other site 1230587004833 dimer interface [polypeptide binding]; other site 1230587004834 TPP binding site [chemical binding]; other site 1230587004835 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587004836 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 1230587004837 TPP-binding site; other site 1230587004838 metabolite-proton symporter; Region: 2A0106; TIGR00883 1230587004839 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 1230587004840 putative substrate translocation pore; other site 1230587004841 choline dehydrogenase; Validated; Region: PRK02106 1230587004842 Fatty-acid desaturase [Lipid metabolism]; Region: OLE1; cl17656 1230587004843 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587004844 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587004845 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 1230587004846 putative Zn2+ binding site [ion binding]; other site 1230587004847 putative DNA binding site [nucleotide binding]; other site 1230587004848 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587004849 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 1230587004850 active site 1230587004851 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1230587004852 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 1230587004853 allantoate amidohydrolase; Reviewed; Region: PRK09290 1230587004854 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1230587004855 active site 1230587004856 metal binding site [ion binding]; metal-binding site 1230587004857 dimer interface [polypeptide binding]; other site 1230587004858 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 1230587004859 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1230587004860 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587004861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587004862 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 1230587004863 dimerization interface [polypeptide binding]; other site 1230587004864 Ubiquitin-like proteins; Region: UBQ; cl00155 1230587004865 charged pocket; other site 1230587004866 hydrophobic patch; other site 1230587004867 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587004868 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587004869 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587004870 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1230587004871 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 1230587004872 catalytic loop [active] 1230587004873 iron binding site [ion binding]; other site 1230587004874 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587004875 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1230587004876 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1230587004877 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 1230587004878 active site 1230587004879 phosphorylation site [posttranslational modification] 1230587004880 intermolecular recognition site; other site 1230587004881 dimerization interface [polypeptide binding]; other site 1230587004882 putative integral membrane protein TIGR02587; Region: TIGR02587 1230587004883 TIGR02588 family protein; Region: TIGR02588 1230587004884 Protein of unknown function (DUF433); Region: DUF433; pfam04255 1230587004885 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1230587004886 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 1230587004887 DNA binding residues [nucleotide binding] 1230587004888 dimer interface [polypeptide binding]; other site 1230587004889 mercury binding site [ion binding]; other site 1230587004890 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1230587004891 Methylamine utilisation protein MauE; Region: MauE; pfam07291 1230587004892 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 1230587004893 S-adenosylmethionine binding site [chemical binding]; other site 1230587004894 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 1230587004895 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1230587004896 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1230587004897 conserved cys residue [active] 1230587004898 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587004899 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 1230587004900 putative ligand binding site [chemical binding]; other site 1230587004901 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587004902 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 1230587004903 TM-ABC transporter signature motif; other site 1230587004904 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587004905 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587004906 Walker A/P-loop; other site 1230587004907 ATP binding site [chemical binding]; other site 1230587004908 Q-loop/lid; other site 1230587004909 ABC transporter signature motif; other site 1230587004910 Walker B; other site 1230587004911 D-loop; other site 1230587004912 H-loop/switch region; other site 1230587004913 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587004914 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587004915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587004916 DNA-binding site [nucleotide binding]; DNA binding site 1230587004917 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587004918 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1230587004919 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1230587004920 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1230587004921 active site 1230587004922 NAD binding site [chemical binding]; other site 1230587004923 metal binding site [ion binding]; metal-binding site 1230587004924 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587004925 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1230587004926 tetramerization interface [polypeptide binding]; other site 1230587004927 NAD(P) binding site [chemical binding]; other site 1230587004928 catalytic residues [active] 1230587004929 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1230587004930 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1230587004931 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 1230587004932 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1230587004933 FMN binding site [chemical binding]; other site 1230587004934 active site 1230587004935 homodimer interface [polypeptide binding]; other site 1230587004936 putative catalytic residue [active] 1230587004937 4Fe-4S cluster binding site [ion binding]; other site 1230587004938 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587004939 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 1230587004940 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1230587004941 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1230587004942 active site 1230587004943 catalytic site [active] 1230587004944 substrate binding site [chemical binding]; other site 1230587004945 Uncharacterized conserved protein [Function unknown]; Region: COG5482 1230587004946 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587004947 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1230587004948 DctM-like transporters; Region: DctM; pfam06808 1230587004949 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1230587004950 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587004951 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1230587004952 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1230587004953 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587004954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587004955 DNA-binding site [nucleotide binding]; DNA binding site 1230587004956 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587004957 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1230587004958 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587004959 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587004960 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1230587004961 putative NAD(P) binding site [chemical binding]; other site 1230587004962 active site 1230587004963 putative substrate binding site [chemical binding]; other site 1230587004964 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1230587004965 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1230587004966 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 1230587004967 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1230587004968 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1230587004969 active site 1230587004970 homotetramer interface [polypeptide binding]; other site 1230587004971 Uncharacterized conserved protein, YhbC family [Function unknown]; Region: COG0782 1230587004972 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1230587004973 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1230587004974 glutamate dehydrogenase; Provisional; Region: PRK09414 1230587004975 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1230587004976 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1230587004977 NAD(P) binding site [chemical binding]; other site 1230587004978 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1230587004979 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1230587004980 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 1230587004981 putative substrate translocation pore; other site 1230587004982 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 1230587004983 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587004984 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587004985 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587004986 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587004987 DNA-binding site [nucleotide binding]; DNA binding site 1230587004988 FCD domain; Region: FCD; pfam07729 1230587004989 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587004990 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1230587004991 NAD(P) binding site [chemical binding]; other site 1230587004992 catalytic residues [active] 1230587004993 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587004994 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587004995 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 1230587004996 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587004997 TM-ABC transporter signature motif; other site 1230587004998 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587004999 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587005000 Walker A/P-loop; other site 1230587005001 ATP binding site [chemical binding]; other site 1230587005002 Q-loop/lid; other site 1230587005003 ABC transporter signature motif; other site 1230587005004 Walker B; other site 1230587005005 D-loop; other site 1230587005006 H-loop/switch region; other site 1230587005007 5-keto 4-deoxyuronate isomerase [Carbohydrate transport and metabolism]; Region: KduI; COG3717 1230587005008 Uncharacterized conserved protein [Function unknown]; Region: COG5397 1230587005009 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 1230587005010 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587005011 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 1230587005012 active site 1230587005013 phosphorylation site [posttranslational modification] 1230587005014 intermolecular recognition site; other site 1230587005015 dimerization interface [polypeptide binding]; other site 1230587005016 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1230587005017 DNA binding residues [nucleotide binding] 1230587005018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1230587005019 Histidine kinase; Region: HisKA_3; pfam07730 1230587005020 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 1230587005021 ATP binding site [chemical binding]; other site 1230587005022 Mg2+ binding site [ion binding]; other site 1230587005023 G-X-G motif; other site 1230587005024 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587005025 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 1230587005026 putative ligand binding site [chemical binding]; other site 1230587005027 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587005028 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587005029 Walker A/P-loop; other site 1230587005030 ATP binding site [chemical binding]; other site 1230587005031 Q-loop/lid; other site 1230587005032 ABC transporter signature motif; other site 1230587005033 Walker B; other site 1230587005034 D-loop; other site 1230587005035 H-loop/switch region; other site 1230587005036 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587005037 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587005038 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 1230587005039 TM-ABC transporter signature motif; other site 1230587005040 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587005041 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 1230587005042 TM-ABC transporter signature motif; other site 1230587005043 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1230587005044 Strictosidine synthase; Region: Str_synth; pfam03088 1230587005045 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 1230587005046 dimerization interface [polypeptide binding]; other site 1230587005047 putative DNA binding site [nucleotide binding]; other site 1230587005048 putative Zn2+ binding site [ion binding]; other site 1230587005049 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 1230587005050 putative hydrophobic ligand binding site [chemical binding]; other site 1230587005051 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587005052 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587005053 short chain dehydrogenase; Provisional; Region: PRK06701 1230587005054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587005055 NAD(P) binding site [chemical binding]; other site 1230587005056 active site 1230587005057 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 1230587005058 putative substrate translocation pore; other site 1230587005059 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 1230587005060 DNA-binding site [nucleotide binding]; DNA binding site 1230587005061 RNA-binding motif; other site 1230587005062 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1230587005063 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587005064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587005065 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1230587005066 dimerization interface [polypeptide binding]; other site 1230587005067 substrate binding pocket [chemical binding]; other site 1230587005068 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 1230587005069 binding surface 1230587005070 TPR motif; other site 1230587005071 GYD domain; Region: GYD; pfam08734 1230587005072 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1230587005073 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1230587005074 Uncharacterized conserved protein [Function unknown]; Region: COG2326 1230587005075 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1230587005076 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 1230587005077 S-adenosylmethionine binding site [chemical binding]; other site 1230587005078 hypothetical protein; Provisional; Region: PRK08317 1230587005079 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 1230587005080 S-adenosylmethionine binding site [chemical binding]; other site 1230587005081 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 1230587005082 binding surface 1230587005083 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1230587005084 TPR motif; other site 1230587005085 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1230587005086 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1230587005087 BON domain; Region: BON; pfam04972 1230587005088 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1230587005089 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587005090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587005091 DNA-binding site [nucleotide binding]; DNA binding site 1230587005092 FCD domain; Region: FCD; pfam07729 1230587005093 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587005094 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1230587005095 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587005096 DctM-like transporters; Region: DctM; pfam06808 1230587005097 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1230587005098 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 1230587005099 malonyl-CoA synthase; Validated; Region: PRK07514 1230587005100 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 1230587005101 acyl-activating enzyme (AAE) consensus motif; other site 1230587005102 active site 1230587005103 AMP binding site [chemical binding]; other site 1230587005104 CoA binding site [chemical binding]; other site 1230587005105 transcription elongation factor regulatory protein; Validated; Region: PRK06342 1230587005106 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1230587005107 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1230587005108 RNA polymerase sigma factor; Provisional; Region: PRK12547 1230587005109 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587005110 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 1230587005111 DNA binding residues [nucleotide binding] 1230587005112 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 1230587005113 active site 1230587005114 catalytic triad [active] 1230587005115 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 1230587005116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3865 1230587005117 active site 1230587005118 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 1230587005119 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587005120 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587005121 metal binding site [ion binding]; metal-binding site 1230587005122 active site 1230587005123 I-site; other site 1230587005124 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 1230587005125 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1230587005126 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1230587005127 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 1230587005128 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1230587005129 putative di-iron ligands [ion binding]; other site 1230587005130 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 1230587005131 DNA-binding site [nucleotide binding]; DNA binding site 1230587005132 RNA-binding motif; other site 1230587005133 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 1230587005134 oligomerisation interface [polypeptide binding]; other site 1230587005135 mobile loop; other site 1230587005136 roof hairpin; other site 1230587005137 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 1230587005138 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 1230587005139 ring oligomerisation interface [polypeptide binding]; other site 1230587005140 ATP/Mg binding site [chemical binding]; other site 1230587005141 stacking interactions; other site 1230587005142 hinge regions; other site 1230587005143 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1230587005144 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1230587005145 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1230587005146 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 1230587005147 HSP70 interaction site [polypeptide binding]; other site 1230587005148 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1230587005149 substrate binding site [polypeptide binding]; other site 1230587005150 dimer interface [polypeptide binding]; other site 1230587005151 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 1230587005152 active site 1230587005153 phosphorylation site [posttranslational modification] 1230587005154 intermolecular recognition site; other site 1230587005155 dimerization interface [polypeptide binding]; other site 1230587005156 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 1230587005157 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587005158 putative active site [active] 1230587005159 heme pocket [chemical binding]; other site 1230587005160 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 1230587005161 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587005162 putative active site [active] 1230587005163 heme pocket [chemical binding]; other site 1230587005164 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 1230587005165 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587005166 putative active site [active] 1230587005167 heme pocket [chemical binding]; other site 1230587005168 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 1230587005169 putative active site [active] 1230587005170 heme pocket [chemical binding]; other site 1230587005171 PAS domain S-box; Region: sensory_box; TIGR00229 1230587005172 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 1230587005173 putative active site [active] 1230587005174 heme pocket [chemical binding]; other site 1230587005175 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1230587005176 HWE histidine kinase; Region: HWE_HK; pfam07536 1230587005177 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587005178 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1230587005179 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587005180 Walker A/P-loop; other site 1230587005181 ATP binding site [chemical binding]; other site 1230587005182 Q-loop/lid; other site 1230587005183 ABC transporter signature motif; other site 1230587005184 Walker B; other site 1230587005185 D-loop; other site 1230587005186 H-loop/switch region; other site 1230587005187 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587005188 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1230587005189 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587005190 Walker A/P-loop; other site 1230587005191 ATP binding site [chemical binding]; other site 1230587005192 Q-loop/lid; other site 1230587005193 ABC transporter signature motif; other site 1230587005194 Walker B; other site 1230587005195 D-loop; other site 1230587005196 H-loop/switch region; other site 1230587005197 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587005198 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587005199 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587005200 dimer interface [polypeptide binding]; other site 1230587005201 conserved gate region; other site 1230587005202 putative PBP binding loops; other site 1230587005203 ABC-ATPase subunit interface; other site 1230587005204 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587005205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587005206 dimer interface [polypeptide binding]; other site 1230587005207 conserved gate region; other site 1230587005208 putative PBP binding loops; other site 1230587005209 ABC-ATPase subunit interface; other site 1230587005210 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 1230587005211 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587005212 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1230587005213 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 1230587005214 active site 1230587005215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587005216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587005217 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1230587005218 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 1230587005219 homodimer interface [polypeptide binding]; other site 1230587005220 homotetramer interface [polypeptide binding]; other site 1230587005221 active site pocket [active] 1230587005222 cleavage site 1230587005223 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1230587005224 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1230587005225 homodimer interface [polypeptide binding]; other site 1230587005226 substrate-cofactor binding pocket; other site 1230587005227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587005228 catalytic residue [active] 1230587005229 BA14K-like protein; Region: BA14K; pfam07886 1230587005230 BA14K-like protein; Region: BA14K; pfam07886 1230587005231 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 1230587005232 homotrimer interaction site [polypeptide binding]; other site 1230587005233 putative active site [active] 1230587005234 EthD domain; Region: EthD; cl17553 1230587005235 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1230587005236 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1230587005237 putative ligand binding site [chemical binding]; other site 1230587005238 NAD binding site [chemical binding]; other site 1230587005239 catalytic site [active] 1230587005240 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587005241 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587005242 Walker A/P-loop; other site 1230587005243 ATP binding site [chemical binding]; other site 1230587005244 Q-loop/lid; other site 1230587005245 ABC transporter signature motif; other site 1230587005246 Walker B; other site 1230587005247 D-loop; other site 1230587005248 H-loop/switch region; other site 1230587005249 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587005250 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 1230587005251 substrate binding pocket [chemical binding]; other site 1230587005252 membrane-bound complex binding site; other site 1230587005253 hinge residues; other site 1230587005254 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587005255 ABC-ATPase subunit interface; other site 1230587005256 putative PBP binding loops; other site 1230587005257 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587005258 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587005259 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587005260 dimer interface [polypeptide binding]; other site 1230587005261 conserved gate region; other site 1230587005262 putative PBP binding loops; other site 1230587005263 ABC-ATPase subunit interface; other site 1230587005264 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587005265 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587005266 DNA binding site [nucleotide binding] 1230587005267 domain linker motif; other site 1230587005268 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 1230587005269 putative dimerization interface [polypeptide binding]; other site 1230587005270 putative ligand binding site [chemical binding]; other site 1230587005271 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1230587005272 active site 1230587005273 catalytic residues [active] 1230587005274 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1230587005275 classical (c) SDRs; Region: SDR_c; cd05233 1230587005276 NAD(P) binding site [chemical binding]; other site 1230587005277 active site 1230587005278 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1230587005279 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587005280 Walker A/P-loop; other site 1230587005281 ATP binding site [chemical binding]; other site 1230587005282 Q-loop/lid; other site 1230587005283 ABC transporter signature motif; other site 1230587005284 Walker B; other site 1230587005285 D-loop; other site 1230587005286 H-loop/switch region; other site 1230587005287 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 1230587005288 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587005289 TM-ABC transporter signature motif; other site 1230587005290 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587005291 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1230587005292 putative ligand binding site [chemical binding]; other site 1230587005293 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587005294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587005295 DNA-binding site [nucleotide binding]; DNA binding site 1230587005296 FCD domain; Region: FCD; pfam07729 1230587005297 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1230587005298 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 1230587005299 active site pocket [active] 1230587005300 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587005301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587005302 DNA-binding site [nucleotide binding]; DNA binding site 1230587005303 FCD domain; Region: FCD; pfam07729 1230587005304 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587005305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587005306 DNA-binding site [nucleotide binding]; DNA binding site 1230587005307 FCD domain; Region: FCD; pfam07729 1230587005308 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1230587005309 aldose dehydrogenase; Validated; Region: PRK06398 1230587005310 classical (c) SDRs; Region: SDR_c; cd05233 1230587005311 NAD(P) binding site [chemical binding]; other site 1230587005312 active site 1230587005313 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 1230587005314 dimerization interface [polypeptide binding]; other site 1230587005315 putative active cleft [active] 1230587005316 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1230587005317 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1230587005318 metal binding site [ion binding]; metal-binding site 1230587005319 substrate binding pocket [chemical binding]; other site 1230587005320 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 1230587005321 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1230587005322 active site 1230587005323 zinc binding site [ion binding]; other site 1230587005324 Uncharacterized conserved protein (DUF2277); Region: DUF2277; pfam10041 1230587005325 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1230587005326 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587005327 putative NAD(P) binding site [chemical binding]; other site 1230587005328 transcriptional regulator; Provisional; Region: PRK10632 1230587005329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587005330 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1230587005331 putative effector binding pocket; other site 1230587005332 putative dimerization interface [polypeptide binding]; other site 1230587005333 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1230587005334 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587005335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587005336 Walker A/P-loop; other site 1230587005337 ATP binding site [chemical binding]; other site 1230587005338 Q-loop/lid; other site 1230587005339 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587005340 ABC transporter signature motif; other site 1230587005341 Walker B; other site 1230587005342 D-loop; other site 1230587005343 ABC transporter; Region: ABC_tran_2; pfam12848 1230587005344 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587005345 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 1230587005346 active site 1230587005347 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587005348 selenophosphate synthetase; Provisional; Region: PRK00943 1230587005349 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1230587005350 dimerization interface [polypeptide binding]; other site 1230587005351 putative ATP binding site [chemical binding]; other site 1230587005352 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1230587005353 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1230587005354 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 1230587005355 DNA binding site [nucleotide binding] 1230587005356 active site 1230587005357 Int/Topo IB signature motif; other site 1230587005358 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 1230587005359 active site 1230587005360 phosphorylation site [posttranslational modification] 1230587005361 intermolecular recognition site; other site 1230587005362 dimerization interface [polypeptide binding]; other site 1230587005363 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 1230587005364 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1230587005365 DNA binding site [nucleotide binding] 1230587005366 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 1230587005367 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1230587005368 G1 box; other site 1230587005369 putative GEF interaction site [polypeptide binding]; other site 1230587005370 GTP/Mg2+ binding site [chemical binding]; other site 1230587005371 Switch I region; other site 1230587005372 G2 box; other site 1230587005373 G3 box; other site 1230587005374 Switch II region; other site 1230587005375 G4 box; other site 1230587005376 G5 box; other site 1230587005377 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1230587005378 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1230587005379 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1230587005380 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1230587005381 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1230587005382 Sel1-like repeats; Region: SEL1; smart00671 1230587005383 Sel1-like repeats; Region: SEL1; smart00671 1230587005384 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 1230587005385 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1230587005386 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1230587005387 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587005388 catalytic residue [active] 1230587005389 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 1230587005390 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1230587005391 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1230587005392 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1230587005393 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1230587005394 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 1230587005395 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1230587005396 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 1230587005397 molybdopterin cofactor binding site; other site 1230587005398 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1230587005399 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1230587005400 molybdopterin cofactor binding site; other site 1230587005401 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 1230587005402 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1230587005403 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1230587005404 Bacterial dnaA protein; Region: Bac_DnaA; pfam00308 1230587005405 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 1230587005406 DnaA box-binding interface [nucleotide binding]; other site 1230587005407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1230587005408 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1230587005409 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587005410 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1230587005411 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1230587005412 putative hydrophobic ligand binding site [chemical binding]; other site 1230587005413 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1230587005414 SnoaL-like domain; Region: SnoaL_3; pfam13474 1230587005415 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 1230587005416 putative dimer interface [polypeptide binding]; other site 1230587005417 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587005418 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1230587005419 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 1230587005420 FeS/SAM binding site; other site 1230587005421 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 1230587005422 active site 1230587005423 dimerization interface [polypeptide binding]; other site 1230587005424 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 1230587005425 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587005426 active site 1230587005427 ribonuclease PH; Reviewed; Region: rph; PRK00173 1230587005428 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1230587005429 hexamer interface [polypeptide binding]; other site 1230587005430 active site 1230587005431 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1230587005432 heat shock protein GrpE; Provisional; Region: PRK14141 1230587005433 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 1230587005434 dimer interface [polypeptide binding]; other site 1230587005435 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1230587005436 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 1230587005437 active site 1230587005438 phosphorylation site [posttranslational modification] 1230587005439 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 1230587005440 30S subunit binding site; other site 1230587005441 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1230587005442 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1230587005443 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1230587005444 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1230587005445 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1230587005446 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1230587005447 Walker A/P-loop; other site 1230587005448 ATP binding site [chemical binding]; other site 1230587005449 Q-loop/lid; other site 1230587005450 ABC transporter signature motif; other site 1230587005451 Walker B; other site 1230587005452 D-loop; other site 1230587005453 H-loop/switch region; other site 1230587005454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 1230587005455 OstA-like protein; Region: OstA; pfam03968 1230587005456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1230587005457 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1230587005458 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1230587005459 tandem repeat interface [polypeptide binding]; other site 1230587005460 oligomer interface [polypeptide binding]; other site 1230587005461 active site residues [active] 1230587005462 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 1230587005463 IHF dimer interface [polypeptide binding]; other site 1230587005464 IHF - DNA interface [nucleotide binding]; other site 1230587005465 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1230587005466 putative hydrophobic ligand binding site [chemical binding]; other site 1230587005467 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1230587005468 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 1230587005469 S-adenosylmethionine binding site [chemical binding]; other site 1230587005470 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1230587005471 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1230587005472 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1230587005473 lipoprotein signal peptidase; Provisional; Region: PRK14795 1230587005474 PAS domain; Region: PAS_9; pfam13426 1230587005475 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587005476 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 1230587005477 dimer interface [polypeptide binding]; other site 1230587005478 phosphorylation site [posttranslational modification] 1230587005479 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 1230587005480 ATP binding site [chemical binding]; other site 1230587005481 Mg2+ binding site [ion binding]; other site 1230587005482 G-X-G motif; other site 1230587005483 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587005484 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 1230587005485 active site 1230587005486 phosphorylation site [posttranslational modification] 1230587005487 intermolecular recognition site; other site 1230587005488 dimerization interface [polypeptide binding]; other site 1230587005489 Putative hemolysin [General function prediction only]; Region: COG3176 1230587005490 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1230587005491 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1230587005492 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1230587005493 putative NAD(P) binding site [chemical binding]; other site 1230587005494 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1230587005495 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1230587005496 MutS domain I; Region: MutS_I; pfam01624 1230587005497 MutS domain II; Region: MutS_II; pfam05188 1230587005498 MutS domain III; Region: MutS_III; pfam05192 1230587005499 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1230587005500 Walker A/P-loop; other site 1230587005501 ATP binding site [chemical binding]; other site 1230587005502 Q-loop/lid; other site 1230587005503 ABC transporter signature motif; other site 1230587005504 Walker B; other site 1230587005505 D-loop; other site 1230587005506 H-loop/switch region; other site 1230587005507 PII uridylyl-transferase; Provisional; Region: PRK05092 1230587005508 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1230587005509 metal binding triad; other site 1230587005510 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1230587005511 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1230587005512 Zn2+ binding site [ion binding]; other site 1230587005513 Mg2+ binding site [ion binding]; other site 1230587005514 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1230587005515 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 1230587005516 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1230587005517 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1230587005518 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587005519 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1230587005520 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1230587005521 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1230587005522 active site 1230587005523 HIGH motif; other site 1230587005524 dimer interface [polypeptide binding]; other site 1230587005525 KMSKS motif; other site 1230587005526 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 1230587005527 Ligand Binding Site [chemical binding]; other site 1230587005528 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1230587005529 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1230587005530 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1230587005531 Glycoprotease family; Region: Peptidase_M22; pfam00814 1230587005532 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1230587005533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587005534 Coenzyme A binding pocket [chemical binding]; other site 1230587005535 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1230587005536 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1230587005537 putative acyl-acceptor binding pocket; other site 1230587005538 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1230587005539 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1230587005540 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 1230587005541 FeS/SAM binding site; other site 1230587005542 TRAM domain; Region: TRAM; pfam01938 1230587005543 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1230587005544 PhoH-like protein; Region: PhoH; pfam02562 1230587005545 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1230587005546 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1230587005547 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 1230587005548 Transporter associated domain; Region: CorC_HlyC; smart01091 1230587005549 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1230587005550 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1230587005551 putative active site [active] 1230587005552 catalytic triad [active] 1230587005553 putative dimer interface [polypeptide binding]; other site 1230587005554 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1230587005555 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 1230587005556 non-specific DNA binding site [nucleotide binding]; other site 1230587005557 salt bridge; other site 1230587005558 sequence-specific DNA binding site [nucleotide binding]; other site 1230587005559 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1230587005560 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1230587005561 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1230587005562 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1230587005563 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1230587005564 Uncharacterized small protein [Function unknown]; Region: COG5568 1230587005565 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1230587005566 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 1230587005567 putative dimer interface [polypeptide binding]; other site 1230587005568 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 1230587005569 active site 1230587005570 tetramer interface [polypeptide binding]; other site 1230587005571 Cache domain; Region: Cache_1; pfam02743 1230587005572 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1230587005573 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1230587005574 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1230587005575 dimer interface [polypeptide binding]; other site 1230587005576 putative CheW interface [polypeptide binding]; other site 1230587005577 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587005578 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 1230587005579 substrate binding site [chemical binding]; other site 1230587005580 dimer interface [polypeptide binding]; other site 1230587005581 ATP binding site [chemical binding]; other site 1230587005582 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1230587005583 RmuC family; Region: RmuC; pfam02646 1230587005584 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 1230587005585 active site 1230587005586 catalytic residues [active] 1230587005587 metal binding site [ion binding]; metal-binding site 1230587005588 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1230587005589 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1230587005590 putative active site [active] 1230587005591 substrate binding site [chemical binding]; other site 1230587005592 putative cosubstrate binding site; other site 1230587005593 catalytic site [active] 1230587005594 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1230587005595 substrate binding site [chemical binding]; other site 1230587005596 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1230587005597 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1230587005598 dimerization interface 3.5A [polypeptide binding]; other site 1230587005599 active site 1230587005600 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1230587005601 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1230587005602 metal binding site [ion binding]; metal-binding site 1230587005603 dimer interface [polypeptide binding]; other site 1230587005604 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1230587005605 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1230587005606 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587005607 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587005608 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1230587005609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587005610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587005611 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1230587005612 putative effector binding pocket; other site 1230587005613 putative dimerization interface [polypeptide binding]; other site 1230587005614 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1230587005615 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 1230587005616 ATP binding site [chemical binding]; other site 1230587005617 putative Mg++ binding site [ion binding]; other site 1230587005618 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 1230587005619 nucleotide binding region [chemical binding]; other site 1230587005620 ATP-binding site [chemical binding]; other site 1230587005621 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1230587005622 RNA binding site [nucleotide binding]; other site 1230587005623 Predicted membrane protein [Function unknown]; Region: COG3152 1230587005624 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1230587005625 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 1230587005626 trimer interface [polypeptide binding]; other site 1230587005627 active site 1230587005628 substrate binding site [chemical binding]; other site 1230587005629 CoA binding site [chemical binding]; other site 1230587005630 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1230587005631 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1230587005632 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1230587005633 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1230587005634 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1230587005635 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 1230587005636 DNA binding site [nucleotide binding] 1230587005637 active site 1230587005638 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1230587005639 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 1230587005640 tetramer interface [polypeptide binding]; other site 1230587005641 active site 1230587005642 Mg2+/Mn2+ binding site [ion binding]; other site 1230587005643 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 1230587005644 homohexameric interface [polypeptide binding]; other site 1230587005645 feedback inhibition sensing region; other site 1230587005646 carbamate kinase; Reviewed; Region: PRK12686 1230587005647 nucleotide binding site [chemical binding]; other site 1230587005648 N-acetyl-L-glutamate binding site [chemical binding]; other site 1230587005649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1230587005650 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1230587005651 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1230587005652 SelR domain; Region: SelR; pfam01641 1230587005653 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 1230587005654 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1230587005655 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1230587005656 G1 box; other site 1230587005657 GTP/Mg2+ binding site [chemical binding]; other site 1230587005658 Switch I region; other site 1230587005659 G2 box; other site 1230587005660 G3 box; other site 1230587005661 Switch II region; other site 1230587005662 G4 box; other site 1230587005663 G5 box; other site 1230587005664 membrane protein insertase; Provisional; Region: PRK01318 1230587005665 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1230587005666 ribonuclease P; Reviewed; Region: rnpA; PRK01313 1230587005667 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 1230587005668 dimerization interface [polypeptide binding]; other site 1230587005669 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1230587005670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1230587005671 dimer interface [polypeptide binding]; other site 1230587005672 putative CheW interface [polypeptide binding]; other site 1230587005673 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1230587005674 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1230587005675 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1230587005676 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587005677 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1230587005678 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587005679 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 1230587005680 ATP binding site [chemical binding]; other site 1230587005681 Mg2+ binding site [ion binding]; other site 1230587005682 G-X-G motif; other site 1230587005683 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1230587005684 AAA domain; Region: AAA_25; pfam13481 1230587005685 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 1230587005686 Walker A motif; other site 1230587005687 ATP binding site [chemical binding]; other site 1230587005688 Walker B motif; other site 1230587005689 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1230587005690 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1230587005691 Phage capsid family; Region: Phage_capsid; pfam05065 1230587005692 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 1230587005693 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587005694 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 1230587005695 active site 1230587005696 phosphorylation site [posttranslational modification] 1230587005697 intermolecular recognition site; other site 1230587005698 dimerization interface [polypeptide binding]; other site 1230587005699 integrase; Provisional; Region: PRK09692 1230587005700 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 1230587005701 active site 1230587005702 Int/Topo IB signature motif; other site 1230587005703 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 1230587005704 Protein of unknown function (DUF497); Region: DUF497; cl01108 1230587005705 replicative DNA helicase; Provisional; Region: PRK05973 1230587005706 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 1230587005707 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1230587005708 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587005709 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1230587005710 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 1230587005711 homotrimer interaction site [polypeptide binding]; other site 1230587005712 putative active site [active] 1230587005713 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1230587005714 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 1230587005715 phosphate binding site [ion binding]; other site 1230587005716 Domain of unknown function DUF11; Region: DUF11; cl17728 1230587005717 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 1230587005718 Domain of unknown function DUF11; Region: DUF11; cl17728 1230587005719 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1230587005720 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1230587005721 trimer interface [polypeptide binding]; other site 1230587005722 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1230587005723 trimer interface [polypeptide binding]; other site 1230587005724 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1230587005725 Haemagglutinin; Region: HIM; pfam05662 1230587005726 Haemagglutinin; Region: HIM; pfam05662 1230587005727 Haemagglutinin; Region: HIM; pfam05662 1230587005728 YadA-like C-terminal region; Region: YadA; pfam03895 1230587005729 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1230587005730 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1230587005731 putative deacylase active site [active] 1230587005732 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1230587005733 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 1230587005734 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 1230587005735 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587005736 active site 1230587005737 catalytic tetrad [active] 1230587005738 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1230587005739 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1230587005740 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1230587005741 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1230587005742 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1230587005743 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1230587005744 Glutamate binding site [chemical binding]; other site 1230587005745 NAD binding site [chemical binding]; other site 1230587005746 catalytic residues [active] 1230587005747 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587005748 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1230587005749 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1230587005750 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1230587005751 active site 1230587005752 metal binding site [ion binding]; metal-binding site 1230587005753 hexamer interface [polypeptide binding]; other site 1230587005754 FecR protein; Region: FecR; pfam04773 1230587005755 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1230587005756 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 1230587005757 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587005758 cyclase homology domain; Region: CHD; cd07302 1230587005759 nucleotidyl binding site; other site 1230587005760 metal binding site [ion binding]; metal-binding site 1230587005761 dimer interface [polypeptide binding]; other site 1230587005762 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1230587005763 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 1230587005764 ligand binding site [chemical binding]; other site 1230587005765 flexible hinge region; other site 1230587005766 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1230587005767 putative switch regulator; other site 1230587005768 non-specific DNA interactions [nucleotide binding]; other site 1230587005769 DNA binding site [nucleotide binding] 1230587005770 sequence specific DNA binding site [nucleotide binding]; other site 1230587005771 putative cAMP binding site [chemical binding]; other site 1230587005772 Predicted membrane protein [Function unknown]; Region: COG2259 1230587005773 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1230587005774 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 1230587005775 non-specific DNA interactions [nucleotide binding]; other site 1230587005776 DNA binding site [nucleotide binding] 1230587005777 sequence specific DNA binding site [nucleotide binding]; other site 1230587005778 putative cAMP binding site [chemical binding]; other site 1230587005779 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1230587005780 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1230587005781 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587005782 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1230587005783 ligand binding site [chemical binding]; other site 1230587005784 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587005785 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 1230587005786 TM-ABC transporter signature motif; other site 1230587005787 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587005788 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587005789 Walker A/P-loop; other site 1230587005790 ATP binding site [chemical binding]; other site 1230587005791 Q-loop/lid; other site 1230587005792 ABC transporter signature motif; other site 1230587005793 Walker B; other site 1230587005794 D-loop; other site 1230587005795 H-loop/switch region; other site 1230587005796 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 1230587005797 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 1230587005798 active site 1230587005799 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1230587005800 active site 1230587005801 substrate binding pocket [chemical binding]; other site 1230587005802 dimer interface [polypeptide binding]; other site 1230587005803 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1230587005804 active site 1230587005805 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587005806 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 1230587005807 putative substrate binding site [chemical binding]; other site 1230587005808 putative ATP binding site [chemical binding]; other site 1230587005809 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1230587005810 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 1230587005811 active site 1230587005812 dimer interface [polypeptide binding]; other site 1230587005813 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 1230587005814 dimer interface [polypeptide binding]; other site 1230587005815 active site 1230587005816 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1230587005817 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1230587005818 acyl-activating enzyme (AAE) consensus motif; other site 1230587005819 putative AMP binding site [chemical binding]; other site 1230587005820 putative active site [active] 1230587005821 putative CoA binding site [chemical binding]; other site 1230587005822 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1230587005823 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 1230587005824 putative substrate translocation pore; other site 1230587005825 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1230587005826 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1230587005827 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1230587005828 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1230587005829 putative acyl-acceptor binding pocket; other site 1230587005830 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1230587005831 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1230587005832 Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]; Region: AcfC; COG4588 1230587005833 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1230587005834 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1230587005835 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 1230587005836 FMN binding site [chemical binding]; other site 1230587005837 substrate binding site [chemical binding]; other site 1230587005838 putative catalytic residue [active] 1230587005839 Uncharacterized conserved protein [Function unknown]; Region: COG2326 1230587005840 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1230587005841 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 1230587005842 dimer interface [polypeptide binding]; other site 1230587005843 phosphorylation site [posttranslational modification] 1230587005844 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 1230587005845 ATP binding site [chemical binding]; other site 1230587005846 Mg2+ binding site [ion binding]; other site 1230587005847 G-X-G motif; other site 1230587005848 PBP superfamily domain; Region: PBP_like_2; pfam12849 1230587005849 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1230587005850 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1230587005851 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587005852 dimer interface [polypeptide binding]; other site 1230587005853 conserved gate region; other site 1230587005854 putative PBP binding loops; other site 1230587005855 ABC-ATPase subunit interface; other site 1230587005856 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1230587005857 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1230587005858 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587005859 dimer interface [polypeptide binding]; other site 1230587005860 conserved gate region; other site 1230587005861 putative PBP binding loops; other site 1230587005862 ABC-ATPase subunit interface; other site 1230587005863 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1230587005864 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1230587005865 Walker A/P-loop; other site 1230587005866 ATP binding site [chemical binding]; other site 1230587005867 Q-loop/lid; other site 1230587005868 ABC transporter signature motif; other site 1230587005869 Walker B; other site 1230587005870 D-loop; other site 1230587005871 H-loop/switch region; other site 1230587005872 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1230587005873 PhoU domain; Region: PhoU; pfam01895 1230587005874 PhoU domain; Region: PhoU; pfam01895 1230587005875 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1230587005876 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 1230587005877 active site 1230587005878 phosphorylation site [posttranslational modification] 1230587005879 intermolecular recognition site; other site 1230587005880 dimerization interface [polypeptide binding]; other site 1230587005881 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 1230587005882 DNA binding site [nucleotide binding] 1230587005883 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 1230587005884 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1230587005885 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 1230587005886 inhibitor-cofactor binding pocket; inhibition site 1230587005887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587005888 catalytic residue [active] 1230587005889 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1230587005890 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1230587005891 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1230587005892 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1230587005893 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 1230587005894 dimerization interface [polypeptide binding]; other site 1230587005895 domain crossover interface; other site 1230587005896 redox-dependent activation switch; other site 1230587005897 Uncharacterized protein affecting Mg2+/Co2+ transport [Inorganic ion transport and metabolism]; Region: ApaG; COG2967 1230587005898 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1230587005899 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 1230587005900 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 1230587005901 homodimer interface [polypeptide binding]; other site 1230587005902 substrate-cofactor binding pocket; other site 1230587005903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587005904 catalytic residue [active] 1230587005905 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 1230587005906 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1230587005907 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1230587005908 trimer interface [polypeptide binding]; other site 1230587005909 active site 1230587005910 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 1230587005911 trimer interface [polypeptide binding]; other site 1230587005912 active site 1230587005913 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587005914 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 1230587005915 substrate binding pocket [chemical binding]; other site 1230587005916 membrane-bound complex binding site; other site 1230587005917 hinge residues; other site 1230587005918 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1230587005919 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1230587005920 tellurite resistance protein terB; Region: terB; cd07176 1230587005921 putative metal binding site [ion binding]; other site 1230587005922 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1230587005923 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1230587005924 Predicted transcriptional regulator [Transcription]; Region: COG2932 1230587005925 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 1230587005926 Catalytic site [active] 1230587005927 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1230587005928 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1230587005929 Predicted transcriptional regulators [Transcription]; Region: COG1733 1230587005930 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1230587005931 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 1230587005932 putative hydrophobic ligand binding site [chemical binding]; other site 1230587005933 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1230587005934 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 1230587005935 substrate binding site [chemical binding]; other site 1230587005936 oxyanion hole (OAH) forming residues; other site 1230587005937 trimer interface [polypeptide binding]; other site 1230587005938 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1230587005939 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1230587005940 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1230587005941 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1230587005942 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 1230587005943 dimer interface [polypeptide binding]; other site 1230587005944 active site 1230587005945 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1230587005946 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1230587005947 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1230587005948 FAD binding site [chemical binding]; other site 1230587005949 substrate binding site [chemical binding]; other site 1230587005950 catalytic residues [active] 1230587005951 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1230587005952 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1230587005953 Sel1 repeat; Region: Sel1; pfam08238 1230587005954 Sel1-like repeats; Region: SEL1; smart00671 1230587005955 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1230587005956 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587005957 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1230587005958 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 1230587005959 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587005960 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587005961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1230587005962 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587005963 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587005964 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1230587005965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1230587005966 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1230587005967 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1230587005968 putative active site [active] 1230587005969 putative metal binding site [ion binding]; other site 1230587005970 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1230587005971 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 1230587005972 ATP binding site [chemical binding]; other site 1230587005973 putative Mg++ binding site [ion binding]; other site 1230587005974 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 1230587005975 nucleotide binding region [chemical binding]; other site 1230587005976 ATP-binding site [chemical binding]; other site 1230587005977 DEAD/H associated; Region: DEAD_assoc; pfam08494 1230587005978 Predicted transcriptional regulator [Transcription]; Region: COG1959 1230587005979 Transcriptional regulator; Region: Rrf2; pfam02082 1230587005980 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1230587005981 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1230587005982 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1230587005983 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1230587005984 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1230587005985 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 1230587005986 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 1230587005987 S-adenosylmethionine binding site [chemical binding]; other site 1230587005988 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1230587005989 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 1230587005990 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1230587005991 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1230587005992 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1230587005993 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 1230587005994 quinone interaction residues [chemical binding]; other site 1230587005995 active site 1230587005996 catalytic residues [active] 1230587005997 FMN binding site [chemical binding]; other site 1230587005998 substrate binding site [chemical binding]; other site 1230587005999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 1230587006000 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587006001 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 1230587006002 active site 1230587006003 phosphorylation site [posttranslational modification] 1230587006004 intermolecular recognition site; other site 1230587006005 dimerization interface [polypeptide binding]; other site 1230587006006 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 1230587006007 DNA binding residues [nucleotide binding] 1230587006008 dimerization interface [polypeptide binding]; other site 1230587006009 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1230587006010 Na binding site [ion binding]; other site 1230587006011 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587006012 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 1230587006013 dimer interface [polypeptide binding]; other site 1230587006014 phosphorylation site [posttranslational modification] 1230587006015 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 1230587006016 ATP binding site [chemical binding]; other site 1230587006017 Mg2+ binding site [ion binding]; other site 1230587006018 G-X-G motif; other site 1230587006019 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587006020 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 1230587006021 active site 1230587006022 phosphorylation site [posttranslational modification] 1230587006023 intermolecular recognition site; other site 1230587006024 dimerization interface [polypeptide binding]; other site 1230587006025 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1230587006026 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1230587006027 aspartate aminotransferase; Provisional; Region: PRK06108 1230587006028 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 1230587006029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587006030 homodimer interface [polypeptide binding]; other site 1230587006031 catalytic residue [active] 1230587006032 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1230587006033 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1230587006034 NAD binding site [chemical binding]; other site 1230587006035 homodimer interface [polypeptide binding]; other site 1230587006036 active site 1230587006037 substrate binding site [chemical binding]; other site 1230587006038 chorismate mutase related enzymes; Region: CM-like; TIGR01803 1230587006039 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1230587006040 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1230587006041 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1230587006042 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1230587006043 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1230587006044 metal binding site [ion binding]; metal-binding site 1230587006045 putative dimer interface [polypeptide binding]; other site 1230587006046 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587006047 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006048 dimer interface [polypeptide binding]; other site 1230587006049 conserved gate region; other site 1230587006050 putative PBP binding loops; other site 1230587006051 ABC-ATPase subunit interface; other site 1230587006052 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587006053 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006054 dimer interface [polypeptide binding]; other site 1230587006055 conserved gate region; other site 1230587006056 putative PBP binding loops; other site 1230587006057 ABC-ATPase subunit interface; other site 1230587006058 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 1230587006059 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587006060 substrate binding pocket [chemical binding]; other site 1230587006061 membrane-bound complex binding site; other site 1230587006062 hinge residues; other site 1230587006063 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1230587006064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587006065 Walker A/P-loop; other site 1230587006066 ATP binding site [chemical binding]; other site 1230587006067 Q-loop/lid; other site 1230587006068 ABC transporter signature motif; other site 1230587006069 Walker B; other site 1230587006070 D-loop; other site 1230587006071 H-loop/switch region; other site 1230587006072 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1230587006073 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587006074 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1230587006075 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1230587006076 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 1230587006077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587006078 homodimer interface [polypeptide binding]; other site 1230587006079 catalytic residue [active] 1230587006080 hypothetical protein; Provisional; Region: PRK07524 1230587006081 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587006082 PYR/PP interface [polypeptide binding]; other site 1230587006083 dimer interface [polypeptide binding]; other site 1230587006084 TPP binding site [chemical binding]; other site 1230587006085 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587006086 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 1230587006087 TPP-binding site [chemical binding]; other site 1230587006088 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1230587006089 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1230587006090 Protein export membrane protein; Region: SecD_SecF; pfam02355 1230587006091 Predicted transcriptional regulator [Transcription]; Region: COG1959 1230587006092 Transcriptional regulator; Region: Rrf2; pfam02082 1230587006093 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1230587006094 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 1230587006095 putative active site [active] 1230587006096 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 1230587006097 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1230587006098 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1230587006099 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1230587006100 Sulfatase; Region: Sulfatase; cl17466 1230587006101 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1230587006102 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 1230587006103 putative NAD(P) binding site [chemical binding]; other site 1230587006104 homotetramer interface [polypeptide binding]; other site 1230587006105 active site 1230587006106 homodimer interface [polypeptide binding]; other site 1230587006107 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1230587006108 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 1230587006109 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587006110 catalytic residue [active] 1230587006111 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1230587006112 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1230587006113 active site 1230587006114 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1230587006115 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1230587006116 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1230587006117 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 1230587006118 Enoylreductase; Region: PKS_ER; smart00829 1230587006119 NAD(P) binding site [chemical binding]; other site 1230587006120 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1230587006121 short chain dehydrogenase; Region: adh_short; pfam00106 1230587006122 NAD(P) binding site [chemical binding]; other site 1230587006123 active site 1230587006124 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1230587006125 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1230587006126 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1230587006127 SLBB domain; Region: SLBB; pfam10531 1230587006128 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 1230587006129 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587006130 catalytic triad [active] 1230587006131 metal binding site [ion binding]; metal-binding site 1230587006132 conserved cis-peptide bond; other site 1230587006133 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 1230587006134 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 1230587006135 active site 1230587006136 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1230587006137 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1230587006138 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1230587006139 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1230587006140 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1230587006141 Uncharacterized conserved protein [Function unknown]; Region: COG5569 1230587006142 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587006143 cyclase homology domain; Region: CHD; cd07302 1230587006144 nucleotidyl binding site; other site 1230587006145 metal binding site [ion binding]; metal-binding site 1230587006146 dimer interface [polypeptide binding]; other site 1230587006147 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1230587006148 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 1230587006149 hinge; other site 1230587006150 active site 1230587006151 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 1230587006152 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1230587006153 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 1230587006154 NAD binding site [chemical binding]; other site 1230587006155 dimerization interface [polypeptide binding]; other site 1230587006156 product binding site; other site 1230587006157 substrate binding site [chemical binding]; other site 1230587006158 zinc binding site [ion binding]; other site 1230587006159 catalytic residues [active] 1230587006160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5328 1230587006161 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1230587006162 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1230587006163 active site 1230587006164 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 1230587006165 rRNA binding site [nucleotide binding]; other site 1230587006166 predicted 30S ribosome binding site; other site 1230587006167 Maf-like protein; Region: Maf; pfam02545 1230587006168 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 1230587006169 active site 1230587006170 dimer interface [polypeptide binding]; other site 1230587006171 zinc-binding protein; Provisional; Region: PRK01343 1230587006172 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1230587006173 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1230587006174 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 1230587006175 active site 1230587006176 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 1230587006177 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 1230587006178 putative deacylase active site [active] 1230587006179 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952 1230587006180 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 1230587006181 short chain dehydrogenase; Validated; Region: PRK08324 1230587006182 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 1230587006183 active site 1230587006184 Zn2+ binding site [ion binding]; other site 1230587006185 intersubunit interface [polypeptide binding]; other site 1230587006186 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 1230587006187 putative NAD(P) binding site [chemical binding]; other site 1230587006188 active site 1230587006189 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1230587006190 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1230587006191 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1230587006192 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1230587006193 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 1230587006194 ligand binding site [chemical binding]; other site 1230587006195 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587006196 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587006197 Walker A/P-loop; other site 1230587006198 ATP binding site [chemical binding]; other site 1230587006199 Q-loop/lid; other site 1230587006200 ABC transporter signature motif; other site 1230587006201 Walker B; other site 1230587006202 D-loop; other site 1230587006203 H-loop/switch region; other site 1230587006204 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587006205 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587006206 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 1230587006207 TM-ABC transporter signature motif; other site 1230587006208 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 1230587006209 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587006210 TM-ABC transporter signature motif; other site 1230587006211 Uncharacterized conserved protein [Function unknown]; Region: COG3254 1230587006212 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1230587006213 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 1230587006214 N- and C-terminal domain interface [polypeptide binding]; other site 1230587006215 putative active site [active] 1230587006216 putative MgATP binding site [chemical binding]; other site 1230587006217 putative catalytic site [active] 1230587006218 metal binding site [ion binding]; metal-binding site 1230587006219 putative carbohydrate binding site [chemical binding]; other site 1230587006220 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1230587006221 heme-binding site [chemical binding]; other site 1230587006222 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1230587006223 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1230587006224 dimer interface [polypeptide binding]; other site 1230587006225 putative CheW interface [polypeptide binding]; other site 1230587006226 STAS domain; Region: STAS_2; pfam13466 1230587006227 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587006228 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 1230587006229 active site 1230587006230 phosphorylation site [posttranslational modification] 1230587006231 intermolecular recognition site; other site 1230587006232 dimerization interface [polypeptide binding]; other site 1230587006233 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1230587006234 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1230587006235 putative binding surface; other site 1230587006236 active site 1230587006237 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1230587006238 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 1230587006239 ATP binding site [chemical binding]; other site 1230587006240 Mg2+ binding site [ion binding]; other site 1230587006241 G-X-G motif; other site 1230587006242 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1230587006243 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1230587006244 putative CheA interaction surface; other site 1230587006245 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1230587006246 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1230587006247 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1230587006248 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1230587006249 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 1230587006250 active site 1230587006251 phosphorylation site [posttranslational modification] 1230587006252 intermolecular recognition site; other site 1230587006253 dimerization interface [polypeptide binding]; other site 1230587006254 CheB methylesterase; Region: CheB_methylest; pfam01339 1230587006255 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587006256 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 1230587006257 active site 1230587006258 phosphorylation site [posttranslational modification] 1230587006259 intermolecular recognition site; other site 1230587006260 dimerization interface [polypeptide binding]; other site 1230587006261 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13497 1230587006262 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1230587006263 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1230587006264 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1230587006265 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 1230587006266 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587006267 dimerization interface [polypeptide binding]; other site 1230587006268 DNA binding residues [nucleotide binding] 1230587006269 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587006270 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 1230587006271 DNA binding residues [nucleotide binding] 1230587006272 dimerization interface [polypeptide binding]; other site 1230587006273 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 1230587006274 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1230587006275 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1230587006276 FliG C-terminal domain; Region: FliG_C; pfam01706 1230587006277 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1230587006278 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 1230587006279 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1230587006280 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1230587006281 flagellar motor protein MotA; Validated; Region: PRK09110 1230587006282 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1230587006283 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1230587006284 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 1230587006285 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1230587006286 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1230587006287 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 1230587006288 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 1230587006289 Walker A motif; other site 1230587006290 ATP binding site [chemical binding]; other site 1230587006291 Walker B motif; other site 1230587006292 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 1230587006293 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 1230587006294 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1230587006295 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1230587006296 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 1230587006297 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 1230587006298 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1230587006299 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 1230587006300 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1230587006301 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1230587006302 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1230587006303 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1230587006304 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1230587006305 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1230587006306 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1230587006307 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1230587006308 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1230587006309 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1230587006310 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1230587006311 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1230587006312 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1230587006313 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1230587006314 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1230587006315 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1230587006316 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1230587006317 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1230587006318 flagellin; Reviewed; Region: PRK12687 1230587006319 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1230587006320 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1230587006321 flagellar motor protein MotB; Validated; Region: motB; PRK05996 1230587006322 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1230587006323 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1230587006324 ligand binding site [chemical binding]; other site 1230587006325 chemotaxis protein; Reviewed; Region: PRK12798 1230587006326 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1230587006327 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1230587006328 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 1230587006329 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1230587006330 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587006331 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 1230587006332 DNA binding site [nucleotide binding] 1230587006333 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1230587006334 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1230587006335 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1230587006336 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1230587006337 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 1230587006338 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 1230587006339 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1230587006340 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1230587006341 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 1230587006342 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 1230587006343 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 1230587006344 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 1230587006345 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1230587006346 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 1230587006347 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1230587006348 FHIPEP family; Region: FHIPEP; pfam00771 1230587006349 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1230587006350 Rod binding protein; Region: Rod-binding; pfam10135 1230587006351 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1230587006352 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 1230587006353 active site 1230587006354 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1230587006355 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1230587006356 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1230587006357 homodimer interface [polypeptide binding]; other site 1230587006358 NADP binding site [chemical binding]; other site 1230587006359 substrate binding site [chemical binding]; other site 1230587006360 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587006361 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587006362 DNA binding site [nucleotide binding] 1230587006363 domain linker motif; other site 1230587006364 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 1230587006365 ligand binding site [chemical binding]; other site 1230587006366 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587006367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006368 dimer interface [polypeptide binding]; other site 1230587006369 conserved gate region; other site 1230587006370 putative PBP binding loops; other site 1230587006371 ABC-ATPase subunit interface; other site 1230587006372 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587006373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006374 dimer interface [polypeptide binding]; other site 1230587006375 conserved gate region; other site 1230587006376 putative PBP binding loops; other site 1230587006377 ABC-ATPase subunit interface; other site 1230587006378 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 1230587006379 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1230587006380 active site 1230587006381 catalytic site [active] 1230587006382 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587006383 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587006384 Walker A/P-loop; other site 1230587006385 ATP binding site [chemical binding]; other site 1230587006386 Q-loop/lid; other site 1230587006387 ABC transporter signature motif; other site 1230587006388 Walker B; other site 1230587006389 D-loop; other site 1230587006390 H-loop/switch region; other site 1230587006391 TOBE domain; Region: TOBE_2; pfam08402 1230587006392 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1230587006393 phosphogluconate dehydratase; Validated; Region: PRK09054 1230587006394 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1230587006395 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 1230587006396 putative active site [active] 1230587006397 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1230587006398 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1230587006399 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1230587006400 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587006401 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587006402 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1230587006403 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1230587006404 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1230587006405 Predicted flavoproteins [General function prediction only]; Region: COG2081 1230587006406 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587006407 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 1230587006408 dimerization interface [polypeptide binding]; other site 1230587006409 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1230587006410 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1230587006411 dimer interface [polypeptide binding]; other site 1230587006412 putative CheW interface [polypeptide binding]; other site 1230587006413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587006414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587006415 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1230587006416 Sel1-like repeats; Region: SEL1; smart00671 1230587006417 Sel1 repeat; Region: Sel1; cl02723 1230587006418 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1230587006419 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1230587006420 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1230587006421 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1230587006422 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 1230587006423 putative active site [active] 1230587006424 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1230587006425 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 1230587006426 catalytic residues [active] 1230587006427 catalytic nucleophile [active] 1230587006428 Presynaptic Site I dimer interface [polypeptide binding]; other site 1230587006429 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1230587006430 Synaptic Flat tetramer interface [polypeptide binding]; other site 1230587006431 Synaptic Site I dimer interface [polypeptide binding]; other site 1230587006432 DNA binding site [nucleotide binding] 1230587006433 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; cd00569 1230587006434 DNA-binding interface [nucleotide binding]; DNA binding site 1230587006435 isocitrate lyase; Provisional; Region: PRK15063 1230587006436 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 1230587006437 tetramer interface [polypeptide binding]; other site 1230587006438 active site 1230587006439 Mg2+/Mn2+ binding site [ion binding]; other site 1230587006440 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1230587006441 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 1230587006442 non-specific DNA binding site [nucleotide binding]; other site 1230587006443 salt bridge; other site 1230587006444 sequence-specific DNA binding site [nucleotide binding]; other site 1230587006445 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1230587006446 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1230587006447 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1230587006448 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1230587006449 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587006450 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587006451 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1230587006452 Walker A/P-loop; other site 1230587006453 ATP binding site [chemical binding]; other site 1230587006454 Q-loop/lid; other site 1230587006455 ABC transporter signature motif; other site 1230587006456 Walker B; other site 1230587006457 D-loop; other site 1230587006458 H-loop/switch region; other site 1230587006459 TOBE domain; Region: TOBE_2; pfam08402 1230587006460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006461 dimer interface [polypeptide binding]; other site 1230587006462 conserved gate region; other site 1230587006463 putative PBP binding loops; other site 1230587006464 ABC-ATPase subunit interface; other site 1230587006465 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587006466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006467 dimer interface [polypeptide binding]; other site 1230587006468 conserved gate region; other site 1230587006469 putative PBP binding loops; other site 1230587006470 ABC-ATPase subunit interface; other site 1230587006471 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1230587006472 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1230587006473 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1230587006474 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1230587006475 acyl-activating enzyme (AAE) consensus motif; other site 1230587006476 putative AMP binding site [chemical binding]; other site 1230587006477 putative active site [active] 1230587006478 putative CoA binding site [chemical binding]; other site 1230587006479 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587006480 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006481 dimer interface [polypeptide binding]; other site 1230587006482 conserved gate region; other site 1230587006483 putative PBP binding loops; other site 1230587006484 ABC-ATPase subunit interface; other site 1230587006485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006486 dimer interface [polypeptide binding]; other site 1230587006487 conserved gate region; other site 1230587006488 putative PBP binding loops; other site 1230587006489 ABC-ATPase subunit interface; other site 1230587006490 PAS domain S-box; Region: sensory_box; TIGR00229 1230587006491 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 1230587006492 putative active site [active] 1230587006493 heme pocket [chemical binding]; other site 1230587006494 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587006495 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 1230587006496 dimer interface [polypeptide binding]; other site 1230587006497 phosphorylation site [posttranslational modification] 1230587006498 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 1230587006499 ATP binding site [chemical binding]; other site 1230587006500 Mg2+ binding site [ion binding]; other site 1230587006501 G-X-G motif; other site 1230587006502 Uncharacterized conserved protein [Function unknown]; Region: COG5490 1230587006503 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1230587006504 classical (c) SDRs; Region: SDR_c; cd05233 1230587006505 NAD(P) binding site [chemical binding]; other site 1230587006506 active site 1230587006507 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1230587006508 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587006509 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1230587006510 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587006511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587006512 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 1230587006513 dimerization interface [polypeptide binding]; other site 1230587006514 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1230587006515 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1230587006516 tetrameric interface [polypeptide binding]; other site 1230587006517 NAD binding site [chemical binding]; other site 1230587006518 catalytic residues [active] 1230587006519 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 1230587006520 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1230587006521 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587006522 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587006523 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 1230587006524 Rrf2 family protein; Region: rrf2_super; TIGR00738 1230587006525 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587006526 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1230587006527 peptide binding site [polypeptide binding]; other site 1230587006528 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587006529 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006530 dimer interface [polypeptide binding]; other site 1230587006531 conserved gate region; other site 1230587006532 putative PBP binding loops; other site 1230587006533 ABC-ATPase subunit interface; other site 1230587006534 dipeptide transporter; Provisional; Region: PRK10913 1230587006535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587006536 dimer interface [polypeptide binding]; other site 1230587006537 conserved gate region; other site 1230587006538 putative PBP binding loops; other site 1230587006539 ABC-ATPase subunit interface; other site 1230587006540 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587006541 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1230587006542 Walker A/P-loop; other site 1230587006543 ATP binding site [chemical binding]; other site 1230587006544 Q-loop/lid; other site 1230587006545 ABC transporter signature motif; other site 1230587006546 Walker B; other site 1230587006547 D-loop; other site 1230587006548 H-loop/switch region; other site 1230587006549 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587006550 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587006551 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1230587006552 Walker A/P-loop; other site 1230587006553 ATP binding site [chemical binding]; other site 1230587006554 Q-loop/lid; other site 1230587006555 ABC transporter signature motif; other site 1230587006556 Walker B; other site 1230587006557 D-loop; other site 1230587006558 H-loop/switch region; other site 1230587006559 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587006560 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 1230587006561 homotrimer interaction site [polypeptide binding]; other site 1230587006562 putative active site [active] 1230587006563 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1230587006564 two-component response regulator; Provisional; Region: PRK09191 1230587006565 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1230587006566 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 1230587006567 active site 1230587006568 phosphorylation site [posttranslational modification] 1230587006569 intermolecular recognition site; other site 1230587006570 dimerization interface [polypeptide binding]; other site 1230587006571 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587006572 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587006573 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587006574 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587006575 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587006576 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587006577 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 1230587006578 TM-ABC transporter signature motif; other site 1230587006579 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587006580 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587006581 Walker A/P-loop; other site 1230587006582 ATP binding site [chemical binding]; other site 1230587006583 Q-loop/lid; other site 1230587006584 ABC transporter signature motif; other site 1230587006585 Walker B; other site 1230587006586 D-loop; other site 1230587006587 H-loop/switch region; other site 1230587006588 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1230587006589 acetylornithine deacetylase; Validated; Region: PRK08596 1230587006590 metal binding site [ion binding]; metal-binding site 1230587006591 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1230587006592 MgtC family; Region: MgtC; pfam02308 1230587006593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 1230587006594 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1230587006595 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1230587006596 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1230587006597 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1230587006598 Chromate transporter; Region: Chromate_transp; pfam02417 1230587006599 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1230587006600 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 1230587006601 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 1230587006602 active site 1230587006603 DNA binding site [nucleotide binding] 1230587006604 Int/Topo IB signature motif; other site 1230587006605 Arc-like DNA binding domain; Region: Arc; pfam03869 1230587006606 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 1230587006607 non-specific DNA binding site [nucleotide binding]; other site 1230587006608 salt bridge; other site 1230587006609 sequence-specific DNA binding site [nucleotide binding]; other site 1230587006610 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1230587006611 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1230587006612 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1230587006613 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 1230587006614 S-adenosylmethionine binding site [chemical binding]; other site 1230587006615 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587006616 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 1230587006617 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 1230587006618 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587006619 putative substrate translocation pore; other site 1230587006620 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1230587006621 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1230587006622 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 1230587006623 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 1230587006624 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 1230587006625 active site 1230587006626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5331 1230587006627 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1230587006628 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1230587006629 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587006630 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 1230587006631 dimerization interface [polypeptide binding]; other site 1230587006632 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1230587006633 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1230587006634 tetramer interface [polypeptide binding]; other site 1230587006635 heme binding pocket [chemical binding]; other site 1230587006636 NADPH binding site [chemical binding]; other site 1230587006637 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 1230587006638 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587006639 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 1230587006640 dimerization interface [polypeptide binding]; other site 1230587006641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 1230587006642 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 1230587006643 non-specific DNA binding site [nucleotide binding]; other site 1230587006644 salt bridge; other site 1230587006645 sequence-specific DNA binding site [nucleotide binding]; other site 1230587006646 Uncharacterized conserved protein [Function unknown]; Region: COG5403 1230587006647 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 1230587006648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1230587006649 RNA methyltransferase, RsmE family; Region: TIGR00046 1230587006650 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1230587006651 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1230587006652 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 1230587006653 nudix motif; other site 1230587006654 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587006655 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587006656 DNA-binding site [nucleotide binding]; DNA binding site 1230587006657 FCD domain; Region: FCD; pfam07729 1230587006658 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4949 1230587006659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587006660 transcriptional activator TtdR; Provisional; Region: PRK09801 1230587006661 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 1230587006662 putative effector binding pocket; other site 1230587006663 dimerization interface [polypeptide binding]; other site 1230587006664 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1230587006665 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587006666 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587006667 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1230587006668 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1230587006669 Cysteine-rich domain; Region: CCG; pfam02754 1230587006670 Cysteine-rich domain; Region: CCG; pfam02754 1230587006671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587006672 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587006673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587006674 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587006675 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1230587006676 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 1230587006677 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1230587006678 Na binding site [ion binding]; other site 1230587006679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 1230587006680 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1230587006681 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 1230587006682 dimer interface [polypeptide binding]; other site 1230587006683 motif 1; other site 1230587006684 active site 1230587006685 motif 2; other site 1230587006686 motif 3; other site 1230587006687 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 1230587006688 anticodon binding site; other site 1230587006689 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 1230587006690 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 1230587006691 motif 1; other site 1230587006692 dimer interface [polypeptide binding]; other site 1230587006693 active site 1230587006694 motif 2; other site 1230587006695 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 1230587006696 motif 3; other site 1230587006697 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1230587006698 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 1230587006699 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1230587006700 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 1230587006701 C-terminal domain interface [polypeptide binding]; other site 1230587006702 GSH binding site (G-site) [chemical binding]; other site 1230587006703 dimer interface [polypeptide binding]; other site 1230587006704 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1230587006705 dimer interface [polypeptide binding]; other site 1230587006706 N-terminal domain interface [polypeptide binding]; other site 1230587006707 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1230587006708 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1230587006709 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587006710 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1230587006711 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 1230587006712 ring oligomerisation interface [polypeptide binding]; other site 1230587006713 ATP/Mg binding site [chemical binding]; other site 1230587006714 stacking interactions; other site 1230587006715 hinge regions; other site 1230587006716 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 1230587006717 oligomerisation interface [polypeptide binding]; other site 1230587006718 mobile loop; other site 1230587006719 roof hairpin; other site 1230587006720 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1230587006721 active site residue [active] 1230587006722 Uncharacterized conserved protein [Function unknown]; Region: COG4275 1230587006723 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1230587006724 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1230587006725 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1230587006726 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1230587006727 active site 1230587006728 Riboflavin kinase; Region: Flavokinase; smart00904 1230587006729 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1230587006730 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1230587006731 active site 1230587006732 HIGH motif; other site 1230587006733 nucleotide binding site [chemical binding]; other site 1230587006734 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1230587006735 active site 1230587006736 KMSKS motif; other site 1230587006737 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1230587006738 tRNA binding surface [nucleotide binding]; other site 1230587006739 anticodon binding site; other site 1230587006740 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1230587006741 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587006742 Coenzyme A binding pocket [chemical binding]; other site 1230587006743 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 1230587006744 nucleoside/Zn binding site; other site 1230587006745 dimer interface [polypeptide binding]; other site 1230587006746 catalytic motif [active] 1230587006747 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1230587006748 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 1230587006749 RNA binding surface [nucleotide binding]; other site 1230587006750 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1230587006751 active site 1230587006752 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1230587006753 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 1230587006754 S-adenosylmethionine binding site [chemical binding]; other site 1230587006755 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1230587006756 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1230587006757 nucleophile elbow; other site 1230587006758 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 1230587006759 putative active site [active] 1230587006760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4423 1230587006761 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1230587006762 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1230587006763 TrkA-N domain; Region: TrkA_N; pfam02254 1230587006764 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1230587006765 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587006766 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 1230587006767 active site 1230587006768 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 1230587006769 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1230587006770 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1230587006771 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 1230587006772 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1230587006773 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 1230587006774 motif II; other site 1230587006775 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1230587006776 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1230587006777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 1230587006778 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1230587006779 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 1230587006780 ATP binding site [chemical binding]; other site 1230587006781 Mg2+ binding site [ion binding]; other site 1230587006782 G-X-G motif; other site 1230587006783 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 1230587006784 ATP binding site [chemical binding]; other site 1230587006785 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1230587006786 PAS fold; Region: PAS_4; pfam08448 1230587006787 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 1230587006788 putative active site [active] 1230587006789 heme pocket [chemical binding]; other site 1230587006790 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587006791 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 1230587006792 active site 1230587006793 phosphorylation site [posttranslational modification] 1230587006794 intermolecular recognition site; other site 1230587006795 dimerization interface [polypeptide binding]; other site 1230587006796 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587006797 metal binding site [ion binding]; metal-binding site 1230587006798 active site 1230587006799 I-site; other site 1230587006800 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 1230587006801 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587006802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587006803 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1230587006804 dimerization interface [polypeptide binding]; other site 1230587006805 substrate binding pocket [chemical binding]; other site 1230587006806 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 1230587006807 PRC-barrel domain; Region: PRC; pfam05239 1230587006808 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1230587006809 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1230587006810 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1230587006811 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1230587006812 active site 1230587006813 intersubunit interface [polypeptide binding]; other site 1230587006814 catalytic residue [active] 1230587006815 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1230587006816 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1230587006817 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587006818 classical (c) SDRs; Region: SDR_c; cd05233 1230587006819 NAD(P) binding site [chemical binding]; other site 1230587006820 active site 1230587006821 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587006822 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587006823 transcriptional regulator TraR; Provisional; Region: PRK13870 1230587006824 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1230587006825 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 1230587006826 DNA binding residues [nucleotide binding] 1230587006827 dimerization interface [polypeptide binding]; other site 1230587006828 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 1230587006829 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1230587006830 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 1230587006831 DNA binding residues [nucleotide binding] 1230587006832 dimerization interface [polypeptide binding]; other site 1230587006833 Domain of unknown function DUF59; Region: DUF59; pfam01883 1230587006834 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1230587006835 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 1230587006836 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1230587006837 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1230587006838 Cl binding site [ion binding]; other site 1230587006839 oligomer interface [polypeptide binding]; other site 1230587006840 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1230587006841 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1230587006842 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1230587006843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1230587006844 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1230587006845 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1230587006846 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1230587006847 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 1230587006848 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1230587006849 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 1230587006850 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 1230587006851 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1230587006852 RNA/DNA hybrid binding site [nucleotide binding]; other site 1230587006853 active site 1230587006854 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1230587006855 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 1230587006856 FeS/SAM binding site; other site 1230587006857 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1230587006858 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 1230587006859 active site 1230587006860 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 1230587006861 MPT binding site; other site 1230587006862 trimer interface [polypeptide binding]; other site 1230587006863 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1230587006864 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1230587006865 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1230587006866 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 1230587006867 TPR motif; other site 1230587006868 binding surface 1230587006869 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 1230587006870 binding surface 1230587006871 TPR motif; other site 1230587006872 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 1230587006873 binding surface 1230587006874 TPR motif; other site 1230587006875 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1230587006876 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1230587006877 substrate binding pocket [chemical binding]; other site 1230587006878 chain length determination region; other site 1230587006879 substrate-Mg2+ binding site; other site 1230587006880 catalytic residues [active] 1230587006881 aspartate-rich region 1; other site 1230587006882 active site lid residues [active] 1230587006883 aspartate-rich region 2; other site 1230587006884 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1230587006885 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1230587006886 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 1230587006887 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1230587006888 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1230587006889 tandem repeat interface [polypeptide binding]; other site 1230587006890 oligomer interface [polypeptide binding]; other site 1230587006891 active site residues [active] 1230587006892 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 1230587006893 dimer interface [polypeptide binding]; other site 1230587006894 motif 1; other site 1230587006895 active site 1230587006896 motif 2; other site 1230587006897 motif 3; other site 1230587006898 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1230587006899 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1230587006900 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 1230587006901 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1230587006902 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1230587006903 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1230587006904 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1230587006905 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1230587006906 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1230587006907 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1230587006908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587006909 metal binding site [ion binding]; metal-binding site 1230587006910 active site 1230587006911 I-site; other site 1230587006912 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 1230587006913 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587006914 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587006915 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 1230587006916 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587006917 putative substrate translocation pore; other site 1230587006918 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1230587006919 Helix-turn-helix domain; Region: HTH_18; pfam12833 1230587006920 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1230587006921 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 1230587006922 UbiA prenyltransferase family; Region: UbiA; pfam01040 1230587006923 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1230587006924 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1230587006925 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1230587006926 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1230587006927 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1230587006928 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1230587006929 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1230587006930 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587006931 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1230587006932 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1230587006933 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1230587006934 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 1230587006935 [2Fe-2S] cluster binding site [ion binding]; other site 1230587006936 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 1230587006937 putative alpha subunit interface [polypeptide binding]; other site 1230587006938 putative active site [active] 1230587006939 putative substrate binding site [chemical binding]; other site 1230587006940 Fe binding site [ion binding]; other site 1230587006941 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1230587006942 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 1230587006943 FAD binding pocket [chemical binding]; other site 1230587006944 FAD binding motif [chemical binding]; other site 1230587006945 phosphate binding motif [ion binding]; other site 1230587006946 beta-alpha-beta structure motif; other site 1230587006947 NAD binding pocket [chemical binding]; other site 1230587006948 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 1230587006949 catalytic loop [active] 1230587006950 iron binding site [ion binding]; other site 1230587006951 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 1230587006952 active site 1230587006953 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1230587006954 BA14K-like protein; Region: BA14K; pfam07886 1230587006955 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1230587006956 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1230587006957 Cl binding site [ion binding]; other site 1230587006958 oligomer interface [polypeptide binding]; other site 1230587006959 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1230587006960 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1230587006961 active site 1230587006962 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1230587006963 enoyl-CoA hydratase; Provisional; Region: PRK06688 1230587006964 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 1230587006965 substrate binding site [chemical binding]; other site 1230587006966 oxyanion hole (OAH) forming residues; other site 1230587006967 trimer interface [polypeptide binding]; other site 1230587006968 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1230587006969 Cache domain; Region: Cache_1; pfam02743 1230587006970 HAMP domain; Region: HAMP; pfam00672 1230587006971 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1230587006972 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1230587006973 dimer interface [polypeptide binding]; other site 1230587006974 putative CheW interface [polypeptide binding]; other site 1230587006975 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1230587006976 TRAM domain; Region: TRAM; cl01282 1230587006977 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 1230587006978 S-adenosylmethionine binding site [chemical binding]; other site 1230587006979 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1230587006980 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 1230587006981 RNA binding surface [nucleotide binding]; other site 1230587006982 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1230587006983 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 1230587006984 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 1230587006985 TPP-binding site; other site 1230587006986 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 1230587006987 PYR/PP interface [polypeptide binding]; other site 1230587006988 dimer interface [polypeptide binding]; other site 1230587006989 TPP binding site [chemical binding]; other site 1230587006990 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587006991 Pirin-related protein [General function prediction only]; Region: COG1741 1230587006992 Pirin; Region: Pirin; pfam02678 1230587006993 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1230587006994 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1230587006995 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1230587006996 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1230587006997 putative active site [active] 1230587006998 Zn binding site [ion binding]; other site 1230587006999 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587007000 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 1230587007001 NADP binding site [chemical binding]; other site 1230587007002 dimer interface [polypeptide binding]; other site 1230587007003 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 1230587007004 active site 1230587007005 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 1230587007006 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1230587007007 dimer interface [polypeptide binding]; other site 1230587007008 active site 1230587007009 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1230587007010 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1230587007011 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1230587007012 acyl-activating enzyme (AAE) consensus motif; other site 1230587007013 acyl-activating enzyme (AAE) consensus motif; other site 1230587007014 AMP binding site [chemical binding]; other site 1230587007015 active site 1230587007016 CoA binding site [chemical binding]; other site 1230587007017 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1230587007018 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1230587007019 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1230587007020 Walker A/P-loop; other site 1230587007021 ATP binding site [chemical binding]; other site 1230587007022 Q-loop/lid; other site 1230587007023 ABC transporter signature motif; other site 1230587007024 Walker B; other site 1230587007025 D-loop; other site 1230587007026 H-loop/switch region; other site 1230587007027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1230587007028 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1230587007029 protease TldD; Provisional; Region: tldD; PRK10735 1230587007030 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1230587007031 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1230587007032 Sporulation related domain; Region: SPOR; pfam05036 1230587007033 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1230587007034 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 1230587007035 putative active site [active] 1230587007036 putative metal binding site [ion binding]; other site 1230587007037 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1230587007038 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1230587007039 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1230587007040 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 1230587007041 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 1230587007042 HSP70 interaction site [polypeptide binding]; other site 1230587007043 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1230587007044 substrate binding site [polypeptide binding]; other site 1230587007045 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1230587007046 dimer interface [polypeptide binding]; other site 1230587007047 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 1230587007048 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1230587007049 NAD binding site [chemical binding]; other site 1230587007050 homotetramer interface [polypeptide binding]; other site 1230587007051 homodimer interface [polypeptide binding]; other site 1230587007052 substrate binding site [chemical binding]; other site 1230587007053 active site 1230587007054 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 1230587007055 catalytic core [active] 1230587007056 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 1230587007057 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1230587007058 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1230587007059 Tetramer interface [polypeptide binding]; other site 1230587007060 active site 1230587007061 FMN-binding site [chemical binding]; other site 1230587007062 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1230587007063 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1230587007064 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 1230587007065 dimerization interface [polypeptide binding]; other site 1230587007066 active site 1230587007067 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1230587007068 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 1230587007069 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1230587007070 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1230587007071 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 1230587007072 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 1230587007073 Subunit I/III interface [polypeptide binding]; other site 1230587007074 D-pathway; other site 1230587007075 Subunit I/VIIc interface [polypeptide binding]; other site 1230587007076 Subunit I/IV interface [polypeptide binding]; other site 1230587007077 Subunit I/II interface [polypeptide binding]; other site 1230587007078 Low-spin heme (heme a) binding site [chemical binding]; other site 1230587007079 Subunit I/VIIa interface [polypeptide binding]; other site 1230587007080 Subunit I/VIa interface [polypeptide binding]; other site 1230587007081 Dimer interface; other site 1230587007082 Putative water exit pathway; other site 1230587007083 Binuclear center (heme a3/CuB) [ion binding]; other site 1230587007084 K-pathway; other site 1230587007085 Subunit I/Vb interface [polypeptide binding]; other site 1230587007086 Putative proton exit pathway; other site 1230587007087 Subunit I/VIb interface; other site 1230587007088 Subunit I/VIc interface [polypeptide binding]; other site 1230587007089 Electron transfer pathway; other site 1230587007090 Subunit I/VIIIb interface [polypeptide binding]; other site 1230587007091 Subunit I/VIIb interface [polypeptide binding]; other site 1230587007092 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1230587007093 UbiA prenyltransferase family; Region: UbiA; pfam01040 1230587007094 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1230587007095 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 1230587007096 Subunit III/VIIa interface [polypeptide binding]; other site 1230587007097 Phospholipid binding site [chemical binding]; other site 1230587007098 Subunit I/III interface [polypeptide binding]; other site 1230587007099 Subunit III/VIb interface [polypeptide binding]; other site 1230587007100 Subunit III/VIa interface; other site 1230587007101 Subunit III/Vb interface [polypeptide binding]; other site 1230587007102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 1230587007103 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 1230587007104 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1230587007105 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1230587007106 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1230587007107 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 1230587007108 putative active site [active] 1230587007109 putative substrate binding site [chemical binding]; other site 1230587007110 ATP binding site [chemical binding]; other site 1230587007111 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1230587007112 RNA/DNA hybrid binding site [nucleotide binding]; other site 1230587007113 active site 1230587007114 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 1230587007115 catalytic triad [active] 1230587007116 dimer interface [polypeptide binding]; other site 1230587007117 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 1230587007118 hypothetical protein; Validated; Region: PRK00228 1230587007119 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1230587007120 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1230587007121 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 1230587007122 PAS fold; Region: PAS_3; pfam08447 1230587007123 putative active site [active] 1230587007124 heme pocket [chemical binding]; other site 1230587007125 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587007126 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587007127 metal binding site [ion binding]; metal-binding site 1230587007128 active site 1230587007129 I-site; other site 1230587007130 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 1230587007131 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1230587007132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1230587007133 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1230587007134 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1230587007135 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1230587007136 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1230587007137 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 1230587007138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587007139 catalytic residue [active] 1230587007140 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1230587007141 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 1230587007142 dimerization interface [polypeptide binding]; other site 1230587007143 ligand binding site [chemical binding]; other site 1230587007144 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1230587007145 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 1230587007146 motif II; other site 1230587007147 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 1230587007148 dimerization interface [polypeptide binding]; other site 1230587007149 putative DNA binding site [nucleotide binding]; other site 1230587007150 putative Zn2+ binding site [ion binding]; other site 1230587007151 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1230587007152 DNA methylase; Region: N6_N4_Mtase; pfam01555 1230587007153 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1230587007154 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1230587007155 minor groove reading motif; other site 1230587007156 helix-hairpin-helix signature motif; other site 1230587007157 substrate binding pocket [chemical binding]; other site 1230587007158 active site 1230587007159 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1230587007160 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 1230587007161 DNA binding and oxoG recognition site [nucleotide binding] 1230587007162 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1230587007163 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 1230587007164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 1230587007165 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1230587007166 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 1230587007167 catalytic residues [active] 1230587007168 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1230587007169 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1230587007170 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1230587007171 Walker A/P-loop; other site 1230587007172 ATP binding site [chemical binding]; other site 1230587007173 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1230587007174 ABC transporter signature motif; other site 1230587007175 Walker B; other site 1230587007176 D-loop; other site 1230587007177 H-loop/switch region; other site 1230587007178 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1230587007179 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1230587007180 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1230587007181 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1230587007182 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 1230587007183 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1230587007184 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1230587007185 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1230587007186 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1230587007187 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 1230587007188 non-specific DNA binding site [nucleotide binding]; other site 1230587007189 salt bridge; other site 1230587007190 sequence-specific DNA binding site [nucleotide binding]; other site 1230587007191 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1230587007192 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1230587007193 CysD dimerization site [polypeptide binding]; other site 1230587007194 G1 box; other site 1230587007195 putative GEF interaction site [polypeptide binding]; other site 1230587007196 GTP/Mg2+ binding site [chemical binding]; other site 1230587007197 Switch I region; other site 1230587007198 G2 box; other site 1230587007199 G3 box; other site 1230587007200 Switch II region; other site 1230587007201 G4 box; other site 1230587007202 G5 box; other site 1230587007203 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 1230587007204 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 1230587007205 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1230587007206 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 1230587007207 Active Sites [active] 1230587007208 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1230587007209 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 1230587007210 Active Sites [active] 1230587007211 choline dehydrogenase; Validated; Region: PRK02106 1230587007212 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587007213 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1230587007214 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587007215 NAD(P) binding site [chemical binding]; other site 1230587007216 catalytic residues [active] 1230587007217 Sulfatase; Region: Sulfatase; cl17466 1230587007218 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1230587007219 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1230587007220 transcriptional regulator BetI; Validated; Region: PRK00767 1230587007221 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587007222 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1230587007223 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1230587007224 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 1230587007225 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 1230587007226 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587007227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587007228 metal binding site [ion binding]; metal-binding site 1230587007229 active site 1230587007230 I-site; other site 1230587007231 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1230587007232 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1230587007233 NAD(P) binding site [chemical binding]; other site 1230587007234 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 1230587007235 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 1230587007236 glutathionine S-transferase; Provisional; Region: PRK10542 1230587007237 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 1230587007238 C-terminal domain interface [polypeptide binding]; other site 1230587007239 GSH binding site (G-site) [chemical binding]; other site 1230587007240 dimer interface [polypeptide binding]; other site 1230587007241 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1230587007242 dimer interface [polypeptide binding]; other site 1230587007243 N-terminal domain interface [polypeptide binding]; other site 1230587007244 substrate binding pocket (H-site) [chemical binding]; other site 1230587007245 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587007246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587007247 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1230587007248 dimerization interface [polypeptide binding]; other site 1230587007249 substrate binding pocket [chemical binding]; other site 1230587007250 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587007251 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1230587007252 putative C-terminal domain interface [polypeptide binding]; other site 1230587007253 putative GSH binding site (G-site) [chemical binding]; other site 1230587007254 putative dimer interface [polypeptide binding]; other site 1230587007255 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1230587007256 dimer interface [polypeptide binding]; other site 1230587007257 N-terminal domain interface [polypeptide binding]; other site 1230587007258 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587007259 PAS fold; Region: PAS_4; pfam08448 1230587007260 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1230587007261 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1230587007262 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587007263 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587007264 metal binding site [ion binding]; metal-binding site 1230587007265 active site 1230587007266 I-site; other site 1230587007267 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 1230587007268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587007269 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587007270 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1230587007271 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 1230587007272 putative Zn2+ binding site [ion binding]; other site 1230587007273 putative DNA binding site [nucleotide binding]; other site 1230587007274 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1230587007275 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1230587007276 PhnA protein; Region: PhnA; pfam03831 1230587007277 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1230587007278 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 1230587007279 Walker A motif; other site 1230587007280 ATP binding site [chemical binding]; other site 1230587007281 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 1230587007282 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587007283 active site 1230587007284 catalytic tetrad [active] 1230587007285 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1230587007286 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 1230587007287 S-adenosylmethionine binding site [chemical binding]; other site 1230587007288 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1230587007289 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 1230587007290 motif II; other site 1230587007291 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1230587007292 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1230587007293 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 1230587007294 putative NAD(P) binding site [chemical binding]; other site 1230587007295 catalytic Zn binding site [ion binding]; other site 1230587007296 structural Zn binding site [ion binding]; other site 1230587007297 aminotransferase; Provisional; Region: PRK13356 1230587007298 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1230587007299 homodimer interface [polypeptide binding]; other site 1230587007300 substrate-cofactor binding pocket; other site 1230587007301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587007302 catalytic residue [active] 1230587007303 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 1230587007304 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587007305 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1230587007306 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1230587007307 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1230587007308 Predicted transcriptional regulator [Transcription]; Region: COG2378 1230587007309 HTH domain; Region: HTH_11; pfam08279 1230587007310 WYL domain; Region: WYL; pfam13280 1230587007311 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587007312 Cytochrome c556 [Energy production and conversion]; Region: COG3909 1230587007313 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1230587007314 Cytochrome c; Region: Cytochrom_C; cl11414 1230587007315 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1230587007316 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587007317 Coenzyme A binding pocket [chemical binding]; other site 1230587007318 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1230587007319 DNA binding residues [nucleotide binding] 1230587007320 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1230587007321 dimer interface [polypeptide binding]; other site 1230587007322 putative metal binding site [ion binding]; other site 1230587007323 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1230587007324 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1230587007325 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1230587007326 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1230587007327 Trp docking motif [polypeptide binding]; other site 1230587007328 putative active site [active] 1230587007329 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1230587007330 hypothetical protein; Validated; Region: PRK00029 1230587007331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 1230587007332 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1230587007333 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1230587007334 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1230587007335 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 1230587007336 putative metal binding site [ion binding]; other site 1230587007337 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 1230587007338 active site 1230587007339 metal binding site [ion binding]; metal-binding site 1230587007340 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 1230587007341 Ligand Binding Site [chemical binding]; other site 1230587007342 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1230587007343 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1230587007344 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1230587007345 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1230587007346 SelR domain; Region: SelR; pfam01641 1230587007347 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 1230587007348 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1230587007349 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587007350 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1230587007351 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 1230587007352 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 1230587007353 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 1230587007354 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587007355 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1230587007356 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 1230587007357 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 1230587007358 Predicted transcriptional regulator [Transcription]; Region: COG4957 1230587007359 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1230587007360 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1230587007361 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587007362 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 1230587007363 dimer interface [polypeptide binding]; other site 1230587007364 phosphorylation site [posttranslational modification] 1230587007365 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 1230587007366 ATP binding site [chemical binding]; other site 1230587007367 Mg2+ binding site [ion binding]; other site 1230587007368 G-X-G motif; other site 1230587007369 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1230587007370 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587007371 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587007372 Uncharacterized conserved protein [Function unknown]; Region: COG5447 1230587007373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 1230587007374 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1230587007375 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1230587007376 Bacterial SH3 domain; Region: SH3_3; pfam08239 1230587007377 Predicted integral membrane protein [Function unknown]; Region: COG5436 1230587007378 Uncharacterized conserved protein [Function unknown]; Region: COG5402 1230587007379 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1230587007380 Transglycosylase; Region: Transgly; pfam00912 1230587007381 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1230587007382 hypothetical protein; Provisional; Region: PRK05170 1230587007383 Protein of unknown function (DUF419); Region: DUF419; pfam04237 1230587007384 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587007385 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 1230587007386 active site 1230587007387 phosphorylation site [posttranslational modification] 1230587007388 intermolecular recognition site; other site 1230587007389 dimerization interface [polypeptide binding]; other site 1230587007390 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 1230587007391 DNA binding site [nucleotide binding] 1230587007392 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587007393 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 1230587007394 ATP binding site [chemical binding]; other site 1230587007395 Mg2+ binding site [ion binding]; other site 1230587007396 G-X-G motif; other site 1230587007397 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1230587007398 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1230587007399 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1230587007400 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 1230587007401 binding surface 1230587007402 TPR motif; other site 1230587007403 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1230587007404 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1230587007405 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1230587007406 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1230587007407 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 1230587007408 protein binding site [polypeptide binding]; other site 1230587007409 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 1230587007410 protein binding site [polypeptide binding]; other site 1230587007411 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587007412 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 1230587007413 active site 1230587007414 phosphorylation site [posttranslational modification] 1230587007415 intermolecular recognition site; other site 1230587007416 dimerization interface [polypeptide binding]; other site 1230587007417 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 1230587007418 DNA binding site [nucleotide binding] 1230587007419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587007420 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 1230587007421 dimerization interface [polypeptide binding]; other site 1230587007422 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 1230587007423 dimer interface [polypeptide binding]; other site 1230587007424 phosphorylation site [posttranslational modification] 1230587007425 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 1230587007426 ATP binding site [chemical binding]; other site 1230587007427 Mg2+ binding site [ion binding]; other site 1230587007428 G-X-G motif; other site 1230587007429 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 1230587007430 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1230587007431 metal binding triad; other site 1230587007432 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1230587007433 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1230587007434 metal binding triad; other site 1230587007435 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 1230587007436 PAS fold; Region: PAS_3; pfam08447 1230587007437 putative active site [active] 1230587007438 heme pocket [chemical binding]; other site 1230587007439 PAS fold; Region: PAS_7; pfam12860 1230587007440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587007441 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 1230587007442 dimer interface [polypeptide binding]; other site 1230587007443 phosphorylation site [posttranslational modification] 1230587007444 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 1230587007445 ATP binding site [chemical binding]; other site 1230587007446 Mg2+ binding site [ion binding]; other site 1230587007447 G-X-G motif; other site 1230587007448 aminopeptidase N; Provisional; Region: pepN; PRK14015 1230587007449 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1230587007450 active site 1230587007451 Zn binding site [ion binding]; other site 1230587007452 EamA-like transporter family; Region: EamA; pfam00892 1230587007453 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587007454 EamA-like transporter family; Region: EamA; pfam00892 1230587007455 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 1230587007456 putative MFS family transporter protein; Provisional; Region: PRK03633 1230587007457 putative substrate translocation pore; other site 1230587007458 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1230587007459 Fe-S cluster binding site [ion binding]; other site 1230587007460 active site 1230587007461 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1230587007462 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1230587007463 nucleotide binding site [chemical binding]; other site 1230587007464 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1230587007465 SBD interface [polypeptide binding]; other site 1230587007466 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1230587007467 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587007468 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1230587007469 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1230587007470 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1230587007471 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1230587007472 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587007473 dimer interface [polypeptide binding]; other site 1230587007474 conserved gate region; other site 1230587007475 putative PBP binding loops; other site 1230587007476 ABC-ATPase subunit interface; other site 1230587007477 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1230587007478 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1230587007479 putative NAD(P) binding site [chemical binding]; other site 1230587007480 dimer interface [polypeptide binding]; other site 1230587007481 Predicted transcriptional regulators [Transcription]; Region: COG1733 1230587007482 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1230587007483 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1230587007484 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1230587007485 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1230587007486 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1230587007487 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1230587007488 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1230587007489 Ligand binding site; other site 1230587007490 Putative Catalytic site; other site 1230587007491 DXD motif; other site 1230587007492 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1230587007493 AMP nucleosidase; Provisional; Region: PRK08292 1230587007494 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1230587007495 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1230587007496 Uncharacterized conserved protein [Function unknown]; Region: COG1742 1230587007497 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 1230587007498 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1230587007499 C-terminal domain interface [polypeptide binding]; other site 1230587007500 GSH binding site (G-site) [chemical binding]; other site 1230587007501 dimer interface [polypeptide binding]; other site 1230587007502 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1230587007503 N-terminal domain interface [polypeptide binding]; other site 1230587007504 putative dimer interface [polypeptide binding]; other site 1230587007505 active site 1230587007506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1230587007507 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1230587007508 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 1230587007509 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 1230587007510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587007511 homodimer interface [polypeptide binding]; other site 1230587007512 catalytic residue [active] 1230587007513 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1230587007514 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 1230587007515 active site 1230587007516 Int/Topo IB signature motif; other site 1230587007517 catalytic residues [active] 1230587007518 DNA binding site [nucleotide binding] 1230587007519 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1230587007520 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1230587007521 Domain of unknown function (DUF4326); Region: DUF4326; pfam14216 1230587007522 RecT family; Region: RecT; cl04285 1230587007523 primosome assembly protein PriA; Validated; Region: PRK05580 1230587007524 Arc-like DNA binding domain; Region: Arc; pfam03869 1230587007525 Arc-like DNA binding domain; Region: Arc; pfam03869 1230587007526 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 1230587007527 sequence-specific DNA binding site [nucleotide binding]; other site 1230587007528 salt bridge; other site 1230587007529 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 1230587007530 Predicted transcriptional regulator [Transcription]; Region: COG2932 1230587007531 Catalytic site [active] 1230587007532 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 1230587007533 sequence-specific DNA binding site [nucleotide binding]; other site 1230587007534 salt bridge; other site 1230587007535 hypothetical protein; Provisional; Region: PRK13694 1230587007536 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1230587007537 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1230587007538 DNA methylase; Region: N6_N4_Mtase; cl17433 1230587007539 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1230587007540 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1230587007541 Ligand Binding Site [chemical binding]; other site 1230587007542 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 1230587007543 GcrA cell cycle regulator; Region: GcrA; cl11564 1230587007544 Predicted ATPase [General function prediction only]; Region: COG3899 1230587007545 Transcription termination factor nusG; Region: NusG; pfam02357 1230587007546 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 1230587007547 Terminase-like family; Region: Terminase_6; pfam03237 1230587007548 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1230587007549 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1230587007550 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1230587007551 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 1230587007552 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1230587007553 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1230587007554 active site 1230587007555 catalytic triad [active] 1230587007556 oxyanion hole [active] 1230587007557 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 1230587007558 Predicted chitinase [General function prediction only]; Region: COG3179 1230587007559 catalytic residue [active] 1230587007560 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587007561 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1230587007562 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 1230587007563 active site 1230587007564 DNA binding site [nucleotide binding] 1230587007565 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1230587007566 DNA binding site [nucleotide binding] 1230587007567 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1230587007568 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 1230587007569 sequence-specific DNA binding site [nucleotide binding]; other site 1230587007570 salt bridge; other site 1230587007571 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 1230587007572 Porin subfamily; Region: Porin_2; pfam02530 1230587007573 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1230587007574 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 1230587007575 active site 1230587007576 DNA binding site [nucleotide binding] 1230587007577 Int/Topo IB signature motif; other site 1230587007578 Porin subfamily; Region: Porin_2; pfam02530 1230587007579 CopC domain; Region: CopC; cl01012 1230587007580 BA14K-like protein; Region: BA14K; pfam07886 1230587007581 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1230587007582 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 1230587007583 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1230587007584 catalytic residue [active] 1230587007585 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587007586 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1230587007587 dimer interface [polypeptide binding]; other site 1230587007588 active site 1230587007589 catalytic residue [active] 1230587007590 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 1230587007591 SmpB-tmRNA interface; other site 1230587007592 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 1230587007593 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1230587007594 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1230587007595 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1230587007596 LabA_like proteins; Region: LabA; cd10911 1230587007597 putative metal binding site [ion binding]; other site 1230587007598 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1230587007599 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1230587007600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1230587007601 Zn2+ binding site [ion binding]; other site 1230587007602 Mg2+ binding site [ion binding]; other site 1230587007603 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1230587007604 synthetase active site [active] 1230587007605 NTP binding site [chemical binding]; other site 1230587007606 metal binding site [ion binding]; metal-binding site 1230587007607 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 1230587007608 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1230587007609 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1230587007610 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1230587007611 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1230587007612 putative active site [active] 1230587007613 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 1230587007614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 1230587007615 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1230587007616 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1230587007617 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 1230587007618 Catalytic site [active] 1230587007619 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 1230587007620 ribonuclease III; Reviewed; Region: PRK12371 1230587007621 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 1230587007622 dimerization interface [polypeptide binding]; other site 1230587007623 active site 1230587007624 metal binding site [ion binding]; metal-binding site 1230587007625 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 1230587007626 dsRNA binding site [nucleotide binding]; other site 1230587007627 GTPase Era; Reviewed; Region: era; PRK00089 1230587007628 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1230587007629 G1 box; other site 1230587007630 GTP/Mg2+ binding site [chemical binding]; other site 1230587007631 Switch I region; other site 1230587007632 G2 box; other site 1230587007633 Switch II region; other site 1230587007634 G3 box; other site 1230587007635 G4 box; other site 1230587007636 G5 box; other site 1230587007637 KH domain; Region: KH_2; pfam07650 1230587007638 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1230587007639 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587007640 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 1230587007641 ArsC family; Region: ArsC; pfam03960 1230587007642 catalytic residues [active] 1230587007643 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1230587007644 amphipathic channel; other site 1230587007645 Asn-Pro-Ala signature motifs; other site 1230587007646 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 1230587007647 dimerization interface [polypeptide binding]; other site 1230587007648 putative DNA binding site [nucleotide binding]; other site 1230587007649 putative Zn2+ binding site [ion binding]; other site 1230587007650 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial homologs of mammalian glycerophosphodiester phosphodiesterase GDE4; Region: GDPD_GDE4_like_1; cd08613 1230587007651 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1230587007652 putative active site [active] 1230587007653 catalytic site [active] 1230587007654 putative metal binding site [ion binding]; other site 1230587007655 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1230587007656 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 1230587007657 S-adenosylmethionine binding site [chemical binding]; other site 1230587007658 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1230587007659 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1230587007660 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1230587007661 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 1230587007662 RNA binding site [nucleotide binding]; other site 1230587007663 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1230587007664 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1230587007665 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1230587007666 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1230587007667 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587007668 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1230587007669 putative NAD(P) binding site [chemical binding]; other site 1230587007670 active site 1230587007671 putative substrate binding site [chemical binding]; other site 1230587007672 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 1230587007673 dimerization interface [polypeptide binding]; other site 1230587007674 putative DNA binding site [nucleotide binding]; other site 1230587007675 putative Zn2+ binding site [ion binding]; other site 1230587007676 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1230587007677 hydrophobic ligand binding site; other site 1230587007678 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 1230587007679 active site 1230587007680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587007681 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587007682 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1230587007683 Recombination protein O N terminal; Region: RecO_N; pfam11967 1230587007684 Recombination protein O C terminal; Region: RecO_C; pfam02565 1230587007685 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1230587007686 Predicted membrane protein [Function unknown]; Region: COG5373 1230587007687 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1230587007688 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1230587007689 Zn2+ binding site [ion binding]; other site 1230587007690 Mg2+ binding site [ion binding]; other site 1230587007691 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1230587007692 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1230587007693 MOSC domain; Region: MOSC; pfam03473 1230587007694 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1230587007695 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 1230587007696 putative substrate translocation pore; other site 1230587007697 quinolinate synthetase; Provisional; Region: PRK09375 1230587007698 L-aspartate oxidase; Provisional; Region: PRK07512 1230587007699 L-aspartate oxidase; Provisional; Region: PRK06175 1230587007700 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1230587007701 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1230587007702 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1230587007703 dimerization interface [polypeptide binding]; other site 1230587007704 active site 1230587007705 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1230587007706 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 1230587007707 E-class dimer interface [polypeptide binding]; other site 1230587007708 P-class dimer interface [polypeptide binding]; other site 1230587007709 active site 1230587007710 Cu2+ binding site [ion binding]; other site 1230587007711 Zn2+ binding site [ion binding]; other site 1230587007712 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1230587007713 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587007714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587007715 Walker A/P-loop; other site 1230587007716 ATP binding site [chemical binding]; other site 1230587007717 Q-loop/lid; other site 1230587007718 ABC transporter signature motif; other site 1230587007719 Walker B; other site 1230587007720 D-loop; other site 1230587007721 H-loop/switch region; other site 1230587007722 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1230587007723 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587007724 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587007725 ACP:hemolysin acyltransferase (hemolysin-activating protein) [Posttranslational modification, protein turnover, chaperones]; Region: HlyC; COG2994 1230587007726 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1230587007727 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1230587007728 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1230587007729 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1230587007730 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1230587007731 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587007732 Predicted secreted protein [Function unknown]; Region: COG5451 1230587007733 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 1230587007734 nudix motif; other site 1230587007735 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1230587007736 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1230587007737 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1230587007738 active site 1230587007739 HIGH motif; other site 1230587007740 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1230587007741 KMSKS motif; other site 1230587007742 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1230587007743 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587007744 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587007745 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587007746 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1230587007747 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1230587007748 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1230587007749 active site 1230587007750 catalytic residues [active] 1230587007751 metal binding site [ion binding]; metal-binding site 1230587007752 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1230587007753 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1230587007754 EamA-like transporter family; Region: EamA; cl17759 1230587007755 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1230587007756 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1230587007757 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1230587007758 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1230587007759 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587007760 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1230587007761 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1230587007762 Walker A/P-loop; other site 1230587007763 ATP binding site [chemical binding]; other site 1230587007764 Q-loop/lid; other site 1230587007765 ABC transporter signature motif; other site 1230587007766 Walker B; other site 1230587007767 D-loop; other site 1230587007768 H-loop/switch region; other site 1230587007769 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1230587007770 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1230587007771 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1230587007772 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1230587007773 classical (c) SDRs; Region: SDR_c; cd05233 1230587007774 NAD(P) binding site [chemical binding]; other site 1230587007775 active site 1230587007776 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1230587007777 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 1230587007778 active site 1230587007779 tetramer interface [polypeptide binding]; other site 1230587007780 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1230587007781 active site 1230587007782 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1230587007783 Colicin V production protein; Region: Colicin_V; pfam02674 1230587007784 DNA repair protein RadA; Provisional; Region: PRK11823 1230587007785 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 1230587007786 Walker A motif/ATP binding site; other site 1230587007787 ATP binding site [chemical binding]; other site 1230587007788 Walker B motif; other site 1230587007789 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1230587007790 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1230587007791 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1230587007792 active site 1230587007793 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587007794 dimer interface [polypeptide binding]; other site 1230587007795 substrate binding site [chemical binding]; other site 1230587007796 catalytic residues [active] 1230587007797 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1230587007798 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1230587007799 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587007800 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587007801 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1230587007802 Predicted membrane protein [Function unknown]; Region: COG4541 1230587007803 replicative DNA helicase; Provisional; Region: PRK09165 1230587007804 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1230587007805 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 1230587007806 Walker A motif; other site 1230587007807 ATP binding site [chemical binding]; other site 1230587007808 Walker B motif; other site 1230587007809 DNA binding loops [nucleotide binding] 1230587007810 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1230587007811 MarR family; Region: MarR_2; pfam12802 1230587007812 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1230587007813 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 1230587007814 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1230587007815 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587007816 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587007817 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1230587007818 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1230587007819 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1230587007820 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1230587007821 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1230587007822 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1230587007823 dimerization interface [polypeptide binding]; other site 1230587007824 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 1230587007825 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587007826 active site 1230587007827 catalytic tetrad [active] 1230587007828 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1230587007829 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1230587007830 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1230587007831 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1230587007832 NAD(P) binding site [chemical binding]; other site 1230587007833 homotetramer interface [polypeptide binding]; other site 1230587007834 homodimer interface [polypeptide binding]; other site 1230587007835 active site 1230587007836 acyl carrier protein; Provisional; Region: acpP; PRK00982 1230587007837 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1230587007838 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 1230587007839 dimer interface [polypeptide binding]; other site 1230587007840 active site 1230587007841 YceG-like family; Region: YceG; pfam02618 1230587007842 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1230587007843 dimerization interface [polypeptide binding]; other site 1230587007844 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 1230587007845 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1230587007846 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1230587007847 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1230587007848 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 1230587007849 catalytic site [active] 1230587007850 G-X2-G-X-G-K; other site 1230587007851 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1230587007852 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 1230587007853 S-adenosylmethionine binding site [chemical binding]; other site 1230587007854 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 1230587007855 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1230587007856 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1230587007857 SurA N-terminal domain; Region: SurA_N; pfam09312 1230587007858 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1230587007859 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1230587007860 Predicted permeases [General function prediction only]; Region: COG0795 1230587007861 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1230587007862 Predicted permeases [General function prediction only]; Region: COG0795 1230587007863 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1230587007864 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1230587007865 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 1230587007866 interface (dimer of trimers) [polypeptide binding]; other site 1230587007867 Substrate-binding/catalytic site; other site 1230587007868 Zn-binding sites [ion binding]; other site 1230587007869 DNA polymerase III subunit chi; Validated; Region: PRK05728 1230587007870 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587007871 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587007872 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587007873 Coenzyme A binding pocket [chemical binding]; other site 1230587007874 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1230587007875 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587007876 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587007877 ABC transporter; Region: ABC_tran_2; pfam12848 1230587007878 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587007879 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1230587007880 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1230587007881 acyl-activating enzyme (AAE) consensus motif; other site 1230587007882 AMP binding site [chemical binding]; other site 1230587007883 active site 1230587007884 CoA binding site [chemical binding]; other site 1230587007885 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1230587007886 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1230587007887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 1230587007888 DinB superfamily; Region: DinB_2; pfam12867 1230587007889 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 1230587007890 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587007891 putative C-terminal domain interface [polypeptide binding]; other site 1230587007892 putative GSH binding site (G-site) [chemical binding]; other site 1230587007893 putative dimer interface [polypeptide binding]; other site 1230587007894 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 1230587007895 putative N-terminal domain interface [polypeptide binding]; other site 1230587007896 putative dimer interface [polypeptide binding]; other site 1230587007897 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587007898 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 1230587007899 active site 1230587007900 multimer interface [polypeptide binding]; other site 1230587007901 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 1230587007902 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 1230587007903 CGNR zinc finger; Region: zf-CGNR; pfam11706 1230587007904 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 1230587007905 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587007906 TM-ABC transporter signature motif; other site 1230587007907 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 1230587007908 MoaE homodimer interface [polypeptide binding]; other site 1230587007909 MoaD interaction [polypeptide binding]; other site 1230587007910 active site residues [active] 1230587007911 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1230587007912 MoaE interaction surface [polypeptide binding]; other site 1230587007913 MoeB interaction surface [polypeptide binding]; other site 1230587007914 thiocarboxylated glycine; other site 1230587007915 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1230587007916 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1230587007917 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1230587007918 GIY-YIG motif/motif A; other site 1230587007919 active site 1230587007920 catalytic site [active] 1230587007921 putative DNA binding site [nucleotide binding]; other site 1230587007922 metal binding site [ion binding]; metal-binding site 1230587007923 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1230587007924 short chain dehydrogenase; Provisional; Region: PRK09134 1230587007925 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1230587007926 NADP binding site [chemical binding]; other site 1230587007927 substrate binding pocket [chemical binding]; other site 1230587007928 active site 1230587007929 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1230587007930 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587007931 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 1230587007932 putative C-terminal domain interface [polypeptide binding]; other site 1230587007933 putative GSH binding site (G-site) [chemical binding]; other site 1230587007934 putative dimer interface [polypeptide binding]; other site 1230587007935 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1230587007936 N-terminal domain interface [polypeptide binding]; other site 1230587007937 dimer interface [polypeptide binding]; other site 1230587007938 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587007939 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 1230587007940 B1 nucleotide binding pocket [chemical binding]; other site 1230587007941 B2 nucleotide binding pocket [chemical binding]; other site 1230587007942 CAS motifs; other site 1230587007943 active site 1230587007944 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1230587007945 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1230587007946 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1230587007947 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 1230587007948 putative [4Fe-4S] binding site [ion binding]; other site 1230587007949 putative molybdopterin cofactor binding site [chemical binding]; other site 1230587007950 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 1230587007951 putative molybdopterin cofactor binding site; other site 1230587007952 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1230587007953 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1230587007954 dimer interface [polypeptide binding]; other site 1230587007955 ADP-ribose binding site [chemical binding]; other site 1230587007956 active site 1230587007957 nudix motif; other site 1230587007958 metal binding site [ion binding]; metal-binding site 1230587007959 Predicted integral membrane protein [Function unknown]; Region: COG0392 1230587007960 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1230587007961 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1230587007962 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1230587007963 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1230587007964 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1230587007965 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1230587007966 active site 1230587007967 substrate binding site [chemical binding]; other site 1230587007968 cosubstrate binding site; other site 1230587007969 catalytic site [active] 1230587007970 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1230587007971 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 1230587007972 dimerization interface [polypeptide binding]; other site 1230587007973 putative ATP binding site [chemical binding]; other site 1230587007974 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1230587007975 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1230587007976 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1230587007977 hypothetical protein; Validated; Region: PRK09087 1230587007978 polyphosphate kinase; Provisional; Region: PRK05443 1230587007979 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1230587007980 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1230587007981 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1230587007982 putative domain interface [polypeptide binding]; other site 1230587007983 putative active site [active] 1230587007984 catalytic site [active] 1230587007985 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1230587007986 putative domain interface [polypeptide binding]; other site 1230587007987 putative active site [active] 1230587007988 catalytic site [active] 1230587007989 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1230587007990 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1230587007991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 1230587007992 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587007993 cyclase homology domain; Region: CHD; cd07302 1230587007994 nucleotidyl binding site; other site 1230587007995 metal binding site [ion binding]; metal-binding site 1230587007996 dimer interface [polypeptide binding]; other site 1230587007997 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1230587007998 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1230587007999 catalytic site [active] 1230587008000 putative active site [active] 1230587008001 putative substrate binding site [chemical binding]; other site 1230587008002 HRDC domain; Region: HRDC; pfam00570 1230587008003 L-ascorbate oxidase, plant type; Region: ascorbase; TIGR03388 1230587008004 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1230587008005 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1230587008006 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1230587008007 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 1230587008008 putative substrate translocation pore; other site 1230587008009 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1230587008010 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 1230587008011 dimer interface [polypeptide binding]; other site 1230587008012 anticodon binding site; other site 1230587008013 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 1230587008014 homodimer interface [polypeptide binding]; other site 1230587008015 motif 1; other site 1230587008016 active site 1230587008017 motif 2; other site 1230587008018 GAD domain; Region: GAD; pfam02938 1230587008019 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 1230587008020 active site 1230587008021 motif 3; other site 1230587008022 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 1230587008023 active site 1230587008024 catalytic residue [active] 1230587008025 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1230587008026 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 1230587008027 ring oligomerisation interface [polypeptide binding]; other site 1230587008028 ATP/Mg binding site [chemical binding]; other site 1230587008029 stacking interactions; other site 1230587008030 hinge regions; other site 1230587008031 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1230587008032 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 1230587008033 CAP-like domain; other site 1230587008034 active site 1230587008035 primary dimer interface [polypeptide binding]; other site 1230587008036 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 1230587008037 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1230587008038 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1230587008039 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1230587008040 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 1230587008041 dimer interface [polypeptide binding]; other site 1230587008042 allosteric magnesium binding site [ion binding]; other site 1230587008043 active site 1230587008044 aspartate-rich active site metal binding site; other site 1230587008045 Schiff base residues; other site 1230587008046 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1230587008047 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1230587008048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1230587008049 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587008050 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587008051 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587008052 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1230587008053 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 1230587008054 dimer interface [polypeptide binding]; other site 1230587008055 active site 1230587008056 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1230587008057 folate binding site [chemical binding]; other site 1230587008058 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1230587008059 ATP cone domain; Region: ATP-cone; pfam03477 1230587008060 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1230587008061 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 1230587008062 catalytic motif [active] 1230587008063 Zn binding site [ion binding]; other site 1230587008064 RibD C-terminal domain; Region: RibD_C; cl17279 1230587008065 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1230587008066 Lumazine binding domain; Region: Lum_binding; pfam00677 1230587008067 Lumazine binding domain; Region: Lum_binding; pfam00677 1230587008068 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1230587008069 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG3837 1230587008070 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 1230587008071 homopentamer interface [polypeptide binding]; other site 1230587008072 active site 1230587008073 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1230587008074 putative RNA binding site [nucleotide binding]; other site 1230587008075 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 1230587008076 putative substrate translocation pore; other site 1230587008077 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 1230587008078 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1230587008079 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1230587008080 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1230587008081 Uncharacterized conserved protein [Function unknown]; Region: COG5452 1230587008082 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1230587008083 putative phosphate acyltransferase; Provisional; Region: PRK05331 1230587008084 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1230587008085 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 1230587008086 dimer interface [polypeptide binding]; other site 1230587008087 active site 1230587008088 CoA binding pocket [chemical binding]; other site 1230587008089 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 1230587008090 IHF dimer interface [polypeptide binding]; other site 1230587008091 IHF - DNA interface [nucleotide binding]; other site 1230587008092 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1230587008093 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1230587008094 DNA binding residues [nucleotide binding] 1230587008095 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 1230587008096 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587008097 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1230587008098 O-Antigen ligase; Region: Wzy_C; pfam04932 1230587008099 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1230587008100 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1230587008101 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 1230587008102 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587008103 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1230587008104 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1230587008105 SLBB domain; Region: SLBB; pfam10531 1230587008106 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1230587008107 Chain length determinant protein; Region: Wzz; pfam02706 1230587008108 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1230587008109 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 1230587008110 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1230587008111 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1230587008112 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 1230587008113 trimer interface [polypeptide binding]; other site 1230587008114 active site 1230587008115 substrate binding site [chemical binding]; other site 1230587008116 CoA binding site [chemical binding]; other site 1230587008117 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1230587008118 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1230587008119 active site 1230587008120 metal binding site [ion binding]; metal-binding site 1230587008121 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 1230587008122 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1230587008123 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1230587008124 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1230587008125 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1230587008126 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1230587008127 agmatinase; Region: agmatinase; TIGR01230 1230587008128 oligomer interface [polypeptide binding]; other site 1230587008129 putative active site [active] 1230587008130 Mn binding site [ion binding]; other site 1230587008131 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1230587008132 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 1230587008133 23S rRNA interface [nucleotide binding]; other site 1230587008134 L3 interface [polypeptide binding]; other site 1230587008135 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 1230587008136 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1230587008137 CoenzymeA binding site [chemical binding]; other site 1230587008138 subunit interaction site [polypeptide binding]; other site 1230587008139 PHB binding site; other site 1230587008140 enoyl-CoA hydratase; Validated; Region: PRK08139 1230587008141 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 1230587008142 substrate binding site [chemical binding]; other site 1230587008143 oxyanion hole (OAH) forming residues; other site 1230587008144 trimer interface [polypeptide binding]; other site 1230587008145 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1230587008146 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1230587008147 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 1230587008148 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 1230587008149 homodimer interface [polypeptide binding]; other site 1230587008150 substrate-cofactor binding pocket; other site 1230587008151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587008152 catalytic residue [active] 1230587008153 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1230587008154 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1230587008155 Cytochrome P450; Region: p450; cl12078 1230587008156 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1230587008157 putative catalytic site [active] 1230587008158 putative metal binding site [ion binding]; other site 1230587008159 putative phosphate binding site [ion binding]; other site 1230587008160 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1230587008161 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1230587008162 putative active site [active] 1230587008163 catalytic site [active] 1230587008164 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1230587008165 putative active site [active] 1230587008166 catalytic site [active] 1230587008167 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1230587008168 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1230587008169 oligomer interface [polypeptide binding]; other site 1230587008170 active site residues [active] 1230587008171 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1230587008172 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1230587008173 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 1230587008174 Walker A motif; other site 1230587008175 ATP binding site [chemical binding]; other site 1230587008176 Walker B motif; other site 1230587008177 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1230587008178 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1230587008179 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1230587008180 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1230587008181 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 1230587008182 Walker A motif; other site 1230587008183 ATP binding site [chemical binding]; other site 1230587008184 Walker B motif; other site 1230587008185 arginine finger; other site 1230587008186 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1230587008187 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 1230587008188 IHF dimer interface [polypeptide binding]; other site 1230587008189 IHF - DNA interface [nucleotide binding]; other site 1230587008190 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1230587008191 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1230587008192 MarR family; Region: MarR; pfam01047 1230587008193 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1230587008194 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1230587008195 active site 1230587008196 metal binding site [ion binding]; metal-binding site 1230587008197 DNA binding site [nucleotide binding] 1230587008198 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1230587008199 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1230587008200 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1230587008201 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1230587008202 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1230587008203 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1230587008204 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1230587008205 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1230587008206 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1230587008207 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1230587008208 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 1230587008209 putative dimer interface [polypeptide binding]; other site 1230587008210 [2Fe-2S] cluster binding site [ion binding]; other site 1230587008211 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1230587008212 SLBB domain; Region: SLBB; pfam10531 1230587008213 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1230587008214 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1230587008215 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1230587008216 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 1230587008217 catalytic loop [active] 1230587008218 iron binding site [ion binding]; other site 1230587008219 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1230587008220 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 1230587008221 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1230587008222 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1230587008223 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1230587008224 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1230587008225 4Fe-4S binding domain; Region: Fer4; pfam00037 1230587008226 4Fe-4S binding domain; Region: Fer4; pfam00037 1230587008227 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1230587008228 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1230587008229 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1230587008230 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1230587008231 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1230587008232 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1230587008233 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587008234 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1230587008235 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587008236 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1230587008237 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587008238 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1230587008239 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1230587008240 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1230587008241 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1230587008242 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1230587008243 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1230587008244 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587008245 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1230587008246 dimer interface [polypeptide binding]; other site 1230587008247 substrate binding site [chemical binding]; other site 1230587008248 metal binding site [ion binding]; metal-binding site 1230587008249 Predicted secreted protein [Function unknown]; Region: COG5454 1230587008250 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1230587008251 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 1230587008252 dimer interface [polypeptide binding]; other site 1230587008253 motif 1; other site 1230587008254 active site 1230587008255 motif 2; other site 1230587008256 motif 3; other site 1230587008257 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 1230587008258 anticodon binding site; other site 1230587008259 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1230587008260 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1230587008261 FtsX-like permease family; Region: FtsX; pfam02687 1230587008262 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1230587008263 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1230587008264 Walker A/P-loop; other site 1230587008265 ATP binding site [chemical binding]; other site 1230587008266 Q-loop/lid; other site 1230587008267 ABC transporter signature motif; other site 1230587008268 Walker B; other site 1230587008269 D-loop; other site 1230587008270 H-loop/switch region; other site 1230587008271 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1230587008272 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1230587008273 putative active site [active] 1230587008274 putative PHP Thumb interface [polypeptide binding]; other site 1230587008275 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 1230587008276 generic binding surface II; other site 1230587008277 generic binding surface I; other site 1230587008278 hypothetical protein; Provisional; Region: PRK06132 1230587008279 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587008280 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1230587008281 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587008282 DNA polymerase IV; Provisional; Region: PRK02794 1230587008283 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1230587008284 active site 1230587008285 DNA binding site [nucleotide binding] 1230587008286 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 1230587008287 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587008288 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 1230587008289 active site 1230587008290 phosphorylation site [posttranslational modification] 1230587008291 intermolecular recognition site; other site 1230587008292 dimerization interface [polypeptide binding]; other site 1230587008293 response regulator PleD; Reviewed; Region: pleD; PRK09581 1230587008294 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 1230587008295 active site 1230587008296 phosphorylation site [posttranslational modification] 1230587008297 intermolecular recognition site; other site 1230587008298 dimerization interface [polypeptide binding]; other site 1230587008299 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 1230587008300 active site 1230587008301 phosphorylation site [posttranslational modification] 1230587008302 intermolecular recognition site; other site 1230587008303 dimerization interface [polypeptide binding]; other site 1230587008304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587008305 metal binding site [ion binding]; metal-binding site 1230587008306 active site 1230587008307 I-site; other site 1230587008308 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1230587008309 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 1230587008310 putative substrate translocation pore; other site 1230587008311 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587008312 hypothetical protein; Provisional; Region: PRK05978 1230587008313 ribonuclease R; Region: RNase_R; TIGR02063 1230587008314 RNB domain; Region: RNB; pfam00773 1230587008315 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 1230587008316 RNA binding site [nucleotide binding]; other site 1230587008317 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1230587008318 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 1230587008319 active site 1230587008320 interdomain interaction site; other site 1230587008321 putative metal-binding site [ion binding]; other site 1230587008322 nucleotide binding site [chemical binding]; other site 1230587008323 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 1230587008324 domain I; other site 1230587008325 DNA binding groove [nucleotide binding] 1230587008326 phosphate binding site [ion binding]; other site 1230587008327 domain II; other site 1230587008328 domain III; other site 1230587008329 nucleotide binding site [chemical binding]; other site 1230587008330 catalytic site [active] 1230587008331 domain IV; other site 1230587008332 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1230587008333 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1230587008334 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1230587008335 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1230587008336 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1230587008337 DNA protecting protein DprA; Region: dprA; TIGR00732 1230587008338 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1230587008339 dihydroorotase; Validated; Region: PRK09059 1230587008340 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 1230587008341 active site 1230587008342 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1230587008343 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1230587008344 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1230587008345 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1230587008346 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1230587008347 active site 1230587008348 Predicted permeases [General function prediction only]; Region: COG0679 1230587008349 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1230587008350 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1230587008351 metal-dependent hydrolase; Provisional; Region: PRK00685 1230587008352 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1230587008353 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1230587008354 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1230587008355 hypothetical protein; Provisional; Region: PRK13687 1230587008356 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1230587008357 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1230587008358 GatB domain; Region: GatB_Yqey; smart00845 1230587008359 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1230587008360 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587008361 Coenzyme A binding pocket [chemical binding]; other site 1230587008362 NADH dehydrogenase; Validated; Region: PRK08183 1230587008363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1230587008364 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1230587008365 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1230587008366 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1230587008367 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1230587008368 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1230587008369 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1230587008370 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 1230587008371 carboxyltransferase (CT) interaction site; other site 1230587008372 biotinylation site [posttranslational modification]; other site 1230587008373 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 1230587008374 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1230587008375 trimer interface [polypeptide binding]; other site 1230587008376 active site 1230587008377 dimer interface [polypeptide binding]; other site 1230587008378 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1230587008379 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 1230587008380 catalytic residues [active] 1230587008381 aspartate aminotransferase; Provisional; Region: PRK05764 1230587008382 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 1230587008383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587008384 homodimer interface [polypeptide binding]; other site 1230587008385 catalytic residue [active] 1230587008386 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 1230587008387 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 1230587008388 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1230587008389 AMIN domain; Region: AMIN; pfam11741 1230587008390 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 1230587008391 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1230587008392 active site 1230587008393 metal binding site [ion binding]; metal-binding site 1230587008394 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1230587008395 Transglycosylase; Region: Transgly; pfam00912 1230587008396 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1230587008397 peptide chain release factor 2; Provisional; Region: PRK07342 1230587008398 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1230587008399 RF-1 domain; Region: RF-1; pfam00472 1230587008400 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1230587008401 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1230587008402 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 1230587008403 dimer interface [polypeptide binding]; other site 1230587008404 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587008405 ligand binding site [chemical binding]; other site 1230587008406 LysR family transcriptional regulator; Provisional; Region: PRK14997 1230587008407 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587008408 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_4; cd08473 1230587008409 putative effector binding pocket; other site 1230587008410 putative dimerization interface [polypeptide binding]; other site 1230587008411 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1230587008412 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587008413 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1230587008414 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1230587008415 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1230587008416 elongation factor Tu; Reviewed; Region: PRK00049 1230587008417 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1230587008418 G1 box; other site 1230587008419 GEF interaction site [polypeptide binding]; other site 1230587008420 GTP/Mg2+ binding site [chemical binding]; other site 1230587008421 Switch I region; other site 1230587008422 G2 box; other site 1230587008423 G3 box; other site 1230587008424 Switch II region; other site 1230587008425 G4 box; other site 1230587008426 G5 box; other site 1230587008427 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 1230587008428 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 1230587008429 Antibiotic Binding Site [chemical binding]; other site 1230587008430 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587008431 extended (e) SDRs; Region: SDR_e; cd08946 1230587008432 NAD(P) binding site [chemical binding]; other site 1230587008433 active site 1230587008434 substrate binding site [chemical binding]; other site 1230587008435 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1230587008436 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1230587008437 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1230587008438 putative homodimer interface [polypeptide binding]; other site 1230587008439 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1230587008440 heterodimer interface [polypeptide binding]; other site 1230587008441 homodimer interface [polypeptide binding]; other site 1230587008442 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1230587008443 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 1230587008444 23S rRNA interface [nucleotide binding]; other site 1230587008445 L7/L12 interface [polypeptide binding]; other site 1230587008446 putative thiostrepton binding site; other site 1230587008447 L25 interface [polypeptide binding]; other site 1230587008448 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 1230587008449 mRNA/rRNA interface [nucleotide binding]; other site 1230587008450 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 1230587008451 23S rRNA interface [nucleotide binding]; other site 1230587008452 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1230587008453 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 1230587008454 core dimer interface [polypeptide binding]; other site 1230587008455 peripheral dimer interface [polypeptide binding]; other site 1230587008456 L10 interface [polypeptide binding]; other site 1230587008457 L11 interface [polypeptide binding]; other site 1230587008458 putative EF-Tu interaction site [polypeptide binding]; other site 1230587008459 putative EF-G interaction site [polypeptide binding]; other site 1230587008460 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1230587008461 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 1230587008462 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1230587008463 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 1230587008464 RPB11 interaction site [polypeptide binding]; other site 1230587008465 RPB12 interaction site [polypeptide binding]; other site 1230587008466 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 1230587008467 RPB1 interaction site [polypeptide binding]; other site 1230587008468 RPB11 interaction site [polypeptide binding]; other site 1230587008469 RPB10 interaction site [polypeptide binding]; other site 1230587008470 RPB3 interaction site [polypeptide binding]; other site 1230587008471 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1230587008472 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1230587008473 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1230587008474 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1230587008475 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1230587008476 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1230587008477 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1230587008478 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1230587008479 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 1230587008480 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1230587008481 DNA binding site [nucleotide binding] 1230587008482 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1230587008483 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1230587008484 S17 interaction site [polypeptide binding]; other site 1230587008485 S8 interaction site; other site 1230587008486 16S rRNA interaction site [nucleotide binding]; other site 1230587008487 streptomycin interaction site [chemical binding]; other site 1230587008488 23S rRNA interaction site [nucleotide binding]; other site 1230587008489 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1230587008490 30S ribosomal protein S7; Validated; Region: PRK05302 1230587008491 elongation factor G; Reviewed; Region: PRK00007 1230587008492 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1230587008493 G1 box; other site 1230587008494 putative GEF interaction site [polypeptide binding]; other site 1230587008495 GTP/Mg2+ binding site [chemical binding]; other site 1230587008496 Switch I region; other site 1230587008497 G2 box; other site 1230587008498 G3 box; other site 1230587008499 Switch II region; other site 1230587008500 G4 box; other site 1230587008501 G5 box; other site 1230587008502 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 1230587008503 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 1230587008504 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 1230587008505 elongation factor Tu; Reviewed; Region: PRK00049 1230587008506 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1230587008507 G1 box; other site 1230587008508 GEF interaction site [polypeptide binding]; other site 1230587008509 GTP/Mg2+ binding site [chemical binding]; other site 1230587008510 Switch I region; other site 1230587008511 G2 box; other site 1230587008512 G3 box; other site 1230587008513 Switch II region; other site 1230587008514 G4 box; other site 1230587008515 G5 box; other site 1230587008516 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 1230587008517 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 1230587008518 Antibiotic Binding Site [chemical binding]; other site 1230587008519 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1230587008520 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1230587008521 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1230587008522 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1230587008523 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1230587008524 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1230587008525 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1230587008526 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1230587008527 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 1230587008528 putative translocon binding site; other site 1230587008529 protein-rRNA interface [nucleotide binding]; other site 1230587008530 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1230587008531 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 1230587008532 G-X-X-G motif; other site 1230587008533 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1230587008534 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 1230587008535 23S rRNA interface [nucleotide binding]; other site 1230587008536 5S rRNA interface [nucleotide binding]; other site 1230587008537 putative antibiotic binding site [chemical binding]; other site 1230587008538 L25 interface [polypeptide binding]; other site 1230587008539 L27 interface [polypeptide binding]; other site 1230587008540 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 1230587008541 23S rRNA interface [nucleotide binding]; other site 1230587008542 putative translocon interaction site; other site 1230587008543 signal recognition particle (SRP54) interaction site; other site 1230587008544 L23 interface [polypeptide binding]; other site 1230587008545 trigger factor interaction site; other site 1230587008546 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1230587008547 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1230587008548 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1230587008549 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1230587008550 RNA binding site [nucleotide binding]; other site 1230587008551 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1230587008552 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1230587008553 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1230587008554 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1230587008555 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1230587008556 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1230587008557 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1230587008558 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1230587008559 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 1230587008560 23S rRNA interface [nucleotide binding]; other site 1230587008561 L21e interface [polypeptide binding]; other site 1230587008562 5S rRNA interface [nucleotide binding]; other site 1230587008563 L27 interface [polypeptide binding]; other site 1230587008564 L5 interface [polypeptide binding]; other site 1230587008565 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1230587008566 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1230587008567 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1230587008568 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 1230587008569 23S rRNA binding site [nucleotide binding]; other site 1230587008570 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1230587008571 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1230587008572 SecY translocase; Region: SecY; pfam00344 1230587008573 adenylate kinase; Reviewed; Region: adk; PRK00279 1230587008574 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 1230587008575 AMP-binding site [chemical binding]; other site 1230587008576 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1230587008577 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1230587008578 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1230587008579 30S ribosomal protein S11; Validated; Region: PRK05309 1230587008580 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1230587008581 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1230587008582 alphaNTD homodimer interface [polypeptide binding]; other site 1230587008583 alphaNTD - beta interaction site [polypeptide binding]; other site 1230587008584 alphaNTD - beta' interaction site [polypeptide binding]; other site 1230587008585 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1230587008586 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1230587008587 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1230587008588 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1230587008589 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1230587008590 Moco binding site; other site 1230587008591 metal coordination site [ion binding]; other site 1230587008592 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1230587008593 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1230587008594 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 1230587008595 protein binding site [polypeptide binding]; other site 1230587008596 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 1230587008597 protein binding site [polypeptide binding]; other site 1230587008598 recombination factor protein RarA; Reviewed; Region: PRK13342 1230587008599 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 1230587008600 Walker A motif; other site 1230587008601 ATP binding site [chemical binding]; other site 1230587008602 Walker B motif; other site 1230587008603 arginine finger; other site 1230587008604 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1230587008605 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1230587008606 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 1230587008607 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1230587008608 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 1230587008609 motif II; other site 1230587008610 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1230587008611 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; cl09940 1230587008612 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1230587008613 active site 1230587008614 camphor resistance protein CrcB; Provisional; Region: PRK14195 1230587008615 S-formylglutathione hydrolase; Region: PLN02442 1230587008616 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1230587008617 Predicted membrane protein [Function unknown]; Region: COG4291 1230587008618 hypothetical protein; Validated; Region: PRK00124 1230587008619 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1230587008620 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1230587008621 substrate binding site [chemical binding]; other site 1230587008622 catalytic Zn binding site [ion binding]; other site 1230587008623 NAD binding site [chemical binding]; other site 1230587008624 structural Zn binding site [ion binding]; other site 1230587008625 dimer interface [polypeptide binding]; other site 1230587008626 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 1230587008627 non-specific DNA binding site [nucleotide binding]; other site 1230587008628 salt bridge; other site 1230587008629 sequence-specific DNA binding site [nucleotide binding]; other site 1230587008630 lipoate-protein ligase B; Provisional; Region: PRK14341 1230587008631 PrkA family serine protein kinase; Provisional; Region: PRK15455 1230587008632 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 1230587008633 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1230587008634 Uncharacterized conserved protein [Function unknown]; Region: COG2718 1230587008635 SpoVR family protein; Provisional; Region: PRK11767 1230587008636 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1230587008637 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 1230587008638 active site 1230587008639 catalytic residues [active] 1230587008640 metal binding site [ion binding]; metal-binding site 1230587008641 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1230587008642 MgtE intracellular N domain; Region: MgtE_N; smart00924 1230587008643 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 1230587008644 Divalent cation transporter; Region: MgtE; cl00786 1230587008645 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1230587008646 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1230587008647 DNA binding residues [nucleotide binding] 1230587008648 putative dimer interface [polypeptide binding]; other site 1230587008649 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1230587008650 Predicted membrane protein [Function unknown]; Region: COG3503 1230587008651 Predicted membrane protein [Function unknown]; Region: COG3821 1230587008652 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1230587008653 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1230587008654 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1230587008655 Uncharacterized conserved protein [Function unknown]; Region: COG5458 1230587008656 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1230587008657 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1230587008658 Sporulation related domain; Region: SPOR; pfam05036 1230587008659 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1230587008660 PilZ domain; Region: PilZ; pfam07238 1230587008661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 1230587008662 PAS domain; Region: PAS_5; pfam07310 1230587008663 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1230587008664 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 1230587008665 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1230587008666 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1230587008667 nucleophile elbow; other site 1230587008668 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1230587008669 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1230587008670 GTP cyclohydrolase I; Provisional; Region: PLN03044 1230587008671 active site 1230587008672 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1230587008673 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1230587008674 trimerization site [polypeptide binding]; other site 1230587008675 active site 1230587008676 hypothetical protein; Validated; Region: PRK00041 1230587008677 Uncharacterized conserved protein [Function unknown]; Region: COG5502 1230587008678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 1230587008679 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1230587008680 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 1230587008681 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1230587008682 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 1230587008683 active site 1230587008684 dimer interface [polypeptide binding]; other site 1230587008685 motif 1; other site 1230587008686 motif 2; other site 1230587008687 motif 3; other site 1230587008688 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 1230587008689 anticodon binding site; other site 1230587008690 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 1230587008691 putative FMN binding site [chemical binding]; other site 1230587008692 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1230587008693 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1230587008694 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1230587008695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587008696 Coenzyme A binding pocket [chemical binding]; other site 1230587008697 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1230587008698 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 1230587008699 Mg2+ binding site [ion binding]; other site 1230587008700 G-X-G motif; other site 1230587008701 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 1230587008702 anchoring element; other site 1230587008703 dimer interface [polypeptide binding]; other site 1230587008704 ATP binding site [chemical binding]; other site 1230587008705 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 1230587008706 active site 1230587008707 metal binding site [ion binding]; metal-binding site 1230587008708 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1230587008709 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1230587008710 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587008711 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1230587008712 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1230587008713 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1230587008714 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 1230587008715 triosephosphate isomerase; Provisional; Region: PRK14565 1230587008716 substrate binding site [chemical binding]; other site 1230587008717 dimer interface [polypeptide binding]; other site 1230587008718 catalytic triad [active] 1230587008719 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1230587008720 CTP synthetase; Validated; Region: pyrG; PRK05380 1230587008721 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 1230587008722 Catalytic site [active] 1230587008723 active site 1230587008724 UTP binding site [chemical binding]; other site 1230587008725 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1230587008726 active site 1230587008727 putative oxyanion hole; other site 1230587008728 catalytic triad [active] 1230587008729 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1230587008730 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1230587008731 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1230587008732 enolase; Provisional; Region: eno; PRK00077 1230587008733 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 1230587008734 dimer interface [polypeptide binding]; other site 1230587008735 metal binding site [ion binding]; metal-binding site 1230587008736 substrate binding pocket [chemical binding]; other site 1230587008737 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1230587008738 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1230587008739 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1230587008740 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1230587008741 Septum formation initiator; Region: DivIC; pfam04977 1230587008742 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1230587008743 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 1230587008744 tetramer interface [polypeptide binding]; other site 1230587008745 TPP-binding site [chemical binding]; other site 1230587008746 heterodimer interface [polypeptide binding]; other site 1230587008747 phosphorylation loop region [posttranslational modification] 1230587008748 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 1230587008749 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 1230587008750 E3 interaction surface; other site 1230587008751 lipoyl attachment site [posttranslational modification]; other site 1230587008752 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 1230587008753 alpha subunit interface [polypeptide binding]; other site 1230587008754 TPP binding site [chemical binding]; other site 1230587008755 heterodimer interface [polypeptide binding]; other site 1230587008756 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587008757 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 1230587008758 E3 interaction surface; other site 1230587008759 lipoyl attachment site [posttranslational modification]; other site 1230587008760 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 1230587008761 e3 binding domain; Region: E3_binding; pfam02817 1230587008762 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1230587008763 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 1230587008764 active site 1230587008765 catalytic triad [active] 1230587008766 oxyanion hole [active] 1230587008767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587008768 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1230587008769 Coenzyme A binding pocket [chemical binding]; other site 1230587008770 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1230587008771 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1230587008772 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587008773 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1230587008774 Predicted membrane protein [Function unknown]; Region: COG2261 1230587008775 lipoyl synthase; Provisional; Region: PRK05481 1230587008776 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 1230587008777 FeS/SAM binding site; other site 1230587008778 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1230587008779 putative coenzyme Q binding site [chemical binding]; other site 1230587008780 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1230587008781 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1230587008782 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1230587008783 substrate binding site; other site 1230587008784 dimer interface; other site 1230587008785 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 1230587008786 homotrimer interaction site [polypeptide binding]; other site 1230587008787 zinc binding site [ion binding]; other site 1230587008788 CDP-binding sites; other site 1230587008789 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 1230587008790 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 1230587008791 FMN binding site [chemical binding]; other site 1230587008792 active site 1230587008793 catalytic residues [active] 1230587008794 substrate binding site [chemical binding]; other site 1230587008795 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1230587008796 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 1230587008797 dimer interface [polypeptide binding]; other site 1230587008798 phosphorylation site [posttranslational modification] 1230587008799 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 1230587008800 ATP binding site [chemical binding]; other site 1230587008801 Mg2+ binding site [ion binding]; other site 1230587008802 G-X-G motif; other site 1230587008803 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1230587008804 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 1230587008805 active site 1230587008806 phosphorylation site [posttranslational modification] 1230587008807 intermolecular recognition site; other site 1230587008808 dimerization interface [polypeptide binding]; other site 1230587008809 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 1230587008810 Walker A motif; other site 1230587008811 ATP binding site [chemical binding]; other site 1230587008812 Walker B motif; other site 1230587008813 arginine finger; other site 1230587008814 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1230587008815 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1230587008816 HAMP domain; Region: HAMP; pfam00672 1230587008817 dimerization interface [polypeptide binding]; other site 1230587008818 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 1230587008819 dimer interface [polypeptide binding]; other site 1230587008820 phosphorylation site [posttranslational modification] 1230587008821 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 1230587008822 ATP binding site [chemical binding]; other site 1230587008823 Mg2+ binding site [ion binding]; other site 1230587008824 G-X-G motif; other site 1230587008825 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1230587008826 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 1230587008827 active site 1230587008828 phosphorylation site [posttranslational modification] 1230587008829 intermolecular recognition site; other site 1230587008830 dimerization interface [polypeptide binding]; other site 1230587008831 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 1230587008832 Walker A motif; other site 1230587008833 ATP binding site [chemical binding]; other site 1230587008834 Walker B motif; other site 1230587008835 arginine finger; other site 1230587008836 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1230587008837 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1230587008838 TrkA-N domain; Region: TrkA_N; pfam02254 1230587008839 TrkA-C domain; Region: TrkA_C; pfam02080 1230587008840 TrkA-N domain; Region: TrkA_N; pfam02254 1230587008841 TrkA-C domain; Region: TrkA_C; pfam02080 1230587008842 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1230587008843 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 1230587008844 homodimer interface [polypeptide binding]; other site 1230587008845 substrate-cofactor binding pocket; other site 1230587008846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587008847 catalytic residue [active] 1230587008848 bacterial Hfq-like; Region: Hfq; cd01716 1230587008849 hexamer interface [polypeptide binding]; other site 1230587008850 Sm1 motif; other site 1230587008851 RNA binding site [nucleotide binding]; other site 1230587008852 Sm2 motif; other site 1230587008853 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1230587008854 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1230587008855 HflX GTPase family; Region: HflX; cd01878 1230587008856 G1 box; other site 1230587008857 GTP/Mg2+ binding site [chemical binding]; other site 1230587008858 Switch I region; other site 1230587008859 G2 box; other site 1230587008860 G3 box; other site 1230587008861 Switch II region; other site 1230587008862 G4 box; other site 1230587008863 G5 box; other site 1230587008864 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1230587008865 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 1230587008866 homodimer interface [polypeptide binding]; other site 1230587008867 metal binding site [ion binding]; metal-binding site 1230587008868 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 1230587008869 homodimer interface [polypeptide binding]; other site 1230587008870 active site 1230587008871 putative chemical substrate binding site [chemical binding]; other site 1230587008872 metal binding site [ion binding]; metal-binding site 1230587008873 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 1230587008874 nucleoside/Zn binding site; other site 1230587008875 dimer interface [polypeptide binding]; other site 1230587008876 catalytic motif [active] 1230587008877 siroheme synthase; Provisional; Region: cysG; PRK10637 1230587008878 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1230587008879 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1230587008880 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1230587008881 active site 1230587008882 SAM binding site [chemical binding]; other site 1230587008883 homodimer interface [polypeptide binding]; other site 1230587008884 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 1230587008885 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1230587008886 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1230587008887 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1230587008888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1230587008889 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1230587008890 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 1230587008891 FAD binding pocket [chemical binding]; other site 1230587008892 FAD binding motif [chemical binding]; other site 1230587008893 phosphate binding motif [ion binding]; other site 1230587008894 beta-alpha-beta structure motif; other site 1230587008895 NAD binding pocket [chemical binding]; other site 1230587008896 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1230587008897 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1230587008898 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1230587008899 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587008900 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587008901 Walker A/P-loop; other site 1230587008902 ATP binding site [chemical binding]; other site 1230587008903 Q-loop/lid; other site 1230587008904 ABC transporter signature motif; other site 1230587008905 Walker B; other site 1230587008906 D-loop; other site 1230587008907 H-loop/switch region; other site 1230587008908 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587008909 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587008910 dimer interface [polypeptide binding]; other site 1230587008911 conserved gate region; other site 1230587008912 putative PBP binding loops; other site 1230587008913 ABC-ATPase subunit interface; other site 1230587008914 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1230587008915 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587008916 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587008917 dimer interface [polypeptide binding]; other site 1230587008918 conserved gate region; other site 1230587008919 putative PBP binding loops; other site 1230587008920 ABC-ATPase subunit interface; other site 1230587008921 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1230587008922 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 1230587008923 substrate binding pocket [chemical binding]; other site 1230587008924 membrane-bound complex binding site; other site 1230587008925 hinge residues; other site 1230587008926 cystathionine beta-lyase; Provisional; Region: PRK05967 1230587008927 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 1230587008928 homodimer interface [polypeptide binding]; other site 1230587008929 substrate-cofactor binding pocket; other site 1230587008930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587008931 catalytic residue [active] 1230587008932 salicylate hydroxylase; Provisional; Region: PRK08163 1230587008933 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1230587008934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1230587008935 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587008936 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587008937 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1230587008938 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 1230587008939 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 1230587008940 trimer interface [polypeptide binding]; other site 1230587008941 active site 1230587008942 substrate binding site [chemical binding]; other site 1230587008943 CoA binding site [chemical binding]; other site 1230587008944 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 1230587008945 Phasin protein; Region: Phasin_2; pfam09361 1230587008946 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1230587008947 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1230587008948 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 1230587008949 Walker A motif; other site 1230587008950 ATP binding site [chemical binding]; other site 1230587008951 Walker B motif; other site 1230587008952 arginine finger; other site 1230587008953 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 1230587008954 Walker A motif; other site 1230587008955 ATP binding site [chemical binding]; other site 1230587008956 Walker B motif; other site 1230587008957 arginine finger; other site 1230587008958 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1230587008959 AzlC protein; Region: AzlC; pfam03591 1230587008960 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 1230587008961 HIT family signature motif; other site 1230587008962 catalytic residue [active] 1230587008963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 1230587008964 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1230587008965 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 1230587008966 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1230587008967 putative active site [active] 1230587008968 catalytic site [active] 1230587008969 putative metal binding site [ion binding]; other site 1230587008970 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 1230587008971 homotrimer interaction site [polypeptide binding]; other site 1230587008972 putative active site [active] 1230587008973 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 1230587008974 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 1230587008975 rRNA interaction site [nucleotide binding]; other site 1230587008976 S8 interaction site; other site 1230587008977 putative laminin-1 binding site; other site 1230587008978 elongation factor Ts; Provisional; Region: tsf; PRK09377 1230587008979 UBA/TS-N domain; Region: UBA; pfam00627 1230587008980 Elongation factor TS; Region: EF_TS; pfam00889 1230587008981 Elongation factor TS; Region: EF_TS; pfam00889 1230587008982 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 1230587008983 putative nucleotide binding site [chemical binding]; other site 1230587008984 uridine monophosphate binding site [chemical binding]; other site 1230587008985 homohexameric interface [polypeptide binding]; other site 1230587008986 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1230587008987 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 1230587008988 hinge region; other site 1230587008989 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 1230587008990 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 1230587008991 catalytic residue [active] 1230587008992 putative FPP diphosphate binding site; other site 1230587008993 putative FPP binding hydrophobic cleft; other site 1230587008994 dimer interface [polypeptide binding]; other site 1230587008995 putative IPP diphosphate binding site; other site 1230587008996 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1230587008997 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1230587008998 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1230587008999 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 1230587009000 active site 1230587009001 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 1230587009002 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1230587009003 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 1230587009004 putative substrate binding region [chemical binding]; other site 1230587009005 putative substrate binding region [chemical binding]; other site 1230587009006 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1230587009007 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1230587009008 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1230587009009 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1230587009010 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1230587009011 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1230587009012 Surface antigen; Region: Bac_surface_Ag; pfam01103 1230587009013 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1230587009014 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1230587009015 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 1230587009016 trimer interface [polypeptide binding]; other site 1230587009017 active site 1230587009018 UDP-GlcNAc binding site [chemical binding]; other site 1230587009019 lipid binding site [chemical binding]; lipid-binding site 1230587009020 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 1230587009021 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1230587009022 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 1230587009023 active site 1230587009024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1230587009025 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 1230587009026 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1230587009027 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 1230587009028 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1230587009029 dimer interface [polypeptide binding]; other site 1230587009030 active site 1230587009031 citrylCoA binding site [chemical binding]; other site 1230587009032 NADH binding [chemical binding]; other site 1230587009033 cationic pore residues; other site 1230587009034 oxalacetate/citrate binding site [chemical binding]; other site 1230587009035 coenzyme A binding site [chemical binding]; other site 1230587009036 catalytic triad [active] 1230587009037 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1230587009038 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1230587009039 Competence protein; Region: Competence; pfam03772 1230587009040 tonB-system energizer ExbB; Region: exbB; TIGR02797 1230587009041 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1230587009042 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1230587009043 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1230587009044 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 1230587009045 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 1230587009046 S-adenosylmethionine binding site [chemical binding]; other site 1230587009047 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1230587009048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1230587009049 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1230587009050 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1230587009051 HIGH motif; other site 1230587009052 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1230587009053 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1230587009054 active site 1230587009055 KMSKS motif; other site 1230587009056 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1230587009057 tRNA binding surface [nucleotide binding]; other site 1230587009058 anticodon binding site; other site 1230587009059 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1230587009060 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1230587009061 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1230587009062 Sel1-like repeats; Region: SEL1; smart00671 1230587009063 Sel1-like repeats; Region: SEL1; smart00671 1230587009064 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 1230587009065 putative catalytic site [active] 1230587009066 putative phosphate binding site [ion binding]; other site 1230587009067 active site 1230587009068 metal binding site A [ion binding]; metal-binding site 1230587009069 DNA binding site [nucleotide binding] 1230587009070 putative AP binding site [nucleotide binding]; other site 1230587009071 putative metal binding site B [ion binding]; other site 1230587009072 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1230587009073 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1230587009074 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1230587009075 putative active site [active] 1230587009076 catalytic site [active] 1230587009077 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1230587009078 putative active site [active] 1230587009079 catalytic site [active] 1230587009080 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1230587009081 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1230587009082 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1230587009083 Zn2+ binding site [ion binding]; other site 1230587009084 Mg2+ binding site [ion binding]; other site 1230587009085 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1230587009086 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1230587009087 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1230587009088 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1230587009089 active site 1230587009090 HIGH motif; other site 1230587009091 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1230587009092 KMSK motif region; other site 1230587009093 tRNA binding surface [nucleotide binding]; other site 1230587009094 DALR anticodon binding domain; Region: DALR_1; smart00836 1230587009095 anticodon binding site; other site 1230587009096 Sporulation related domain; Region: SPOR; pfam05036 1230587009097 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1230587009098 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1230587009099 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1230587009100 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 1230587009101 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587009102 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1230587009103 Walker A/P-loop; other site 1230587009104 ATP binding site [chemical binding]; other site 1230587009105 Q-loop/lid; other site 1230587009106 ABC transporter signature motif; other site 1230587009107 Walker B; other site 1230587009108 D-loop; other site 1230587009109 H-loop/switch region; other site 1230587009110 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 1230587009111 sec-independent translocase; Provisional; Region: PRK00708 1230587009112 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1230587009113 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1230587009114 seryl-tRNA synthetase; Provisional; Region: PRK05431 1230587009115 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1230587009116 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 1230587009117 dimer interface [polypeptide binding]; other site 1230587009118 active site 1230587009119 motif 1; other site 1230587009120 motif 2; other site 1230587009121 motif 3; other site 1230587009122 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1230587009123 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1230587009124 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 1230587009125 S-adenosylmethionine binding site [chemical binding]; other site 1230587009126 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1230587009127 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1230587009128 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1230587009129 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1230587009130 Peptidase family M23; Region: Peptidase_M23; pfam01551 1230587009131 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1230587009132 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 1230587009133 Walker A motif; other site 1230587009134 ATP binding site [chemical binding]; other site 1230587009135 Walker B motif; other site 1230587009136 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1230587009137 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 1230587009138 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1230587009139 Protein export membrane protein; Region: SecD_SecF; cl14618 1230587009140 Protein export membrane protein; Region: SecD_SecF; pfam02355 1230587009141 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 1230587009142 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 1230587009143 substrate binding pocket [chemical binding]; other site 1230587009144 aspartate-rich region 1; other site 1230587009145 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1230587009146 Glucose inhibited division protein A; Region: GIDA; pfam01134 1230587009147 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1230587009148 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1230587009149 trigger factor; Provisional; Region: tig; PRK01490 1230587009150 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1230587009151 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1230587009152 glycine dehydrogenase; Provisional; Region: PRK05367 1230587009153 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 1230587009154 tetramer interface [polypeptide binding]; other site 1230587009155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587009156 catalytic residue [active] 1230587009157 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 1230587009158 tetramer interface [polypeptide binding]; other site 1230587009159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587009160 catalytic residue [active] 1230587009161 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 1230587009162 lipoyl attachment site [posttranslational modification]; other site 1230587009163 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1230587009164 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587009165 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1230587009166 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1230587009167 CRISPR-associated protein, Csx11 family; Region: cas_csx11; TIGR02682 1230587009168 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1230587009169 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587009170 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1230587009171 N-terminal domain interface [polypeptide binding]; other site 1230587009172 dimer interface [polypeptide binding]; other site 1230587009173 substrate binding pocket (H-site) [chemical binding]; other site 1230587009174 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 1230587009175 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1230587009176 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1230587009177 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1230587009178 active site 1230587009179 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1230587009180 TSCPD domain; Region: TSCPD; pfam12637 1230587009181 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1230587009182 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1230587009183 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1230587009184 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1230587009185 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1230587009186 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1230587009187 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 1230587009188 dimer interface [polypeptide binding]; other site 1230587009189 ssDNA binding site [nucleotide binding]; other site 1230587009190 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1230587009191 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1230587009192 DNA gyrase subunit A; Validated; Region: PRK05560 1230587009193 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 1230587009194 CAP-like domain; other site 1230587009195 active site 1230587009196 primary dimer interface [polypeptide binding]; other site 1230587009197 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1230587009198 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1230587009199 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1230587009200 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1230587009201 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1230587009202 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1230587009203 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 1230587009204 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1230587009205 catalytic residue [active] 1230587009206 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1230587009207 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587009208 Coenzyme A binding pocket [chemical binding]; other site 1230587009209 Streptomycin 6-kinase [Defense mechanisms]; Region: StrB; COG3570 1230587009210 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1230587009211 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 1230587009212 FMN binding site [chemical binding]; other site 1230587009213 active site 1230587009214 substrate binding site [chemical binding]; other site 1230587009215 catalytic residue [active] 1230587009216 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 1230587009217 dimerization interface [polypeptide binding]; other site 1230587009218 putative DNA binding site [nucleotide binding]; other site 1230587009219 putative Zn2+ binding site [ion binding]; other site 1230587009220 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587009221 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587009222 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 1230587009223 putative effector binding pocket; other site 1230587009224 dimerization interface [polypeptide binding]; other site 1230587009225 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1230587009226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1230587009227 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587009228 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587009229 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 1230587009230 putative DNA binding site [nucleotide binding]; other site 1230587009231 putative Zn2+ binding site [ion binding]; other site 1230587009232 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587009233 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1230587009234 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1230587009235 putative metal binding site; other site 1230587009236 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587009237 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1230587009238 putative ADP-binding pocket [chemical binding]; other site 1230587009239 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587009240 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1230587009241 putative ADP-binding pocket [chemical binding]; other site 1230587009242 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 1230587009243 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587009244 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1230587009245 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1230587009246 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1230587009247 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 1230587009248 putative substrate translocation pore; other site 1230587009249 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1230587009250 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1230587009251 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1230587009252 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1230587009253 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1230587009254 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1230587009255 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 1230587009256 IMP binding site; other site 1230587009257 dimer interface [polypeptide binding]; other site 1230587009258 partial ornithine binding site; other site 1230587009259 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587009260 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 1230587009261 putative NAD(P) binding site [chemical binding]; other site 1230587009262 catalytic Zn binding site [ion binding]; other site 1230587009263 Predicted metalloprotease [General function prediction only]; Region: COG2321 1230587009264 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1230587009265 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 1230587009266 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587009267 putative substrate translocation pore; other site 1230587009268 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1230587009269 putative efflux protein, MATE family; Region: matE; TIGR00797 1230587009270 cation binding site [ion binding]; other site 1230587009271 Protein of unknown function DUF86; Region: DUF86; cl01031 1230587009272 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1230587009273 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1230587009274 active site 1230587009275 (T/H)XGH motif; other site 1230587009276 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 1230587009277 active site 1230587009278 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 1230587009279 active site 1230587009280 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1230587009281 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1230587009282 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1230587009283 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1230587009284 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1230587009285 classical (c) SDRs; Region: SDR_c; cd05233 1230587009286 NAD(P) binding site [chemical binding]; other site 1230587009287 active site 1230587009288 SEC-C motif; Region: SEC-C; pfam02810 1230587009289 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1230587009290 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1230587009291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587009292 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587009293 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587009294 classical (c) SDRs; Region: SDR_c; cd05233 1230587009295 NAD(P) binding site [chemical binding]; other site 1230587009296 active site 1230587009297 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587009298 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 1230587009299 putative substrate translocation pore; other site 1230587009300 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1230587009301 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 1230587009302 DNA binding site [nucleotide binding] 1230587009303 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587009304 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 1230587009305 TPR motif; other site 1230587009306 binding surface 1230587009307 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 1230587009308 TPR motif; other site 1230587009309 binding surface 1230587009310 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587009311 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587009312 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587009313 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587009314 Integrase core domain; Region: rve; pfam00665 1230587009315 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1230587009316 putative hydrolase; Provisional; Region: PRK02113 1230587009317 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1230587009318 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1230587009319 active site 1230587009320 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1230587009321 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1230587009322 active site 1230587009323 HIGH motif; other site 1230587009324 KMSKS motif; other site 1230587009325 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1230587009326 tRNA binding surface [nucleotide binding]; other site 1230587009327 anticodon binding site; other site 1230587009328 DNA polymerase III subunit delta'; Validated; Region: PRK09112 1230587009329 AAA ATPase domain; Region: AAA_16; pfam13191 1230587009330 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1230587009331 Peptidase family M23; Region: Peptidase_M23; pfam01551 1230587009332 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1230587009333 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 1230587009334 TMP-binding site; other site 1230587009335 ATP-binding site [chemical binding]; other site 1230587009336 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1230587009337 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1230587009338 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1230587009339 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1230587009340 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1230587009341 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1230587009342 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1230587009343 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1230587009344 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1230587009345 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1230587009346 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1230587009347 LexA repressor; Validated; Region: PRK00215 1230587009348 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1230587009349 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 1230587009350 Catalytic site [active] 1230587009351 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1230587009352 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1230587009353 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1230587009354 putative active site [active] 1230587009355 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1230587009356 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1230587009357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587009358 short chain dehydrogenase; Provisional; Region: PRK06101 1230587009359 NAD(P) binding site [chemical binding]; other site 1230587009360 active site 1230587009361 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1230587009362 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 1230587009363 dimer interface [polypeptide binding]; other site 1230587009364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587009365 catalytic residue [active] 1230587009366 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1230587009367 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1230587009368 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587009369 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587009370 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587009371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1230587009372 Integrase core domain; Region: rve; pfam00665 1230587009373 Integrase core domain; Region: rve_3; pfam13683 1230587009374 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1230587009375 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 1230587009376 active site residue [active] 1230587009377 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 1230587009378 active site residue [active] 1230587009379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1230587009380 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 1230587009381 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1230587009382 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1230587009383 hexamer interface [polypeptide binding]; other site 1230587009384 ligand binding site [chemical binding]; other site 1230587009385 putative active site [active] 1230587009386 NAD(P) binding site [chemical binding]; other site 1230587009387 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587009388 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 1230587009389 putative DNA binding site [nucleotide binding]; other site 1230587009390 putative Zn2+ binding site [ion binding]; other site 1230587009391 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587009392 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1230587009393 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1230587009394 active site 1230587009395 metal binding site [ion binding]; metal-binding site 1230587009396 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1230587009397 Uncharacterized conserved protein [Function unknown]; Region: COG5453 1230587009398 threonine dehydratase; Validated; Region: PRK08639 1230587009399 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 1230587009400 tetramer interface [polypeptide binding]; other site 1230587009401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587009402 catalytic residue [active] 1230587009403 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1230587009404 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1230587009405 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1230587009406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1230587009407 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1230587009408 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587009409 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1230587009410 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 1230587009411 putative MPT binding site; other site 1230587009412 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1230587009413 active site 1230587009414 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1230587009415 putative carbohydrate kinase; Provisional; Region: PRK10565 1230587009416 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 1230587009417 putative substrate binding site [chemical binding]; other site 1230587009418 putative ATP binding site [chemical binding]; other site 1230587009419 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1230587009420 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1230587009421 glutamine synthetase; Provisional; Region: glnA; PRK09469 1230587009422 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1230587009423 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1230587009424 Uncharacterized conserved protein [Function unknown]; Region: COG3785 1230587009425 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1230587009426 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1230587009427 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 1230587009428 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1230587009429 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 1230587009430 catalytic residues [active] 1230587009431 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1230587009432 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587009433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587009434 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1230587009435 Sulfatase; Region: Sulfatase; pfam00884 1230587009436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1230587009437 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1230587009438 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1230587009439 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1230587009440 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1230587009441 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1230587009442 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1230587009443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587009444 NAD(P) binding site [chemical binding]; other site 1230587009445 active site 1230587009446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587009447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587009448 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 1230587009449 putative effector binding pocket; other site 1230587009450 dimerization interface [polypeptide binding]; other site 1230587009451 Peptidase M4 family containing mostly uncharacterized proteins; Region: M4_uncharacterized; cd09598 1230587009452 Zn binding site [ion binding]; other site 1230587009453 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1230587009454 TfuA-like protein; Region: TfuA; pfam07812 1230587009455 Uncharacterized conserved protein [Function unknown]; Region: COG1944 1230587009456 YcaO-like family; Region: YcaO; pfam02624 1230587009457 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 1230587009458 cyclase homology domain; Region: CHD; cd07302 1230587009459 nucleotidyl binding site; other site 1230587009460 metal binding site [ion binding]; metal-binding site 1230587009461 dimer interface [polypeptide binding]; other site 1230587009462 AAA ATPase domain; Region: AAA_16; pfam13191 1230587009463 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 1230587009464 putative catalytic site [active] 1230587009465 putative phosphate binding site [ion binding]; other site 1230587009466 active site 1230587009467 metal binding site A [ion binding]; metal-binding site 1230587009468 DNA binding site [nucleotide binding] 1230587009469 putative AP binding site [nucleotide binding]; other site 1230587009470 putative metal binding site B [ion binding]; other site 1230587009471 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1230587009472 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1230587009473 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 1230587009474 ATP binding site [chemical binding]; other site 1230587009475 putative Mg++ binding site [ion binding]; other site 1230587009476 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 1230587009477 nucleotide binding region [chemical binding]; other site 1230587009478 ATP-binding site [chemical binding]; other site 1230587009479 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1230587009480 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1230587009481 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1230587009482 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 1230587009483 generic binding surface II; other site 1230587009484 ssDNA binding site; other site 1230587009485 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 1230587009486 ATP binding site [chemical binding]; other site 1230587009487 putative Mg++ binding site [ion binding]; other site 1230587009488 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 1230587009489 nucleotide binding region [chemical binding]; other site 1230587009490 ATP-binding site [chemical binding]; other site 1230587009491 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1230587009492 putative acetyltransferase; Provisional; Region: PRK03624 1230587009493 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587009494 Coenzyme A binding pocket [chemical binding]; other site 1230587009495 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1230587009496 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 1230587009497 glutaminase active site [active] 1230587009498 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 1230587009499 dimer interface [polypeptide binding]; other site 1230587009500 active site 1230587009501 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 1230587009502 dimer interface [polypeptide binding]; other site 1230587009503 active site 1230587009504 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1230587009505 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1230587009506 Substrate binding site; other site 1230587009507 Mg++ binding site; other site 1230587009508 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 1230587009509 active site 1230587009510 substrate binding site [chemical binding]; other site 1230587009511 CoA binding site [chemical binding]; other site 1230587009512 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1230587009513 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1230587009514 PhoU domain; Region: PhoU; pfam01895 1230587009515 PhoU domain; Region: PhoU; pfam01895 1230587009516 SurA N-terminal domain; Region: SurA_N_3; cl07813 1230587009517 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1230587009518 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1230587009519 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1230587009520 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1230587009521 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1230587009522 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 1230587009523 active site 1230587009524 ribulose/triose binding site [chemical binding]; other site 1230587009525 phosphate binding site [ion binding]; other site 1230587009526 substrate (anthranilate) binding pocket [chemical binding]; other site 1230587009527 product (indole) binding pocket [chemical binding]; other site 1230587009528 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 1230587009529 trimer interface [polypeptide binding]; other site 1230587009530 dimer interface [polypeptide binding]; other site 1230587009531 putative active site [active] 1230587009532 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1230587009533 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 1230587009534 dimer interface [polypeptide binding]; other site 1230587009535 putative functional site; other site 1230587009536 putative MPT binding site; other site 1230587009537 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1230587009538 Domain of unknown function DUF21; Region: DUF21; pfam01595 1230587009539 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 1230587009540 Transporter associated domain; Region: CorC_HlyC; smart01091 1230587009541 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587009542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587009543 DNA-binding site [nucleotide binding]; DNA binding site 1230587009544 FCD domain; Region: FCD; pfam07729 1230587009545 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1230587009546 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 1230587009547 putative ligand binding site [chemical binding]; other site 1230587009548 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587009549 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 1230587009550 TM-ABC transporter signature motif; other site 1230587009551 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587009552 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 1230587009553 TM-ABC transporter signature motif; other site 1230587009554 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1230587009555 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587009556 Walker A/P-loop; other site 1230587009557 ATP binding site [chemical binding]; other site 1230587009558 Q-loop/lid; other site 1230587009559 ABC transporter signature motif; other site 1230587009560 Walker B; other site 1230587009561 D-loop; other site 1230587009562 H-loop/switch region; other site 1230587009563 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587009564 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1230587009565 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1230587009566 NADP binding site [chemical binding]; other site 1230587009567 dimer interface [polypeptide binding]; other site 1230587009568 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1230587009569 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1230587009570 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 1230587009571 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1230587009572 Predicted permeases [General function prediction only]; Region: COG0679 1230587009573 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1230587009574 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1230587009575 peptide chain release factor 1; Provisional; Region: PRK04011 1230587009576 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1230587009577 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1230587009578 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1230587009579 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1230587009580 conserved cys residue [active] 1230587009581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587009582 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1230587009583 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cl00720 1230587009584 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587009585 classical (c) SDRs; Region: SDR_c; cd05233 1230587009586 NAD(P) binding site [chemical binding]; other site 1230587009587 active site 1230587009588 acyl-CoA synthetase; Validated; Region: PRK07470 1230587009589 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1230587009590 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1230587009591 acyl-activating enzyme (AAE) consensus motif; other site 1230587009592 acyl-activating enzyme (AAE) consensus motif; other site 1230587009593 putative AMP binding site [chemical binding]; other site 1230587009594 putative active site [active] 1230587009595 putative CoA binding site [chemical binding]; other site 1230587009596 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 1230587009597 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1230587009598 active site 1230587009599 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587009600 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1230587009601 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587009602 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587009603 classical (c) SDRs; Region: SDR_c; cd05233 1230587009604 NAD(P) binding site [chemical binding]; other site 1230587009605 active site 1230587009606 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587009607 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1230587009608 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587009609 DctM-like transporters; Region: DctM; pfam06808 1230587009610 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1230587009611 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1230587009612 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1230587009613 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 1230587009614 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587009615 catalytic residue [active] 1230587009616 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587009617 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 1230587009618 putative DNA binding site [nucleotide binding]; other site 1230587009619 putative Zn2+ binding site [ion binding]; other site 1230587009620 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587009621 BCCT family transporter; Region: BCCT; cl00569 1230587009622 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1230587009623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1230587009624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587009625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587009626 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1230587009627 substrate binding pocket [chemical binding]; other site 1230587009628 dimerization interface [polypeptide binding]; other site 1230587009629 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587009630 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 1230587009631 Uncharacterized conserved protein [Function unknown]; Region: COG1430 1230587009632 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 1230587009633 DNA-binding site [nucleotide binding]; DNA binding site 1230587009634 RNA-binding motif; other site 1230587009635 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 1230587009636 DNA-binding site [nucleotide binding]; DNA binding site 1230587009637 RNA-binding motif; other site 1230587009638 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587009639 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1230587009640 dimer interface [polypeptide binding]; other site 1230587009641 active site 1230587009642 metal binding site [ion binding]; metal-binding site 1230587009643 glutathione binding site [chemical binding]; other site 1230587009644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1230587009645 Peptidase M15; Region: Peptidase_M15_3; pfam08291 1230587009646 Domain of unknown function (DUF932); Region: DUF932; cl12129 1230587009647 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1230587009648 DHH family; Region: DHH; pfam01368 1230587009649 DHHA1 domain; Region: DHHA1; pfam02272 1230587009650 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1230587009651 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 1230587009652 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1230587009653 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1230587009654 aminotransferase; Validated; Region: PRK09148 1230587009655 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 1230587009656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587009657 homodimer interface [polypeptide binding]; other site 1230587009658 catalytic residue [active] 1230587009659 Short C-terminal domain; Region: SHOCT; pfam09851 1230587009660 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1230587009661 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1230587009662 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1230587009663 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 1230587009664 active site 1230587009665 hypothetical protein; Reviewed; Region: PRK00024 1230587009666 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1230587009667 MPN+ (JAMM) motif; other site 1230587009668 Zinc-binding site [ion binding]; other site 1230587009669 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1230587009670 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1230587009671 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1230587009672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587009673 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1230587009674 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 1230587009675 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1230587009676 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1230587009677 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 1230587009678 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587009679 catalytic residue [active] 1230587009680 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1230587009681 FeS assembly protein SufD; Region: sufD; TIGR01981 1230587009682 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1230587009683 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1230587009684 Walker A/P-loop; other site 1230587009685 ATP binding site [chemical binding]; other site 1230587009686 Q-loop/lid; other site 1230587009687 ABC transporter signature motif; other site 1230587009688 Walker B; other site 1230587009689 D-loop; other site 1230587009690 H-loop/switch region; other site 1230587009691 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1230587009692 putative ABC transporter; Region: ycf24; CHL00085 1230587009693 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1230587009694 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1230587009695 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587009696 catalytic residue [active] 1230587009697 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1230587009698 Predicted molecular chaperone distantly related to HSP70-fold metalloproteases [Posttranslational modification, protein turnover, chaperones]; Region: COG2377 1230587009699 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1230587009700 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1230587009701 active site 1230587009702 HIGH motif; other site 1230587009703 dimer interface [polypeptide binding]; other site 1230587009704 KMSKS motif; other site 1230587009705 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 1230587009706 RNA binding surface [nucleotide binding]; other site 1230587009707 Protein of unknown function; Region: DUF3971; pfam13116 1230587009708 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 1230587009709 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1230587009710 catalytic triad [active] 1230587009711 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1230587009712 dinuclear metal binding motif [ion binding]; other site 1230587009713 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1230587009714 Peptidase family M23; Region: Peptidase_M23; pfam01551 1230587009715 helicase 45; Provisional; Region: PTZ00424 1230587009716 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 1230587009717 ATP binding site [chemical binding]; other site 1230587009718 Mg++ binding site [ion binding]; other site 1230587009719 motif III; other site 1230587009720 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 1230587009721 nucleotide binding region [chemical binding]; other site 1230587009722 ATP-binding site [chemical binding]; other site 1230587009723 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_20; cd04679 1230587009724 nudix motif; other site 1230587009725 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1230587009726 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1230587009727 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 1230587009728 putative MPT binding site; other site 1230587009729 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1230587009730 Ligand binding site; other site 1230587009731 metal-binding site 1230587009732 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1230587009733 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1230587009734 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1230587009735 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1230587009736 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1230587009737 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1230587009738 metal ion-dependent adhesion site (MIDAS); other site 1230587009739 MoxR-like ATPases [General function prediction only]; Region: COG0714 1230587009740 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 1230587009741 Walker A motif; other site 1230587009742 ATP binding site [chemical binding]; other site 1230587009743 Walker B motif; other site 1230587009744 arginine finger; other site 1230587009745 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1230587009746 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1230587009747 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 1230587009748 ligand binding site [chemical binding]; other site 1230587009749 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 1230587009750 putative active site pocket [active] 1230587009751 cleavage site 1230587009752 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1230587009753 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 1230587009754 substrate binding site [chemical binding]; other site 1230587009755 hexamer interface [polypeptide binding]; other site 1230587009756 metal binding site [ion binding]; metal-binding site 1230587009757 Predicted secreted protein [Function unknown]; Region: COG5497 1230587009758 adenylosuccinate lyase; Provisional; Region: PRK07492 1230587009759 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1230587009760 tetramer interface [polypeptide binding]; other site 1230587009761 active site 1230587009762 PilZ domain; Region: PilZ; cl01260 1230587009763 Predicted integral membrane protein [Function unknown]; Region: COG5473 1230587009764 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1230587009765 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587009766 Uncharacterized conserved protein [Function unknown]; Region: COG5467 1230587009767 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1230587009768 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1230587009769 ATP binding site [chemical binding]; other site 1230587009770 active site 1230587009771 substrate binding site [chemical binding]; other site 1230587009772 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1230587009773 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1230587009774 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1230587009775 putative active site [active] 1230587009776 catalytic triad [active] 1230587009777 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 1230587009778 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587009779 DNA-binding site [nucleotide binding]; DNA binding site 1230587009780 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 1230587009781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587009782 homodimer interface [polypeptide binding]; other site 1230587009783 catalytic residue [active] 1230587009784 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1230587009785 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1230587009786 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 1230587009787 dimerization interface [polypeptide binding]; other site 1230587009788 ATP binding site [chemical binding]; other site 1230587009789 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 1230587009790 dimerization interface [polypeptide binding]; other site 1230587009791 ATP binding site [chemical binding]; other site 1230587009792 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1230587009793 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 1230587009794 putative GSH binding site [chemical binding]; other site 1230587009795 catalytic residues [active] 1230587009796 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1230587009797 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 1230587009798 putative substrate translocation pore; other site 1230587009799 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 1230587009800 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1230587009801 putative substrate translocation pore; other site 1230587009802 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 1230587009803 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587009804 active site 1230587009805 putative lithium-binding site [ion binding]; other site 1230587009806 substrate binding site [chemical binding]; other site 1230587009807 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1230587009808 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 1230587009809 Ligand Binding Site [chemical binding]; other site 1230587009810 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1230587009811 glutaminase; Provisional; Region: PRK00971 1230587009812 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1230587009813 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1230587009814 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 1230587009815 RNA binding surface [nucleotide binding]; other site 1230587009816 Domain of unknown function DUF87; Region: DUF87; pfam01935 1230587009817 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1230587009818 glutamate racemase; Provisional; Region: PRK00865 1230587009819 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1230587009820 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1230587009821 Predicted membrane protein [Function unknown]; Region: COG1289 1230587009822 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1230587009823 isocitrate dehydrogenase; Validated; Region: PRK08299 1230587009824 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1230587009825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587009826 Protein involved in beta-1,3-glucan synthesis [Carbohydrate transport and metabolism]; Region: SMI1; COG4282 1230587009827 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1230587009828 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1230587009829 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1230587009830 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1230587009831 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1230587009832 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1230587009833 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1230587009834 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1230587009835 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1230587009836 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 1230587009837 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1230587009838 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 1230587009839 motif 1; other site 1230587009840 active site 1230587009841 motif 2; other site 1230587009842 motif 3; other site 1230587009843 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1230587009844 recombinase A; Provisional; Region: recA; PRK09354 1230587009845 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 1230587009846 hexamer interface [polypeptide binding]; other site 1230587009847 Walker A motif; other site 1230587009848 ATP binding site [chemical binding]; other site 1230587009849 Walker B motif; other site 1230587009850 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587009851 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 1230587009852 substrate binding site [chemical binding]; other site 1230587009853 ATP binding site [chemical binding]; other site 1230587009854 Uncharacterized enzyme involved in pigment biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IndA; COG2313 1230587009855 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1230587009856 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1230587009857 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1230587009858 PAS domain; Region: PAS; smart00091 1230587009859 PAS domain; Region: PAS_9; pfam13426 1230587009860 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587009861 PAS domain; Region: PAS; smart00091 1230587009862 putative active site [active] 1230587009863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587009864 heme pocket [chemical binding]; other site 1230587009865 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 1230587009866 dimer interface [polypeptide binding]; other site 1230587009867 phosphorylation site [posttranslational modification] 1230587009868 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 1230587009869 ATP binding site [chemical binding]; other site 1230587009870 Mg2+ binding site [ion binding]; other site 1230587009871 G-X-G motif; other site 1230587009872 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 1230587009873 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587009874 active site 1230587009875 phosphorylation site [posttranslational modification] 1230587009876 intermolecular recognition site; other site 1230587009877 dimerization interface [polypeptide binding]; other site 1230587009878 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1230587009879 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 1230587009880 catalytic core [active] 1230587009881 Predicted ATPase [General function prediction only]; Region: COG3106 1230587009882 Predicted membrane protein [Function unknown]; Region: COG3768 1230587009883 Domain of unknown function (DUF697); Region: DUF697; cl12064 1230587009884 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 1230587009885 catalytic center binding site [active] 1230587009886 ATP binding site [chemical binding]; other site 1230587009887 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 1230587009888 homooctamer interface [polypeptide binding]; other site 1230587009889 active site 1230587009890 dihydropteroate synthase; Region: DHPS; TIGR01496 1230587009891 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 1230587009892 substrate binding pocket [chemical binding]; other site 1230587009893 dimer interface [polypeptide binding]; other site 1230587009894 inhibitor binding site; inhibition site 1230587009895 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 1230587009896 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1230587009897 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 1230587009898 catalytic loop [active] 1230587009899 iron binding site [ion binding]; other site 1230587009900 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1230587009901 cytochrome b; Provisional; Region: CYTB; MTH00191 1230587009902 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 1230587009903 Qi binding site; other site 1230587009904 intrachain domain interface; other site 1230587009905 interchain domain interface [polypeptide binding]; other site 1230587009906 heme bH binding site [chemical binding]; other site 1230587009907 heme bL binding site [chemical binding]; other site 1230587009908 Qo binding site; other site 1230587009909 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 1230587009910 interchain domain interface [polypeptide binding]; other site 1230587009911 intrachain domain interface; other site 1230587009912 Qi binding site; other site 1230587009913 Qo binding site; other site 1230587009914 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1230587009915 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1230587009916 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 1230587009917 [2Fe-2S] cluster binding site [ion binding]; other site 1230587009918 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1230587009919 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587009920 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1230587009921 Walker A/P-loop; other site 1230587009922 ATP binding site [chemical binding]; other site 1230587009923 Q-loop/lid; other site 1230587009924 ABC transporter signature motif; other site 1230587009925 Walker B; other site 1230587009926 D-loop; other site 1230587009927 H-loop/switch region; other site 1230587009928 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1230587009929 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587009930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587009931 Walker A/P-loop; other site 1230587009932 ATP binding site [chemical binding]; other site 1230587009933 Q-loop/lid; other site 1230587009934 ABC transporter signature motif; other site 1230587009935 Walker B; other site 1230587009936 D-loop; other site 1230587009937 H-loop/switch region; other site 1230587009938 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1230587009939 Predicted flavoprotein [General function prediction only]; Region: COG0431 1230587009940 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587009941 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1230587009942 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1230587009943 DNA binding residues [nucleotide binding] 1230587009944 dimer interface [polypeptide binding]; other site 1230587009945 [2Fe-2S] cluster binding site [ion binding]; other site 1230587009946 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1230587009947 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 1230587009948 Predicted transcriptional regulator [Transcription]; Region: COG3636 1230587009949 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 1230587009950 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1230587009951 mce related protein; Region: MCE; pfam02470 1230587009952 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1230587009953 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1230587009954 Walker A/P-loop; other site 1230587009955 ATP binding site [chemical binding]; other site 1230587009956 Q-loop/lid; other site 1230587009957 ABC transporter signature motif; other site 1230587009958 Walker B; other site 1230587009959 D-loop; other site 1230587009960 H-loop/switch region; other site 1230587009961 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1230587009962 Permease; Region: Permease; pfam02405 1230587009963 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 1230587009964 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1230587009965 active site 1230587009966 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 1230587009967 putative substrate translocation pore; other site 1230587009968 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1230587009969 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1230587009970 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1230587009971 putative active site [active] 1230587009972 putative metal binding site [ion binding]; other site 1230587009973 malic enzyme; Reviewed; Region: PRK12862 1230587009974 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1230587009975 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1230587009976 putative NAD(P) binding site [chemical binding]; other site 1230587009977 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1230587009978 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1230587009979 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 1230587009980 DNA binding residues [nucleotide binding] 1230587009981 dimerization interface [polypeptide binding]; other site 1230587009982 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 1230587009983 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 1230587009984 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 1230587009985 putative FMN binding site [chemical binding]; other site 1230587009986 short chain dehydrogenase; Provisional; Region: PRK06198 1230587009987 classical (c) SDRs; Region: SDR_c; cd05233 1230587009988 NAD(P) binding site [chemical binding]; other site 1230587009989 active site 1230587009990 Protein involved in biosynthesis of mitomycin antibiotics/polyketide fumonisin [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5285 1230587009991 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587009992 DNA binding site [nucleotide binding] 1230587009993 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587009994 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1230587009995 putative ligand binding site [chemical binding]; other site 1230587009996 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1230587009997 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1230587009998 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1230587009999 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1230587010000 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1230587010001 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1230587010002 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1230587010003 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1230587010004 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1230587010005 NAD synthetase; Provisional; Region: PRK13981 1230587010006 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1230587010007 multimer interface [polypeptide binding]; other site 1230587010008 active site 1230587010009 catalytic triad [active] 1230587010010 protein interface 1 [polypeptide binding]; other site 1230587010011 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 1230587010012 homodimer interface [polypeptide binding]; other site 1230587010013 NAD binding pocket [chemical binding]; other site 1230587010014 ATP binding pocket [chemical binding]; other site 1230587010015 Mg binding site [ion binding]; other site 1230587010016 active-site loop [active] 1230587010017 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1230587010018 Sulfatase; Region: Sulfatase; pfam00884 1230587010019 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1230587010020 TadE-like protein; Region: TadE; pfam07811 1230587010021 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1230587010022 Predicted membrane protein [Function unknown]; Region: COG4655 1230587010023 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1230587010024 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587010025 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1230587010026 glutathione-disulfide reductase, plant; Region: gluta_reduc_2; TIGR01424 1230587010027 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587010028 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1230587010029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 1230587010030 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 1230587010031 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1230587010032 active site 1230587010033 dimer interface [polypeptide binding]; other site 1230587010034 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1230587010035 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 1230587010036 motif II; other site 1230587010037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1230587010038 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587010039 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587010040 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1230587010041 Class II fumarases; Region: Fumarase_classII; cd01362 1230587010042 active site 1230587010043 tetramer interface [polypeptide binding]; other site 1230587010044 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1230587010045 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587010046 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587010047 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1230587010048 MarR family; Region: MarR; pfam01047 1230587010049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1230587010050 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1230587010051 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 1230587010052 FeS/SAM binding site; other site 1230587010053 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1230587010054 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587010055 EamA-like transporter family; Region: EamA; pfam00892 1230587010056 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1230587010057 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1230587010058 GTP binding site; other site 1230587010059 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 1230587010060 Walker A motif; other site 1230587010061 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1230587010062 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1230587010063 ligand binding site [chemical binding]; other site 1230587010064 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1230587010065 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 1230587010066 substrate binding pocket [chemical binding]; other site 1230587010067 membrane-bound complex binding site; other site 1230587010068 hinge residues; other site 1230587010069 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587010070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587010071 dimer interface [polypeptide binding]; other site 1230587010072 conserved gate region; other site 1230587010073 putative PBP binding loops; other site 1230587010074 ABC-ATPase subunit interface; other site 1230587010075 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587010076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587010077 dimer interface [polypeptide binding]; other site 1230587010078 conserved gate region; other site 1230587010079 putative PBP binding loops; other site 1230587010080 ABC-ATPase subunit interface; other site 1230587010081 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 1230587010082 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1230587010083 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1230587010084 putative NAD(P) binding site [chemical binding]; other site 1230587010085 putative active site [active] 1230587010086 Predicted integral membrane protein [Function unknown]; Region: COG5530 1230587010087 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 1230587010088 Tetratricopeptide repeat; Region: TPR_1; pfam00515 1230587010089 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1230587010090 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1230587010091 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1230587010092 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1230587010093 active site 1230587010094 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587010095 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 1230587010096 putative DNA binding site [nucleotide binding]; other site 1230587010097 putative Zn2+ binding site [ion binding]; other site 1230587010098 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587010099 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1230587010100 putative uracil binding site [chemical binding]; other site 1230587010101 putative active site [active] 1230587010102 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1230587010103 Catalytic site; other site 1230587010104 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1230587010105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587010106 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 1230587010107 dimer interface [polypeptide binding]; other site 1230587010108 phosphorylation site [posttranslational modification] 1230587010109 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 1230587010110 ATP binding site [chemical binding]; other site 1230587010111 Mg2+ binding site [ion binding]; other site 1230587010112 G-X-G motif; other site 1230587010113 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1230587010114 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1230587010115 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1230587010116 putative dimer interface [polypeptide binding]; other site 1230587010117 active site pocket [active] 1230587010118 putative cataytic base [active] 1230587010119 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1230587010120 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1230587010121 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1230587010122 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1230587010123 catalytic motif [active] 1230587010124 Catalytic residue [active] 1230587010125 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1230587010126 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1230587010127 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1230587010128 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1230587010129 Walker A/P-loop; other site 1230587010130 ATP binding site [chemical binding]; other site 1230587010131 Q-loop/lid; other site 1230587010132 ABC transporter signature motif; other site 1230587010133 Walker B; other site 1230587010134 D-loop; other site 1230587010135 H-loop/switch region; other site 1230587010136 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 1230587010137 dimerization interface [polypeptide binding]; other site 1230587010138 putative DNA binding site [nucleotide binding]; other site 1230587010139 putative Zn2+ binding site [ion binding]; other site 1230587010140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1230587010141 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1230587010142 Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the...; Region: KAZAL_FS; cl00097 1230587010143 Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the...; Region: KAZAL_FS; cl00097 1230587010144 Cache domain; Region: Cache_2; pfam08269 1230587010145 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 1230587010146 dimerization interface [polypeptide binding]; other site 1230587010147 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1230587010148 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1230587010149 dimer interface [polypeptide binding]; other site 1230587010150 putative CheW interface [polypeptide binding]; other site 1230587010151 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 1230587010152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3169 1230587010153 excinuclease ABC subunit B; Provisional; Region: PRK05298 1230587010154 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 1230587010155 ATP binding site [chemical binding]; other site 1230587010156 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 1230587010157 nucleotide binding region [chemical binding]; other site 1230587010158 ATP-binding site [chemical binding]; other site 1230587010159 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1230587010160 UvrB/uvrC motif; Region: UVR; pfam02151 1230587010161 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 1230587010162 HSP70 interaction site [polypeptide binding]; other site 1230587010163 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 1230587010164 DNA-binding site [nucleotide binding]; DNA binding site 1230587010165 RNA-binding motif; other site 1230587010166 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 1230587010167 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1230587010168 FMN binding site [chemical binding]; other site 1230587010169 active site 1230587010170 catalytic residues [active] 1230587010171 substrate binding site [chemical binding]; other site 1230587010172 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1230587010173 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 1230587010174 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1230587010175 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1230587010176 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 1230587010177 trimer interface [polypeptide binding]; other site 1230587010178 putative metal binding site [ion binding]; other site 1230587010179 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1230587010180 metal binding site 2 [ion binding]; metal-binding site 1230587010181 putative DNA binding helix; other site 1230587010182 metal binding site 1 [ion binding]; metal-binding site 1230587010183 dimer interface [polypeptide binding]; other site 1230587010184 structural Zn2+ binding site [ion binding]; other site 1230587010185 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1230587010186 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 1230587010187 ABC-ATPase subunit interface; other site 1230587010188 dimer interface [polypeptide binding]; other site 1230587010189 putative PBP binding regions; other site 1230587010190 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1230587010191 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1230587010192 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1230587010193 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 1230587010194 metal binding site [ion binding]; metal-binding site 1230587010195 Predicted integral membrane protein [Function unknown]; Region: COG5455 1230587010196 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1230587010197 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1230587010198 inhibitor binding site; inhibition site 1230587010199 active site 1230587010200 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1230587010201 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1230587010202 DctM-like transporters; Region: DctM; pfam06808 1230587010203 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1230587010204 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1230587010205 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1230587010206 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 1230587010207 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587010208 active site 1230587010209 catalytic tetrad [active] 1230587010210 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587010211 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587010212 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587010213 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1230587010214 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1230587010215 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1230587010216 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1230587010217 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587010218 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587010219 Walker A/P-loop; other site 1230587010220 ATP binding site [chemical binding]; other site 1230587010221 Q-loop/lid; other site 1230587010222 ABC transporter signature motif; other site 1230587010223 Walker B; other site 1230587010224 D-loop; other site 1230587010225 H-loop/switch region; other site 1230587010226 TOBE domain; Region: TOBE; pfam03459 1230587010227 TOBE domain; Region: TOBE_2; pfam08402 1230587010228 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587010229 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587010230 dimer interface [polypeptide binding]; other site 1230587010231 conserved gate region; other site 1230587010232 putative PBP binding loops; other site 1230587010233 ABC-ATPase subunit interface; other site 1230587010234 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587010235 dimer interface [polypeptide binding]; other site 1230587010236 conserved gate region; other site 1230587010237 putative PBP binding loops; other site 1230587010238 ABC-ATPase subunit interface; other site 1230587010239 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587010240 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587010241 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587010242 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587010243 DNA binding site [nucleotide binding] 1230587010244 domain linker motif; other site 1230587010245 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 1230587010246 ligand binding site [chemical binding]; other site 1230587010247 Frequency clock protein; Region: FRQ; pfam09421 1230587010248 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1230587010249 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1230587010250 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1230587010251 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1230587010252 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1230587010253 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1230587010254 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1230587010255 Helix-turn-helix domain; Region: HTH_18; pfam12833 1230587010256 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1230587010257 hydrophobic ligand binding site; other site 1230587010258 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587010259 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 1230587010260 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1230587010261 putative acyl-acceptor binding pocket; other site 1230587010262 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587010263 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 1230587010264 putative NAD(P) binding site [chemical binding]; other site 1230587010265 structural Zn binding site [ion binding]; other site 1230587010266 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 1230587010267 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 1230587010268 dimer interface [polypeptide binding]; other site 1230587010269 active site 1230587010270 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 1230587010271 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 1230587010272 active site 1230587010273 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 1230587010274 active site 2 [active] 1230587010275 active site 1 [active] 1230587010276 acyl carrier protein; Provisional; Region: PRK06508 1230587010277 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1230587010278 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1230587010279 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 1230587010280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587010281 homodimer interface [polypeptide binding]; other site 1230587010282 catalytic residue [active] 1230587010283 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1230587010284 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1230587010285 conserved cys residue [active] 1230587010286 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1230587010287 active site 1230587010288 SAM binding site [chemical binding]; other site 1230587010289 homodimer interface [polypeptide binding]; other site 1230587010290 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1230587010291 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1230587010292 hypothetical protein; Provisional; Region: PRK10621 1230587010293 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1230587010294 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587010295 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587010296 Walker A/P-loop; other site 1230587010297 ATP binding site [chemical binding]; other site 1230587010298 Q-loop/lid; other site 1230587010299 ABC transporter signature motif; other site 1230587010300 Walker B; other site 1230587010301 D-loop; other site 1230587010302 H-loop/switch region; other site 1230587010303 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587010304 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587010305 Walker A/P-loop; other site 1230587010306 ATP binding site [chemical binding]; other site 1230587010307 Q-loop/lid; other site 1230587010308 ABC transporter signature motif; other site 1230587010309 Walker B; other site 1230587010310 D-loop; other site 1230587010311 H-loop/switch region; other site 1230587010312 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1230587010313 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1230587010314 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587010315 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 1230587010316 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587010317 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587010318 dimer interface [polypeptide binding]; other site 1230587010319 conserved gate region; other site 1230587010320 putative PBP binding loops; other site 1230587010321 ABC-ATPase subunit interface; other site 1230587010322 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1230587010323 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587010324 dimer interface [polypeptide binding]; other site 1230587010325 conserved gate region; other site 1230587010326 putative PBP binding loops; other site 1230587010327 ABC-ATPase subunit interface; other site 1230587010328 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1230587010329 ANTAR domain; Region: ANTAR; pfam03861 1230587010330 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1230587010331 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 1230587010332 ligand binding site [chemical binding]; other site 1230587010333 regulator interaction site; other site 1230587010334 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1230587010335 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1230587010336 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 1230587010337 homodimer interface [polypeptide binding]; other site 1230587010338 Walker A motif; other site 1230587010339 ATP binding site [chemical binding]; other site 1230587010340 hydroxycobalamin binding site [chemical binding]; other site 1230587010341 Walker B motif; other site 1230587010342 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1230587010343 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1230587010344 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1230587010345 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1230587010346 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1230587010347 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1230587010348 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 1230587010349 homotrimer interface [polypeptide binding]; other site 1230587010350 Walker A motif; other site 1230587010351 GTP binding site [chemical binding]; other site 1230587010352 Walker B motif; other site 1230587010353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1230587010354 FecR protein; Region: FecR; pfam04773 1230587010355 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1230587010356 CHASE2 domain; Region: CHASE2; pfam05226 1230587010357 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587010358 cyclase homology domain; Region: CHD; cd07302 1230587010359 nucleotidyl binding site; other site 1230587010360 metal binding site [ion binding]; metal-binding site 1230587010361 dimer interface [polypeptide binding]; other site 1230587010362 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587010363 cobyric acid synthase; Provisional; Region: PRK00784 1230587010364 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 1230587010365 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1230587010366 catalytic triad [active] 1230587010367 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1230587010368 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1230587010369 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1230587010370 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1230587010371 Walker A/P-loop; other site 1230587010372 ATP binding site [chemical binding]; other site 1230587010373 Q-loop/lid; other site 1230587010374 ABC transporter signature motif; other site 1230587010375 Walker B; other site 1230587010376 D-loop; other site 1230587010377 H-loop/switch region; other site 1230587010378 T4 gene Gp59 loader of gp41 DNA helicase C-term; Region: T4_Gp59_C; pfam08994 1230587010379 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1230587010380 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1230587010381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587010382 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 1230587010383 dimerization interface [polypeptide binding]; other site 1230587010384 methionine synthase I; Validated; Region: PRK07534 1230587010385 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1230587010386 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1230587010387 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 1230587010388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587010389 homodimer interface [polypeptide binding]; other site 1230587010390 catalytic residue [active] 1230587010391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1230587010392 YheO-like PAS domain; Region: PAS_6; pfam08348 1230587010393 HTH domain; Region: HTH_22; pfam13309 1230587010394 Predicted periplasmic protein [Function unknown]; Region: COG3698 1230587010395 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1230587010396 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 1230587010397 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 1230587010398 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1230587010399 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1230587010400 B12 binding site [chemical binding]; other site 1230587010401 cobalt ligand [ion binding]; other site 1230587010402 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1230587010403 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1230587010404 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 1230587010405 putative active site [active] 1230587010406 putative cosubstrate binding site; other site 1230587010407 putative substrate binding site [chemical binding]; other site 1230587010408 catalytic site [active] 1230587010409 BA14K-like protein; Region: BA14K; pfam07886 1230587010410 Virulence factor; Region: Virulence_fact; pfam13769 1230587010411 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 1230587010412 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 1230587010413 FAD binding site [chemical binding]; other site 1230587010414 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1230587010415 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1230587010416 substrate binding pocket [chemical binding]; other site 1230587010417 dimer interface [polypeptide binding]; other site 1230587010418 inhibitor binding site; inhibition site 1230587010419 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1230587010420 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 1230587010421 catalytic loop [active] 1230587010422 iron binding site [ion binding]; other site 1230587010423 Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II; Region: CPT; cd00227 1230587010424 AAA domain; Region: AAA_33; pfam13671 1230587010425 P-loop motif; other site 1230587010426 ATP binding site [chemical binding]; other site 1230587010427 Chloramphenicol (Cm) binding site [chemical binding]; other site 1230587010428 catalytic residue [active] 1230587010429 Ligand-binding SRPBCC domain of Micromonospora echinospora CalC and related proteins; Region: SRPBCC_CalC; cd08891 1230587010430 putative hydrophobic ligand binding site [chemical binding]; other site 1230587010431 CLM binding site; other site 1230587010432 L1 loop; other site 1230587010433 DNA binding site [nucleotide binding] 1230587010434 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 1230587010435 dimerization interface [polypeptide binding]; other site 1230587010436 putative DNA binding site [nucleotide binding]; other site 1230587010437 putative Zn2+ binding site [ion binding]; other site 1230587010438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587010439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587010440 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 1230587010441 dimerization interface [polypeptide binding]; other site 1230587010442 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1230587010443 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1230587010444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1230587010445 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1230587010446 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1230587010447 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1230587010448 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1230587010449 putative homodimer interface [polypeptide binding]; other site 1230587010450 putative homotetramer interface [polypeptide binding]; other site 1230587010451 putative metal binding site [ion binding]; other site 1230587010452 putative homodimer-homodimer interface [polypeptide binding]; other site 1230587010453 putative allosteric switch controlling residues; other site 1230587010454 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1230587010455 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1230587010456 conserved cys residue [active] 1230587010457 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587010458 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587010459 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 1230587010460 active site 1230587010461 phosphorylation site [posttranslational modification] 1230587010462 intermolecular recognition site; other site 1230587010463 dimerization interface [polypeptide binding]; other site 1230587010464 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587010465 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 1230587010466 active site 1230587010467 phosphorylation site [posttranslational modification] 1230587010468 intermolecular recognition site; other site 1230587010469 dimerization interface [polypeptide binding]; other site 1230587010470 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587010471 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587010472 cyclase homology domain; Region: CHD; cd07302 1230587010473 nucleotidyl binding site; other site 1230587010474 metal binding site [ion binding]; metal-binding site 1230587010475 dimer interface [polypeptide binding]; other site 1230587010476 RibD C-terminal domain; Region: RibD_C; cl17279 1230587010477 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1230587010478 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1230587010479 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1230587010480 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1230587010481 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587010482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1230587010483 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 1230587010484 transmembrane helices; other site 1230587010485 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1230587010486 TrkA-C domain; Region: TrkA_C; pfam02080 1230587010487 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 1230587010488 Protein of unknown function (DUF1515); Region: DUF1515; pfam07439 1230587010489 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1230587010490 catalytic residue [active] 1230587010491 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 1230587010492 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1230587010493 active site 1230587010494 Terminase-like family; Region: Terminase_6; pfam03237 1230587010495 Bacteriophage terminase large (ATPase) subunit and inactivated derivatives [General function prediction only]; Region: COG5565 1230587010496 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587010497 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 1230587010498 DnaA box-binding interface [nucleotide binding]; other site 1230587010499 Predicted transcriptional regulator [Transcription]; Region: COG2932 1230587010500 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 1230587010501 non-specific DNA binding site [nucleotide binding]; other site 1230587010502 salt bridge; other site 1230587010503 sequence-specific DNA binding site [nucleotide binding]; other site 1230587010504 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 1230587010505 Catalytic site [active] 1230587010506 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1230587010507 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1230587010508 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1230587010509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1230587010510 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587010511 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1230587010512 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 1230587010513 DNA binding residues [nucleotide binding] 1230587010514 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1230587010515 FecR protein; Region: FecR; pfam04773 1230587010516 Secretin and TonB N terminus short domain; Region: STN; smart00965 1230587010517 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1230587010518 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 1230587010519 N-terminal plug; other site 1230587010520 ligand-binding site [chemical binding]; other site 1230587010521 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1230587010522 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587010523 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1230587010524 Walker A/P-loop; other site 1230587010525 ATP binding site [chemical binding]; other site 1230587010526 Q-loop/lid; other site 1230587010527 ABC transporter signature motif; other site 1230587010528 Walker B; other site 1230587010529 D-loop; other site 1230587010530 H-loop/switch region; other site 1230587010531 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1230587010532 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587010533 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1230587010534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4424 1230587010535 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1230587010536 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1230587010537 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1230587010538 alkyl hydroperoxide reductase subunit F; Region: AhpF; TIGR03140 1230587010539 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1230587010540 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 1230587010541 active site 1230587010542 DNA binding site [nucleotide binding] 1230587010543 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1230587010544 DNA binding site [nucleotide binding] 1230587010545 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 1230587010546 Predicted chitinase [General function prediction only]; Region: COG3179 1230587010547 catalytic residue [active] 1230587010548 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587010549 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1230587010550 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 1230587010551 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1230587010552 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1230587010553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 1230587010554 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 1230587010555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 1230587010556 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 1230587010557 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1230587010558 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1230587010559 Phage terminase large subunit; Region: Terminase_3; cl12054 1230587010560 Terminase-like family; Region: Terminase_6; pfam03237 1230587010561 Uncharacterized conserved protein [Function unknown]; Region: COG5323 1230587010562 Terminase small subunit; Region: Terminase_2; cl01513 1230587010563 Transcription termination factor nusG; Region: NusG; pfam02357 1230587010564 GcrA cell cycle regulator; Region: GcrA; cl11564 1230587010565 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1230587010566 Ligand Binding Site [chemical binding]; other site 1230587010567 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1230587010568 DNA methylase; Region: N6_N4_Mtase; pfam01555 1230587010569 DNA methylase; Region: N6_N4_Mtase; pfam01555 1230587010570 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1230587010571 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 1230587010572 Predicted transcriptional regulator [Transcription]; Region: COG2932 1230587010573 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 1230587010574 Catalytic site [active] 1230587010575 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 1230587010576 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 1230587010577 phage recombination protein Bet; Region: bet_lambda; TIGR01913 1230587010578 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 1230587010579 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 1230587010580 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; cd00569 1230587010581 DNA-binding interface [nucleotide binding]; DNA binding site 1230587010582 HNH endonuclease; Region: HNH_3; pfam13392 1230587010583 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 1230587010584 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1230587010585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4333 1230587010586 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1230587010587 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 1230587010588 active site 1230587010589 catalytic residues [active] 1230587010590 DNA binding site [nucleotide binding] 1230587010591 Int/Topo IB signature motif; other site 1230587010592 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1230587010593 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; cd02883 1230587010594 nudix motif; other site 1230587010595 putative catalytic site [active] 1230587010596 putative phosphate binding site [ion binding]; other site 1230587010597 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1230587010598 putative metal binding site [ion binding]; other site 1230587010599 TIGR02594 family protein; Region: TIGR02594 1230587010600 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1230587010601 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1230587010602 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1230587010603 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1230587010604 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1230587010605 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1230587010606 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587010607 cyclase homology domain; Region: CHD; cd07302 1230587010608 nucleotidyl binding site; other site 1230587010609 metal binding site [ion binding]; metal-binding site 1230587010610 dimer interface [polypeptide binding]; other site 1230587010611 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587010612 TPR repeat; Region: TPR_11; pfam13414 1230587010613 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 1230587010614 binding surface 1230587010615 TPR motif; other site 1230587010616 cell division protein FtsZ; Provisional; Region: PRK13018 1230587010617 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 1230587010618 nucleotide binding site [chemical binding]; other site 1230587010619 SulA interaction site; other site 1230587010620 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1230587010621 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 1230587010622 active site 1230587010623 motif I; other site 1230587010624 motif II; other site 1230587010625 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1230587010626 AAA ATPase domain; Region: AAA_16; pfam13191 1230587010627 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587010628 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1230587010629 Walker A/P-loop; other site 1230587010630 ATP binding site [chemical binding]; other site 1230587010631 Q-loop/lid; other site 1230587010632 ABC transporter signature motif; other site 1230587010633 Walker B; other site 1230587010634 D-loop; other site 1230587010635 H-loop/switch region; other site 1230587010636 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587010637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587010638 dimer interface [polypeptide binding]; other site 1230587010639 conserved gate region; other site 1230587010640 putative PBP binding loops; other site 1230587010641 ABC-ATPase subunit interface; other site 1230587010642 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587010643 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587010644 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 1230587010645 DNA-binding site [nucleotide binding]; DNA binding site 1230587010646 RNA-binding motif; other site 1230587010647 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1230587010648 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587010649 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 1230587010650 C-terminal domain interface [polypeptide binding]; other site 1230587010651 GSH binding site (G-site) [chemical binding]; other site 1230587010652 dimer interface [polypeptide binding]; other site 1230587010653 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1230587010654 N-terminal domain interface [polypeptide binding]; other site 1230587010655 dimer interface [polypeptide binding]; other site 1230587010656 substrate binding pocket (H-site) [chemical binding]; other site 1230587010657 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 1230587010658 active site 1230587010659 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587010660 catalytic tetrad [active] 1230587010661 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1230587010662 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 1230587010663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587010664 homodimer interface [polypeptide binding]; other site 1230587010665 catalytic residue [active] 1230587010666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587010667 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587010668 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1230587010669 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1230587010670 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587010671 cyclase homology domain; Region: CHD; cd07302 1230587010672 nucleotidyl binding site; other site 1230587010673 metal binding site [ion binding]; metal-binding site 1230587010674 dimer interface [polypeptide binding]; other site 1230587010675 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1230587010676 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1230587010677 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1230587010678 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587010679 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587010680 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1230587010681 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587010682 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1230587010683 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1230587010684 Walker A/P-loop; other site 1230587010685 ATP binding site [chemical binding]; other site 1230587010686 Q-loop/lid; other site 1230587010687 ABC transporter signature motif; other site 1230587010688 Walker B; other site 1230587010689 D-loop; other site 1230587010690 H-loop/switch region; other site 1230587010691 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1230587010692 FtsX-like permease family; Region: FtsX; pfam02687 1230587010693 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1230587010694 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1230587010695 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1230587010696 Catalytic site; other site 1230587010697 Uncharacterized bacterial proteins with similarity to Aminoglycoside 3'-phosphotransferase (APH) and Choline kinase (ChoK) family members. The APH/ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases; Region: APH_ChoK_like_1; cd05155 1230587010698 Phosphotransferase enzyme family; Region: APH; pfam01636 1230587010699 putative active site [active] 1230587010700 putative substrate binding site [chemical binding]; other site 1230587010701 ATP binding site [chemical binding]; other site 1230587010702 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1230587010703 benzoate transport; Region: 2A0115; TIGR00895 1230587010704 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 1230587010705 putative substrate translocation pore; other site 1230587010706 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 1230587010707 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1230587010708 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587010709 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 1230587010710 putative active site [active] 1230587010711 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1230587010712 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587010713 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587010714 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 1230587010715 putative DNA binding site [nucleotide binding]; other site 1230587010716 putative Zn2+ binding site [ion binding]; other site 1230587010717 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587010718 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1230587010719 aspartate racemase; Region: asp_race; TIGR00035 1230587010720 Predicted transcriptional regulators [Transcription]; Region: COG1733 1230587010721 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1230587010722 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1230587010723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587010724 NAD(P) binding site [chemical binding]; other site 1230587010725 active site 1230587010726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 1230587010727 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 1230587010728 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587010729 DNA-binding site [nucleotide binding]; DNA binding site 1230587010730 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 1230587010731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587010732 homodimer interface [polypeptide binding]; other site 1230587010733 catalytic residue [active] 1230587010734 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 1230587010735 active site 1230587010736 hydrophilic channel; other site 1230587010737 dimerization interface [polypeptide binding]; other site 1230587010738 catalytic residues [active] 1230587010739 active site lid [active] 1230587010740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 1230587010741 EF-hand domain pair; Region: EF_hand_5; pfam13499 1230587010742 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1230587010743 Ca2+ binding site [ion binding]; other site 1230587010744 Peptidase M4 family containing mostly uncharacterized proteins; Region: M4_uncharacterized; cd09598 1230587010745 Zn binding site [ion binding]; other site 1230587010746 Uncharacterized conserved protein [Function unknown]; Region: COG3482 1230587010747 YcaO-like family; Region: YcaO; pfam02624 1230587010748 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 1230587010749 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1230587010750 cyclase homology domain; Region: CHD; cd07302 1230587010751 nucleotidyl binding site; other site 1230587010752 metal binding site [ion binding]; metal-binding site 1230587010753 dimer interface [polypeptide binding]; other site 1230587010754 Predicted ATPase [General function prediction only]; Region: COG3899 1230587010755 AAA ATPase domain; Region: AAA_16; pfam13191 1230587010756 Predicted ATPase [General function prediction only]; Region: COG3903 1230587010757 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1230587010758 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1230587010759 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1230587010760 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 1230587010761 AAA domain; Region: AAA_30; pfam13604 1230587010762 Family description; Region: UvrD_C_2; pfam13538 1230587010763 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 1230587010764 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1230587010765 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1230587010766 Predicted transcriptional regulator [Transcription]; Region: COG4190 1230587010767 Helix-turn-helix domain; Region: HTH_20; pfam12840 1230587010768 putative DNA binding site [nucleotide binding]; other site 1230587010769 putative Zn2+ binding site [ion binding]; other site 1230587010770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 1230587010771 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1230587010772 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1230587010773 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1230587010774 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587010775 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 1230587010776 DNA binding residues [nucleotide binding] 1230587010777 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1230587010778 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 1230587010779 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 1230587010780 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 1230587010781 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587010782 MULE transposase domain; Region: MULE; pfam10551 1230587010783 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 1230587010784 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587010785 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 1230587010786 S-adenosylmethionine binding site [chemical binding]; other site 1230587010787 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 1230587010788 DNA-binding site [nucleotide binding]; DNA binding site 1230587010789 RNA-binding motif; other site 1230587010790 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 1230587010791 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587010792 active site 1230587010793 catalytic tetrad [active] 1230587010794 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1230587010795 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1230587010796 putative valine binding site [chemical binding]; other site 1230587010797 dimer interface [polypeptide binding]; other site 1230587010798 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1230587010799 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1230587010800 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587010801 PYR/PP interface [polypeptide binding]; other site 1230587010802 dimer interface [polypeptide binding]; other site 1230587010803 TPP binding site [chemical binding]; other site 1230587010804 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587010805 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 1230587010806 TPP-binding site [chemical binding]; other site 1230587010807 dimer interface [polypeptide binding]; other site 1230587010808 HAS barrel domain; Region: HAS-barrel; pfam09378 1230587010809 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1230587010810 Domain of unknown function DUF87; Region: DUF87; pfam01935 1230587010811 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1230587010812 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1230587010813 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1230587010814 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1230587010815 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 1230587010816 motif II; other site 1230587010817 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1230587010818 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1230587010819 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1230587010820 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1230587010821 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 1230587010822 protein binding site [polypeptide binding]; other site 1230587010823 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 1230587010824 protein binding site [polypeptide binding]; other site 1230587010825 Uncharacterized conserved protein [Function unknown]; Region: COG3603 1230587010826 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 1230587010827 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 1230587010828 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1230587010829 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 1230587010830 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 1230587010831 HflK protein; Region: hflK; TIGR01933 1230587010832 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1230587010833 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 1230587010834 folate binding site [chemical binding]; other site 1230587010835 NADP+ binding site [chemical binding]; other site 1230587010836 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587010837 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1230587010838 putative C-terminal domain interface [polypeptide binding]; other site 1230587010839 putative GSH binding site (G-site) [chemical binding]; other site 1230587010840 putative dimer interface [polypeptide binding]; other site 1230587010841 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1230587010842 dimer interface [polypeptide binding]; other site 1230587010843 N-terminal domain interface [polypeptide binding]; other site 1230587010844 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587010845 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1230587010846 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 1230587010847 dimerization interface [polypeptide binding]; other site 1230587010848 active site 1230587010849 Uncharacterized conserved protein [Function unknown]; Region: COG5502 1230587010850 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 1230587010851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1230587010852 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 1230587010853 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1230587010854 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 1230587010855 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1230587010856 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1230587010857 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587010858 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 1230587010859 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1230587010860 Protein export membrane protein; Region: SecD_SecF; cl14618 1230587010861 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1230587010862 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587010863 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587010864 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1230587010865 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1230587010866 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1230587010867 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1230587010868 Part of AAA domain; Region: AAA_19; pfam13245 1230587010869 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1230587010870 Family description; Region: UvrD_C_2; pfam13538 1230587010871 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1230587010872 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587010873 Coenzyme A binding pocket [chemical binding]; other site 1230587010874 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 1230587010875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587010876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587010877 metal binding site [ion binding]; metal-binding site 1230587010878 active site 1230587010879 I-site; other site 1230587010880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1230587010881 CreA protein; Region: CreA; pfam05981 1230587010882 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; cl00236 1230587010883 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1230587010884 putative CheA interaction surface; other site 1230587010885 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1230587010886 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1230587010887 dimer interface [polypeptide binding]; other site 1230587010888 putative CheW interface [polypeptide binding]; other site 1230587010889 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1230587010890 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 1230587010891 Cu(I) binding site [ion binding]; other site 1230587010892 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1230587010893 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 1230587010894 S-adenosylmethionine binding site [chemical binding]; other site 1230587010895 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1230587010896 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1230587010897 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1230587010898 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 1230587010899 active site 1230587010900 Nuclear pore component; Region: Nup88; pfam10168 1230587010901 Predicted membrane protein [Function unknown]; Region: COG4541 1230587010902 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1230587010903 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 1230587010904 oligomerization interface [polypeptide binding]; other site 1230587010905 active site 1230587010906 metal binding site [ion binding]; metal-binding site 1230587010907 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1230587010908 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1230587010909 active site 1230587010910 ATP-binding site [chemical binding]; other site 1230587010911 pantoate-binding site; other site 1230587010912 HXXH motif; other site 1230587010913 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 1230587010914 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587010915 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1230587010916 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 1230587010917 nucleotide binding pocket [chemical binding]; other site 1230587010918 K-X-D-G motif; other site 1230587010919 catalytic site [active] 1230587010920 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1230587010921 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1230587010922 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 1230587010923 Dimer interface [polypeptide binding]; other site 1230587010924 BRCT sequence motif; other site 1230587010925 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1230587010926 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1230587010927 Walker A/P-loop; other site 1230587010928 ATP binding site [chemical binding]; other site 1230587010929 Q-loop/lid; other site 1230587010930 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1230587010931 ABC transporter signature motif; other site 1230587010932 Walker B; other site 1230587010933 D-loop; other site 1230587010934 H-loop/switch region; other site 1230587010935 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1230587010936 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 1230587010937 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1230587010938 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 1230587010939 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 1230587010940 nucleotide binding site [chemical binding]; other site 1230587010941 SulA interaction site; other site 1230587010942 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1230587010943 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1230587010944 Cell division protein FtsA; Region: FtsA; smart00842 1230587010945 Cell division protein FtsA; Region: FtsA; pfam14450 1230587010946 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1230587010947 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1230587010948 Cell division protein FtsQ; Region: FtsQ; pfam03799 1230587010949 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1230587010950 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1230587010951 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1230587010952 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 1230587010953 amphipathic channel; other site 1230587010954 Asn-Pro-Ala signature motifs; other site 1230587010955 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 1230587010956 metabolite-proton symporter; Region: 2A0106; TIGR00883 1230587010957 putative substrate translocation pore; other site 1230587010958 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1230587010959 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1230587010960 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1230587010961 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1230587010962 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1230587010963 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1230587010964 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1230587010965 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 1230587010966 homodimer interface [polypeptide binding]; other site 1230587010967 active site 1230587010968 cell division protein FtsW; Region: ftsW; TIGR02614 1230587010969 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1230587010970 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587010971 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1230587010972 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1230587010973 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 1230587010974 Mg++ binding site [ion binding]; other site 1230587010975 putative catalytic motif [active] 1230587010976 putative substrate binding site [chemical binding]; other site 1230587010977 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1230587010978 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1230587010979 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1230587010980 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1230587010981 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1230587010982 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1230587010983 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1230587010984 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1230587010985 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1230587010986 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1230587010987 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1230587010988 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1230587010989 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1230587010990 MraW methylase family; Region: Methyltransf_5; cl17771 1230587010991 cell division protein MraZ; Reviewed; Region: PRK00326 1230587010992 MraZ protein; Region: MraZ; pfam02381 1230587010993 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587010994 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1230587010995 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 1230587010996 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1230587010997 catalytic residue [active] 1230587010998 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1230587010999 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 1230587011000 amidase catalytic site [active] 1230587011001 Zn binding residues [ion binding]; other site 1230587011002 substrate binding site [chemical binding]; other site 1230587011003 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587011004 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1230587011005 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1230587011006 putative metal binding site [ion binding]; other site 1230587011007 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 1230587011008 HSP70 interaction site [polypeptide binding]; other site 1230587011009 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 1230587011010 6-phosphofructokinase [Carbohydrate transport and metabolism]; Region: PfkA; COG0205 1230587011011 active site 1230587011012 ADP/pyrophosphate binding site [chemical binding]; other site 1230587011013 allosteric effector site; other site 1230587011014 dimerization interface [polypeptide binding]; other site 1230587011015 fructose-1,6-bisphosphate binding site; other site 1230587011016 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587011017 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1230587011018 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 1230587011019 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1230587011020 catalytic residue [active] 1230587011021 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1230587011022 Beta-lactamase; Region: Beta-lactamase; pfam00144 1230587011023 S-adenosylmethionine:diacylglycerol 3-amino-3-carboxypropyl transferase [Lipid metabolism]; Region: BtaA; COG5379 1230587011024 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 1230587011025 S-adenosylmethionine binding site [chemical binding]; other site 1230587011026 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1230587011027 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 1230587011028 active site 1230587011029 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1230587011030 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1230587011031 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587011032 EamA-like transporter family; Region: EamA; cl17759 1230587011033 EamA-like transporter family; Region: EamA; pfam00892 1230587011034 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 1230587011035 FAD binding site [chemical binding]; other site 1230587011036 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 1230587011037 dimerization interface [polypeptide binding]; other site 1230587011038 putative DNA binding site [nucleotide binding]; other site 1230587011039 putative Zn2+ binding site [ion binding]; other site 1230587011040 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 1230587011041 S-adenosylmethionine binding site [chemical binding]; other site 1230587011042 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1230587011043 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587011044 Walker A/P-loop; other site 1230587011045 ATP binding site [chemical binding]; other site 1230587011046 Q-loop/lid; other site 1230587011047 ABC transporter signature motif; other site 1230587011048 Walker B; other site 1230587011049 D-loop; other site 1230587011050 H-loop/switch region; other site 1230587011051 ABC transporter; Region: ABC_tran_2; pfam12848 1230587011052 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587011053 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 1230587011054 B1 nucleotide binding pocket [chemical binding]; other site 1230587011055 B2 nucleotide binding pocket [chemical binding]; other site 1230587011056 CAS motifs; other site 1230587011057 active site 1230587011058 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1230587011059 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587011060 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587011061 EamA-like transporter family; Region: EamA; pfam00892 1230587011062 thiamine pyrophosphate protein; Validated; Region: PRK08199 1230587011063 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587011064 PYR/PP interface [polypeptide binding]; other site 1230587011065 dimer interface [polypeptide binding]; other site 1230587011066 TPP binding site [chemical binding]; other site 1230587011067 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587011068 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 1230587011069 TPP-binding site [chemical binding]; other site 1230587011070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 1230587011071 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 1230587011072 active site 1230587011073 catalytic residues [active] 1230587011074 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587011075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587011076 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587011077 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587011078 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587011079 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1230587011080 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 1230587011081 P-loop; other site 1230587011082 Magnesium ion binding site [ion binding]; other site 1230587011083 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1230587011084 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1230587011085 putative active site [active] 1230587011086 metal binding site [ion binding]; metal-binding site 1230587011087 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1230587011088 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 1230587011089 NAD(P) binding site [chemical binding]; other site 1230587011090 catalytic residues [active] 1230587011091 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1230587011092 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1230587011093 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 1230587011094 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1230587011095 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1230587011096 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587011097 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 1230587011098 putative active site [active] 1230587011099 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587011100 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587011101 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587011102 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011103 dimer interface [polypeptide binding]; other site 1230587011104 conserved gate region; other site 1230587011105 putative PBP binding loops; other site 1230587011106 ABC-ATPase subunit interface; other site 1230587011107 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587011108 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011109 dimer interface [polypeptide binding]; other site 1230587011110 conserved gate region; other site 1230587011111 putative PBP binding loops; other site 1230587011112 ABC-ATPase subunit interface; other site 1230587011113 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587011114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587011115 Walker A/P-loop; other site 1230587011116 ATP binding site [chemical binding]; other site 1230587011117 Q-loop/lid; other site 1230587011118 ABC transporter signature motif; other site 1230587011119 Walker B; other site 1230587011120 D-loop; other site 1230587011121 H-loop/switch region; other site 1230587011122 TOBE domain; Region: TOBE_2; pfam08402 1230587011123 riboflavin synthase subunit beta; Provisional; Region: PRK12419 1230587011124 active site 1230587011125 homopentamer interface [polypeptide binding]; other site 1230587011126 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1230587011127 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587011128 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587011129 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 1230587011130 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 1230587011131 N-terminal plug; other site 1230587011132 ligand-binding site [chemical binding]; other site 1230587011133 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587011134 MULE transposase domain; Region: MULE; pfam10551 1230587011135 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1230587011136 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 1230587011137 substrate binding site [chemical binding]; other site 1230587011138 dimer interface [polypeptide binding]; other site 1230587011139 triosephosphate isomerase; Provisional; Region: PRK14565 1230587011140 catalytic triad [active] 1230587011141 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1230587011142 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1230587011143 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1230587011144 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1230587011145 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 1230587011146 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1230587011147 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 1230587011148 active site 1230587011149 motif I; other site 1230587011150 motif II; other site 1230587011151 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1230587011152 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1230587011153 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1230587011154 nucleotide binding site [chemical binding]; other site 1230587011155 Uncharacterized conserved protein [Function unknown]; Region: COG3347 1230587011156 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 1230587011157 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 1230587011158 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1230587011159 intersubunit interface [polypeptide binding]; other site 1230587011160 active site 1230587011161 Zn2+ binding site [ion binding]; other site 1230587011162 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1230587011163 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 1230587011164 putative ligand binding site [chemical binding]; other site 1230587011165 putative NAD binding site [chemical binding]; other site 1230587011166 catalytic site [active] 1230587011167 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1230587011168 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1230587011169 putative N- and C-terminal domain interface [polypeptide binding]; other site 1230587011170 putative active site [active] 1230587011171 MgATP binding site [chemical binding]; other site 1230587011172 catalytic site [active] 1230587011173 metal binding site [ion binding]; metal-binding site 1230587011174 putative xylulose binding site [chemical binding]; other site 1230587011175 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587011176 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1230587011177 Walker A/P-loop; other site 1230587011178 ATP binding site [chemical binding]; other site 1230587011179 Q-loop/lid; other site 1230587011180 ABC transporter signature motif; other site 1230587011181 Walker B; other site 1230587011182 D-loop; other site 1230587011183 H-loop/switch region; other site 1230587011184 TOBE domain; Region: TOBE_2; pfam08402 1230587011185 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587011186 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587011187 Walker A/P-loop; other site 1230587011188 ATP binding site [chemical binding]; other site 1230587011189 Q-loop/lid; other site 1230587011190 ABC transporter signature motif; other site 1230587011191 Walker B; other site 1230587011192 D-loop; other site 1230587011193 H-loop/switch region; other site 1230587011194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587011195 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587011196 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1230587011197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011198 dimer interface [polypeptide binding]; other site 1230587011199 conserved gate region; other site 1230587011200 putative PBP binding loops; other site 1230587011201 ABC-ATPase subunit interface; other site 1230587011202 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587011203 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587011204 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587011205 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587011206 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587011207 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 1230587011208 DNA binding residues [nucleotide binding] 1230587011209 dimerization interface [polypeptide binding]; other site 1230587011210 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587011211 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1230587011212 Walker A/P-loop; other site 1230587011213 ATP binding site [chemical binding]; other site 1230587011214 Q-loop/lid; other site 1230587011215 ABC transporter signature motif; other site 1230587011216 Walker B; other site 1230587011217 D-loop; other site 1230587011218 H-loop/switch region; other site 1230587011219 TOBE domain; Region: TOBE_2; pfam08402 1230587011220 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587011221 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587011222 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587011223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011224 putative PBP binding loops; other site 1230587011225 ABC-ATPase subunit interface; other site 1230587011226 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587011227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011228 dimer interface [polypeptide binding]; other site 1230587011229 conserved gate region; other site 1230587011230 putative PBP binding loops; other site 1230587011231 ABC-ATPase subunit interface; other site 1230587011232 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587011233 classical (c) SDRs; Region: SDR_c; cd05233 1230587011234 NAD(P) binding site [chemical binding]; other site 1230587011235 active site 1230587011236 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1230587011237 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1230587011238 conserved cys residue [active] 1230587011239 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587011240 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1230587011241 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 1230587011242 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1230587011243 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1230587011244 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 1230587011245 active site 1230587011246 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1230587011247 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1230587011248 active site 1230587011249 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1230587011250 CoA binding domain; Region: CoA_binding_2; pfam13380 1230587011251 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1230587011252 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1230587011253 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 1230587011254 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 1230587011255 substrate binding site [chemical binding]; other site 1230587011256 oxyanion hole (OAH) forming residues; other site 1230587011257 trimer interface [polypeptide binding]; other site 1230587011258 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587011259 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1230587011260 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587011261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011262 dimer interface [polypeptide binding]; other site 1230587011263 conserved gate region; other site 1230587011264 ABC-ATPase subunit interface; other site 1230587011265 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587011266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011267 dimer interface [polypeptide binding]; other site 1230587011268 conserved gate region; other site 1230587011269 ABC-ATPase subunit interface; other site 1230587011270 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587011271 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587011272 Walker A/P-loop; other site 1230587011273 ATP binding site [chemical binding]; other site 1230587011274 Q-loop/lid; other site 1230587011275 ABC transporter signature motif; other site 1230587011276 Walker B; other site 1230587011277 D-loop; other site 1230587011278 H-loop/switch region; other site 1230587011279 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587011280 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587011281 Walker A/P-loop; other site 1230587011282 ATP binding site [chemical binding]; other site 1230587011283 Q-loop/lid; other site 1230587011284 ABC transporter signature motif; other site 1230587011285 Walker B; other site 1230587011286 D-loop; other site 1230587011287 H-loop/switch region; other site 1230587011288 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587011289 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 1230587011290 sequence-specific DNA binding site [nucleotide binding]; other site 1230587011291 salt bridge; other site 1230587011292 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587011293 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1230587011294 Predicted acyl esterases [General function prediction only]; Region: COG2936 1230587011295 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1230587011296 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1230587011297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1230587011298 ACT domain; Region: ACT_3; pfam10000 1230587011299 Family description; Region: ACT_7; pfam13840 1230587011300 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1230587011301 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587011302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587011303 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 1230587011304 putative substrate binding pocket [chemical binding]; other site 1230587011305 dimerization interface [polypeptide binding]; other site 1230587011306 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587011307 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587011308 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587011309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587011310 Walker A/P-loop; other site 1230587011311 ATP binding site [chemical binding]; other site 1230587011312 Q-loop/lid; other site 1230587011313 ABC transporter signature motif; other site 1230587011314 Walker B; other site 1230587011315 D-loop; other site 1230587011316 H-loop/switch region; other site 1230587011317 TOBE domain; Region: TOBE_2; pfam08402 1230587011318 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011319 dimer interface [polypeptide binding]; other site 1230587011320 conserved gate region; other site 1230587011321 putative PBP binding loops; other site 1230587011322 ABC-ATPase subunit interface; other site 1230587011323 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587011324 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011325 dimer interface [polypeptide binding]; other site 1230587011326 conserved gate region; other site 1230587011327 putative PBP binding loops; other site 1230587011328 ABC-ATPase subunit interface; other site 1230587011329 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1230587011330 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1230587011331 tetrameric interface [polypeptide binding]; other site 1230587011332 NAD binding site [chemical binding]; other site 1230587011333 catalytic residues [active] 1230587011334 substrate binding site [chemical binding]; other site 1230587011335 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 1230587011336 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 1230587011337 N-terminal plug; other site 1230587011338 ligand-binding site [chemical binding]; other site 1230587011339 Uncharacterized Fe-S protein [General function prediction only]; Region: FhuF; COG4114 1230587011340 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1230587011341 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1230587011342 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1230587011343 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 1230587011344 putative ligand binding residues [chemical binding]; other site 1230587011345 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 1230587011346 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587011347 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587011348 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1230587011349 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1230587011350 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587011351 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587011352 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587011353 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1230587011354 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587011355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587011356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587011357 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 1230587011358 dimerization interface [polypeptide binding]; other site 1230587011359 Predicted membrane protein [Function unknown]; Region: COG4425 1230587011360 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 1230587011361 methionine gamma-lyase; Validated; Region: PRK07049 1230587011362 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 1230587011363 homodimer interface [polypeptide binding]; other site 1230587011364 substrate-cofactor binding pocket; other site 1230587011365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587011366 catalytic residue [active] 1230587011367 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 1230587011368 dimer interface [polypeptide binding]; other site 1230587011369 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587011370 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587011371 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587011372 enoyl-CoA hydratase; Provisional; Region: PRK05980 1230587011373 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 1230587011374 substrate binding site [chemical binding]; other site 1230587011375 oxyanion hole (OAH) forming residues; other site 1230587011376 trimer interface [polypeptide binding]; other site 1230587011377 Predicted integral membrane protein [Function unknown]; Region: COG5500 1230587011378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1230587011379 Putative glucoamylase; Region: Glycoamylase; pfam10091 1230587011380 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 1230587011381 Uncharacterized conserved protein [Function unknown]; Region: COG1944 1230587011382 YcaO-like family; Region: YcaO; pfam02624 1230587011383 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1230587011384 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 1230587011385 TPR motif; other site 1230587011386 binding surface 1230587011387 Aminoglycoside N3'-acetyltransferase [Defense mechanisms]; Region: COG2746 1230587011388 Coenzyme A binding pocket [chemical binding]; other site 1230587011389 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1230587011390 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1230587011391 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1230587011392 active site 1230587011393 substrate binding site [chemical binding]; other site 1230587011394 FMN binding site [chemical binding]; other site 1230587011395 putative catalytic residues [active] 1230587011396 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587011397 MULE transposase domain; Region: MULE; pfam10551 1230587011398 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1230587011399 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587011400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587011401 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587011402 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587011403 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587011404 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587011405 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587011406 Transposase; Region: HTH_Tnp_1; pfam01527 1230587011407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1230587011408 topology modulation protein; Reviewed; Region: PRK08118 1230587011409 AAA domain; Region: AAA_17; pfam13207 1230587011410 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1230587011411 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587011412 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587011413 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587011414 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587011415 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587011416 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587011417 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587011418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4424 1230587011419 replicative DNA helicase; Provisional; Region: PRK05973 1230587011420 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 1230587011421 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 1230587011422 active site 1230587011423 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1230587011424 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1230587011425 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1230587011426 Acid Phosphatase; Region: Acid_PPase; cl17256 1230587011427 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 1230587011428 active site 1230587011429 nucleic acid binding site [nucleotide binding]; other site 1230587011430 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587011431 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587011432 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587011433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587011434 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587011435 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587011436 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587011437 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 1230587011438 NTP binding site [chemical binding]; other site 1230587011439 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1230587011440 large terminase protein; Provisional; Region: 17; PHA02533 1230587011441 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 1230587011442 HNH endonuclease; Region: HNH_2; pfam13391 1230587011443 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1230587011444 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1230587011445 catalytic residues [active] 1230587011446 catalytic nucleophile [active] 1230587011447 Recombinase; Region: Recombinase; pfam07508 1230587011448 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1230587011449 Protein kinase domain; Region: Pkinase; pfam00069 1230587011450 active site 1230587011451 ATP binding site [chemical binding]; other site 1230587011452 substrate binding site [chemical binding]; other site 1230587011453 activation loop (A-loop); other site 1230587011454 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1230587011455 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1230587011456 active site 1230587011457 ATP binding site [chemical binding]; other site 1230587011458 substrate binding site [chemical binding]; other site 1230587011459 activation loop (A-loop); other site 1230587011460 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1230587011461 active site 1230587011462 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 1230587011463 active site 1230587011464 DNA binding site [nucleotide binding] 1230587011465 Int/Topo IB signature motif; other site 1230587011466 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1230587011467 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1230587011468 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1230587011469 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1230587011470 Uncharacterized conserved protein [Function unknown]; Region: COG5507 1230587011471 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 1230587011472 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1230587011473 catalytic residue [active] 1230587011474 Uncharacterized conserved protein [Function unknown]; Region: COG4274 1230587011475 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1230587011476 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1230587011477 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1230587011478 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1230587011479 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587011480 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1230587011481 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 1230587011482 DNA binding residues [nucleotide binding] 1230587011483 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1230587011484 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587011485 NAD(P) binding site [chemical binding]; other site 1230587011486 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1230587011487 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 1230587011488 substrate-cofactor binding pocket; other site 1230587011489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587011490 catalytic residue [active] 1230587011491 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1230587011492 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 1230587011493 ATP binding site [chemical binding]; other site 1230587011494 putative Mg++ binding site [ion binding]; other site 1230587011495 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 1230587011496 nucleotide binding region [chemical binding]; other site 1230587011497 ATP-binding site [chemical binding]; other site 1230587011498 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1230587011499 HRDC domain; Region: HRDC; pfam00570 1230587011500 DNA primase; Validated; Region: dnaG; PRK05667 1230587011501 CHC2 zinc finger; Region: zf-CHC2; cl17510 1230587011502 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1230587011503 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 1230587011504 active site 1230587011505 metal binding site [ion binding]; metal-binding site 1230587011506 interdomain interaction site; other site 1230587011507 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1230587011508 Uncharacterized conserved protein [Function unknown]; Region: COG1610 1230587011509 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1230587011510 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1230587011511 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1230587011512 catalytic site [active] 1230587011513 subunit interface [polypeptide binding]; other site 1230587011514 LysR family transcriptional regulator; Provisional; Region: PRK14997 1230587011515 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587011516 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 1230587011517 putative effector binding pocket; other site 1230587011518 dimerization interface [polypeptide binding]; other site 1230587011519 short chain dehydrogenase; Provisional; Region: PRK06500 1230587011520 classical (c) SDRs; Region: SDR_c; cd05233 1230587011521 NAD(P) binding site [chemical binding]; other site 1230587011522 active site 1230587011523 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1230587011524 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1230587011525 aspartate aminotransferase; Provisional; Region: PRK05764 1230587011526 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 1230587011527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587011528 homodimer interface [polypeptide binding]; other site 1230587011529 catalytic residue [active] 1230587011530 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 1230587011531 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1230587011532 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1230587011533 EamA-like transporter family; Region: EamA; pfam00892 1230587011534 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 1230587011535 DNA-binding site [nucleotide binding]; DNA binding site 1230587011536 RNA-binding motif; other site 1230587011537 BA14K-like protein; Region: BA14K; pfam07886 1230587011538 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1230587011539 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1230587011540 Bacterial SH3 domain; Region: SH3_3; pfam08239 1230587011541 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1230587011542 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1230587011543 MarR family; Region: MarR_2; pfam12802 1230587011544 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587011545 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 1230587011546 active site 1230587011547 phosphorylation site [posttranslational modification] 1230587011548 intermolecular recognition site; other site 1230587011549 dimerization interface [polypeptide binding]; other site 1230587011550 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 1230587011551 DNA binding site [nucleotide binding] 1230587011552 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587011553 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1230587011554 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 1230587011555 dimer interface [polypeptide binding]; other site 1230587011556 phosphorylation site [posttranslational modification] 1230587011557 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 1230587011558 ATP binding site [chemical binding]; other site 1230587011559 Mg2+ binding site [ion binding]; other site 1230587011560 G-X-G motif; other site 1230587011561 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 1230587011562 dimer interface [polypeptide binding]; other site 1230587011563 putative tRNA-binding site [nucleotide binding]; other site 1230587011564 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1230587011565 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1230587011566 Uncharacterized conserved protein [Function unknown]; Region: COG5465 1230587011567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1230587011568 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1230587011569 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1230587011570 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1230587011571 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1230587011572 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1230587011573 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1230587011574 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 1230587011575 active site 1230587011576 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1230587011577 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1230587011578 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1230587011579 active site 1230587011580 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 1230587011581 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1230587011582 tetramer interface [polypeptide binding]; other site 1230587011583 active site 1230587011584 Mg2+/Mn2+ binding site [ion binding]; other site 1230587011585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 1230587011586 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1230587011587 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587011588 NAD(P) binding site [chemical binding]; other site 1230587011589 catalytic residues [active] 1230587011590 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1230587011591 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1230587011592 Benzoate membrane transport protein; Region: BenE; pfam03594 1230587011593 benzoate transporter; Region: benE; TIGR00843 1230587011594 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1230587011595 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1230587011596 5S rRNA interface [nucleotide binding]; other site 1230587011597 CTC domain interface [polypeptide binding]; other site 1230587011598 L16 interface [polypeptide binding]; other site 1230587011599 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 1230587011600 putative active site [active] 1230587011601 catalytic residue [active] 1230587011602 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 1230587011603 GTP-binding protein YchF; Reviewed; Region: PRK09601 1230587011604 YchF GTPase; Region: YchF; cd01900 1230587011605 G1 box; other site 1230587011606 GTP/Mg2+ binding site [chemical binding]; other site 1230587011607 Switch I region; other site 1230587011608 G2 box; other site 1230587011609 Switch II region; other site 1230587011610 G3 box; other site 1230587011611 G4 box; other site 1230587011612 G5 box; other site 1230587011613 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 1230587011614 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 1230587011615 putative active site [active] 1230587011616 putative catalytic site [active] 1230587011617 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 1230587011618 putative active site [active] 1230587011619 putative catalytic site [active] 1230587011620 Domain of unknown function (DUF1873); Region: DUF1873; pfam08969 1230587011621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1230587011622 active site 1230587011623 Predicted small metal-binding protein [Function unknown]; Region: COG5466 1230587011624 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1230587011625 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1230587011626 active site 1230587011627 NTP binding site [chemical binding]; other site 1230587011628 metal binding triad [ion binding]; metal-binding site 1230587011629 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1230587011630 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1230587011631 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 1230587011632 putative active site [active] 1230587011633 putative CoA binding site [chemical binding]; other site 1230587011634 nudix motif; other site 1230587011635 metal binding site [ion binding]; metal-binding site 1230587011636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1230587011637 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1230587011638 MoxR-like ATPases [General function prediction only]; Region: COG0714 1230587011639 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 1230587011640 Walker A motif; other site 1230587011641 ATP binding site [chemical binding]; other site 1230587011642 Walker B motif; other site 1230587011643 arginine finger; other site 1230587011644 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1230587011645 Protein of unknown function DUF58; Region: DUF58; pfam01882 1230587011646 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 1230587011647 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1230587011648 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1230587011649 CARDB; Region: CARDB; pfam07705 1230587011650 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1230587011651 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1230587011652 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587011653 Coenzyme A binding pocket [chemical binding]; other site 1230587011654 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1230587011655 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1230587011656 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1230587011657 putative dimer interface [polypeptide binding]; other site 1230587011658 N-terminal domain interface [polypeptide binding]; other site 1230587011659 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587011660 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1230587011661 FIC domain binding interface [polypeptide binding]; other site 1230587011662 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1230587011663 Fic/DOC family; Region: Fic; cl00960 1230587011664 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 1230587011665 nudix motif; other site 1230587011666 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1230587011667 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 1230587011668 putative active site [active] 1230587011669 putative metal binding site [ion binding]; other site 1230587011670 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1230587011671 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1230587011672 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587011673 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 1230587011674 DNA binding residues [nucleotide binding] 1230587011675 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1230587011676 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 1230587011677 putative active site [active] 1230587011678 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 1230587011679 2-isopropylmalate synthase; Validated; Region: PRK03739 1230587011680 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1230587011681 active site 1230587011682 catalytic residues [active] 1230587011683 metal binding site [ion binding]; metal-binding site 1230587011684 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1230587011685 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1230587011686 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1230587011687 oligomer interface [polypeptide binding]; other site 1230587011688 active site residues [active] 1230587011689 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1230587011690 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1230587011691 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1230587011692 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1230587011693 Cation efflux family; Region: Cation_efflux; cl00316 1230587011694 anthranilate synthase; Provisional; Region: PRK13566 1230587011695 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1230587011696 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1230587011697 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1230587011698 glutamine binding [chemical binding]; other site 1230587011699 catalytic triad [active] 1230587011700 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1230587011701 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 1230587011702 N-terminal plug; other site 1230587011703 ligand-binding site [chemical binding]; other site 1230587011704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1230587011705 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1230587011706 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1230587011707 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1230587011708 Potassium binding sites [ion binding]; other site 1230587011709 Cesium cation binding sites [ion binding]; other site 1230587011710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 1230587011711 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1230587011712 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1230587011713 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1230587011714 putative active site [active] 1230587011715 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 1230587011716 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 1230587011717 thymidine kinase; Provisional; Region: PRK04296 1230587011718 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 1230587011719 ATP binding site [chemical binding]; other site 1230587011720 Walker A motif; other site 1230587011721 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1230587011722 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1230587011723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011724 dimer interface [polypeptide binding]; other site 1230587011725 conserved gate region; other site 1230587011726 putative PBP binding loops; other site 1230587011727 ABC-ATPase subunit interface; other site 1230587011728 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1230587011729 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587011730 Walker A/P-loop; other site 1230587011731 ATP binding site [chemical binding]; other site 1230587011732 Q-loop/lid; other site 1230587011733 ABC transporter signature motif; other site 1230587011734 Walker B; other site 1230587011735 D-loop; other site 1230587011736 H-loop/switch region; other site 1230587011737 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 1230587011738 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1230587011739 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1230587011740 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1230587011741 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 1230587011742 dimerization interface [polypeptide binding]; other site 1230587011743 putative DNA binding site [nucleotide binding]; other site 1230587011744 putative Zn2+ binding site [ion binding]; other site 1230587011745 AAA domain; Region: AAA_33; pfam13671 1230587011746 AAA domain; Region: AAA_17; pfam13207 1230587011747 omega amino acid--pyruvate transaminase; Provisional; Region: PRK13360 1230587011748 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 1230587011749 inhibitor-cofactor binding pocket; inhibition site 1230587011750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587011751 catalytic residue [active] 1230587011752 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1230587011753 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 1230587011754 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 1230587011755 active site 1230587011756 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1230587011757 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 1230587011758 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1230587011759 active site 1230587011760 catalytic site [active] 1230587011761 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587011762 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 1230587011763 substrate binding site [chemical binding]; other site 1230587011764 ATP binding site [chemical binding]; other site 1230587011765 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1230587011766 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1230587011767 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1230587011768 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1230587011769 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587011770 Walker A/P-loop; other site 1230587011771 ATP binding site [chemical binding]; other site 1230587011772 Q-loop/lid; other site 1230587011773 ABC transporter signature motif; other site 1230587011774 Walker B; other site 1230587011775 D-loop; other site 1230587011776 H-loop/switch region; other site 1230587011777 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1230587011778 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587011779 Walker A/P-loop; other site 1230587011780 ATP binding site [chemical binding]; other site 1230587011781 Q-loop/lid; other site 1230587011782 ABC transporter signature motif; other site 1230587011783 Walker B; other site 1230587011784 D-loop; other site 1230587011785 H-loop/switch region; other site 1230587011786 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587011787 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587011788 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011789 ABC-ATPase subunit interface; other site 1230587011790 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587011791 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011792 dimer interface [polypeptide binding]; other site 1230587011793 conserved gate region; other site 1230587011794 putative PBP binding loops; other site 1230587011795 ABC-ATPase subunit interface; other site 1230587011796 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587011797 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 1230587011798 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1230587011799 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 1230587011800 active site 1230587011801 dimer interface [polypeptide binding]; other site 1230587011802 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1230587011803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587011804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587011805 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1230587011806 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1230587011807 oligomeric interface; other site 1230587011808 putative active site [active] 1230587011809 homodimer interface [polypeptide binding]; other site 1230587011810 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 1230587011811 apolar tunnel; other site 1230587011812 heme binding site [chemical binding]; other site 1230587011813 dimerization interface [polypeptide binding]; other site 1230587011814 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1230587011815 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1230587011816 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1230587011817 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 1230587011818 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1230587011819 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1230587011820 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1230587011821 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1230587011822 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1230587011823 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1230587011824 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1230587011825 putative hemin binding site; other site 1230587011826 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1230587011827 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 1230587011828 ABC-ATPase subunit interface; other site 1230587011829 dimer interface [polypeptide binding]; other site 1230587011830 putative PBP binding regions; other site 1230587011831 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1230587011832 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1230587011833 Walker A/P-loop; other site 1230587011834 ATP binding site [chemical binding]; other site 1230587011835 Q-loop/lid; other site 1230587011836 ABC transporter signature motif; other site 1230587011837 Walker B; other site 1230587011838 D-loop; other site 1230587011839 H-loop/switch region; other site 1230587011840 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1230587011841 GAF domain; Region: GAF; pfam01590 1230587011842 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 1230587011843 PAS fold; Region: PAS_3; pfam08447 1230587011844 putative active site [active] 1230587011845 heme pocket [chemical binding]; other site 1230587011846 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1230587011847 HWE histidine kinase; Region: HWE_HK; pfam07536 1230587011848 RNA polymerase sigma factor; Provisional; Region: PRK12516 1230587011849 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587011850 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 1230587011851 DNA binding residues [nucleotide binding] 1230587011852 two-component response regulator; Provisional; Region: PRK09191 1230587011853 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 1230587011854 active site 1230587011855 phosphorylation site [posttranslational modification] 1230587011856 intermolecular recognition site; other site 1230587011857 dimerization interface [polypeptide binding]; other site 1230587011858 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1230587011859 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 1230587011860 N- and C-terminal domain interface [polypeptide binding]; other site 1230587011861 active site 1230587011862 MgATP binding site [chemical binding]; other site 1230587011863 catalytic site [active] 1230587011864 metal binding site [ion binding]; metal-binding site 1230587011865 carbohydrate binding site [chemical binding]; other site 1230587011866 putative homodimer interface [polypeptide binding]; other site 1230587011867 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1230587011868 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 1230587011869 motif II; other site 1230587011870 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1230587011871 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1230587011872 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1230587011873 sorbitol dehydrogenase; Provisional; Region: PRK07067 1230587011874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587011875 NAD(P) binding site [chemical binding]; other site 1230587011876 active site 1230587011877 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587011878 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587011879 Walker A/P-loop; other site 1230587011880 ATP binding site [chemical binding]; other site 1230587011881 Q-loop/lid; other site 1230587011882 ABC transporter signature motif; other site 1230587011883 Walker B; other site 1230587011884 D-loop; other site 1230587011885 H-loop/switch region; other site 1230587011886 TOBE domain; Region: TOBE_2; pfam08402 1230587011887 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587011888 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011889 dimer interface [polypeptide binding]; other site 1230587011890 conserved gate region; other site 1230587011891 putative PBP binding loops; other site 1230587011892 ABC-ATPase subunit interface; other site 1230587011893 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011894 dimer interface [polypeptide binding]; other site 1230587011895 conserved gate region; other site 1230587011896 putative PBP binding loops; other site 1230587011897 ABC-ATPase subunit interface; other site 1230587011898 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587011899 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587011900 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587011901 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587011902 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1230587011903 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 1230587011904 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1230587011905 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 1230587011906 homodimer interface [polypeptide binding]; other site 1230587011907 active site 1230587011908 FMN binding site [chemical binding]; other site 1230587011909 substrate binding site [chemical binding]; other site 1230587011910 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1230587011911 4Fe-4S binding domain; Region: Fer4; pfam00037 1230587011912 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1230587011913 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587011914 putative NAD(P) binding site [chemical binding]; other site 1230587011915 LysR family transcriptional regulator; Provisional; Region: PRK14997 1230587011916 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587011917 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1230587011918 putative effector binding pocket; other site 1230587011919 putative dimerization interface [polypeptide binding]; other site 1230587011920 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1230587011921 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 1230587011922 catalytic loop [active] 1230587011923 iron binding site [ion binding]; other site 1230587011924 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587011925 cyclase homology domain; Region: CHD; cd07302 1230587011926 nucleotidyl binding site; other site 1230587011927 metal binding site [ion binding]; metal-binding site 1230587011928 dimer interface [polypeptide binding]; other site 1230587011929 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1230587011930 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587011931 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1230587011932 allantoate amidohydrolase; Reviewed; Region: PRK12893 1230587011933 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1230587011934 active site 1230587011935 metal binding site [ion binding]; metal-binding site 1230587011936 dimer interface [polypeptide binding]; other site 1230587011937 phenylhydantoinase; Validated; Region: PRK08323 1230587011938 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1230587011939 tetramer interface [polypeptide binding]; other site 1230587011940 active site 1230587011941 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: COG4101 1230587011942 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1230587011943 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1230587011944 Walker A/P-loop; other site 1230587011945 ATP binding site [chemical binding]; other site 1230587011946 Q-loop/lid; other site 1230587011947 ABC transporter signature motif; other site 1230587011948 Walker B; other site 1230587011949 D-loop; other site 1230587011950 H-loop/switch region; other site 1230587011951 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1230587011952 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587011953 Coenzyme A binding pocket [chemical binding]; other site 1230587011954 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1230587011955 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011956 dimer interface [polypeptide binding]; other site 1230587011957 conserved gate region; other site 1230587011958 putative PBP binding loops; other site 1230587011959 ABC-ATPase subunit interface; other site 1230587011960 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1230587011961 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587011962 dimer interface [polypeptide binding]; other site 1230587011963 conserved gate region; other site 1230587011964 putative PBP binding loops; other site 1230587011965 ABC-ATPase subunit interface; other site 1230587011966 NMT1/THI5 like; Region: NMT1; pfam09084 1230587011967 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1230587011968 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587011969 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587011970 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1230587011971 Protein export membrane protein; Region: SecD_SecF; cl14618 1230587011972 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 1230587011973 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1230587011974 UreF; Region: UreF; pfam01730 1230587011975 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 1230587011976 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 1230587011977 dimer interface [polypeptide binding]; other site 1230587011978 catalytic residues [active] 1230587011979 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1230587011980 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1230587011981 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 1230587011982 catalytic triad [active] 1230587011983 dimer interface [polypeptide binding]; other site 1230587011984 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1230587011985 Predicted transcriptional regulator [Transcription]; Region: COG2944 1230587011986 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1230587011987 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 1230587011988 subunit interactions [polypeptide binding]; other site 1230587011989 active site 1230587011990 flap region; other site 1230587011991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 1230587011992 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 1230587011993 alpha-beta subunit interface [polypeptide binding]; other site 1230587011994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1230587011995 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1230587011996 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 1230587011997 alpha-gamma subunit interface [polypeptide binding]; other site 1230587011998 beta-gamma subunit interface [polypeptide binding]; other site 1230587011999 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1230587012000 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1230587012001 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1230587012002 dimerization interface [polypeptide binding]; other site 1230587012003 ligand binding site [chemical binding]; other site 1230587012004 NADP binding site [chemical binding]; other site 1230587012005 catalytic site [active] 1230587012006 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587012007 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587012008 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1230587012009 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1230587012010 MarR family; Region: MarR; pfam01047 1230587012011 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1230587012012 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 1230587012013 dimerization interface [polypeptide binding]; other site 1230587012014 ligand binding site [chemical binding]; other site 1230587012015 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1230587012016 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1230587012017 Walker A/P-loop; other site 1230587012018 ATP binding site [chemical binding]; other site 1230587012019 Q-loop/lid; other site 1230587012020 ABC transporter signature motif; other site 1230587012021 Walker B; other site 1230587012022 D-loop; other site 1230587012023 H-loop/switch region; other site 1230587012024 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587012025 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1230587012026 Walker A/P-loop; other site 1230587012027 ATP binding site [chemical binding]; other site 1230587012028 Q-loop/lid; other site 1230587012029 ABC transporter signature motif; other site 1230587012030 Walker B; other site 1230587012031 D-loop; other site 1230587012032 H-loop/switch region; other site 1230587012033 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1230587012034 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1230587012035 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 1230587012036 TM-ABC transporter signature motif; other site 1230587012037 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587012038 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 1230587012039 TM-ABC transporter signature motif; other site 1230587012040 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 1230587012041 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587012042 active site 1230587012043 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587012044 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 1230587012045 active site 1230587012046 phosphorylation site [posttranslational modification] 1230587012047 intermolecular recognition site; other site 1230587012048 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1230587012049 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 1230587012050 ligand binding site [chemical binding]; other site 1230587012051 flexible hinge region; other site 1230587012052 putative switch regulator; other site 1230587012053 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; cl17320 1230587012054 non-specific DNA interactions [nucleotide binding]; other site 1230587012055 DNA binding site [nucleotide binding] 1230587012056 sequence specific DNA binding site [nucleotide binding]; other site 1230587012057 putative cAMP binding site [chemical binding]; other site 1230587012058 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1230587012059 classical (c) SDRs; Region: SDR_c; cd05233 1230587012060 NAD(P) binding site [chemical binding]; other site 1230587012061 active site 1230587012062 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1230587012063 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587012064 Zn binding site [ion binding]; other site 1230587012065 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1230587012066 Zn binding site [ion binding]; other site 1230587012067 Predicted esterase [General function prediction only]; Region: COG0400 1230587012068 putative hydrolase; Provisional; Region: PRK11460 1230587012069 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587012070 Predicted flavoprotein [General function prediction only]; Region: COG0431 1230587012071 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1230587012072 Zn binding site [ion binding]; other site 1230587012073 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1230587012074 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587012075 Zn binding site [ion binding]; other site 1230587012076 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1230587012077 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1230587012078 putative active site [active] 1230587012079 catalytic triad [active] 1230587012080 putative dimer interface [polypeptide binding]; other site 1230587012081 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587012082 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012083 dimer interface [polypeptide binding]; other site 1230587012084 conserved gate region; other site 1230587012085 putative PBP binding loops; other site 1230587012086 ABC-ATPase subunit interface; other site 1230587012087 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012088 putative PBP binding loops; other site 1230587012089 ABC-ATPase subunit interface; other site 1230587012090 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587012091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587012092 Walker A/P-loop; other site 1230587012093 ATP binding site [chemical binding]; other site 1230587012094 Q-loop/lid; other site 1230587012095 ABC transporter signature motif; other site 1230587012096 Walker B; other site 1230587012097 D-loop; other site 1230587012098 H-loop/switch region; other site 1230587012099 TOBE domain; Region: TOBE_2; pfam08402 1230587012100 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587012101 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587012102 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1230587012103 agmatinase; Region: agmatinase; TIGR01230 1230587012104 oligomer interface [polypeptide binding]; other site 1230587012105 putative active site [active] 1230587012106 Mn binding site [ion binding]; other site 1230587012107 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587012108 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587012109 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1230587012110 dimerization interface [polypeptide binding]; other site 1230587012111 substrate binding pocket [chemical binding]; other site 1230587012112 hypothetical protein; Provisional; Region: PRK07550 1230587012113 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 1230587012114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587012115 homodimer interface [polypeptide binding]; other site 1230587012116 catalytic residue [active] 1230587012117 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1230587012118 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587012119 NAD binding site [chemical binding]; other site 1230587012120 catalytic residues [active] 1230587012121 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587012122 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587012123 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1230587012124 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1230587012125 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587012126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587012127 DNA-binding site [nucleotide binding]; DNA binding site 1230587012128 FCD domain; Region: FCD; pfam07729 1230587012129 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587012130 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587012131 DNA-binding site [nucleotide binding]; DNA binding site 1230587012132 FCD domain; Region: FCD; pfam07729 1230587012133 hypothetical protein; Provisional; Region: PRK05968 1230587012134 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 1230587012135 homodimer interface [polypeptide binding]; other site 1230587012136 substrate-cofactor binding pocket; other site 1230587012137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587012138 catalytic residue [active] 1230587012139 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587012140 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587012141 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012142 dimer interface [polypeptide binding]; other site 1230587012143 conserved gate region; other site 1230587012144 putative PBP binding loops; other site 1230587012145 ABC-ATPase subunit interface; other site 1230587012146 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587012147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012148 dimer interface [polypeptide binding]; other site 1230587012149 conserved gate region; other site 1230587012150 putative PBP binding loops; other site 1230587012151 ABC-ATPase subunit interface; other site 1230587012152 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587012153 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587012154 Walker A/P-loop; other site 1230587012155 ATP binding site [chemical binding]; other site 1230587012156 Q-loop/lid; other site 1230587012157 ABC transporter signature motif; other site 1230587012158 Walker B; other site 1230587012159 D-loop; other site 1230587012160 H-loop/switch region; other site 1230587012161 TOBE domain; Region: TOBE_2; pfam08402 1230587012162 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1230587012163 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1230587012164 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1230587012165 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1230587012166 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1230587012167 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 1230587012168 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 1230587012169 Subunit I/III interface [polypeptide binding]; other site 1230587012170 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 1230587012171 Subunit I/III interface [polypeptide binding]; other site 1230587012172 Predicted small integral membrane protein [Function unknown]; Region: COG5605 1230587012173 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587012174 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587012175 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1230587012176 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587012177 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 1230587012178 active site 1230587012179 metal binding site [ion binding]; metal-binding site 1230587012180 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587012181 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1230587012182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587012183 short chain dehydrogenase; Provisional; Region: PRK07060 1230587012184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587012185 NAD(P) binding site [chemical binding]; other site 1230587012186 active site 1230587012187 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587012188 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 1230587012189 inhibitor binding site; inhibition site 1230587012190 catalytic Zn binding site [ion binding]; other site 1230587012191 structural Zn binding site [ion binding]; other site 1230587012192 NADP binding site [chemical binding]; other site 1230587012193 tetramer interface [polypeptide binding]; other site 1230587012194 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1230587012195 [2Fe-2S] cluster binding site [ion binding]; other site 1230587012196 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1230587012197 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587012198 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1230587012199 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1230587012200 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587012201 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 1230587012202 TM-ABC transporter signature motif; other site 1230587012203 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587012204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587012205 Walker A/P-loop; other site 1230587012206 ATP binding site [chemical binding]; other site 1230587012207 Q-loop/lid; other site 1230587012208 ABC transporter signature motif; other site 1230587012209 Walker B; other site 1230587012210 D-loop; other site 1230587012211 H-loop/switch region; other site 1230587012212 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1230587012213 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587012214 putative ligand binding site [chemical binding]; other site 1230587012215 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587012216 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587012217 DNA binding site [nucleotide binding] 1230587012218 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1230587012219 putative ligand binding site [chemical binding]; other site 1230587012220 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1230587012221 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1230587012222 putative metal binding site [ion binding]; other site 1230587012223 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587012224 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 1230587012225 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1230587012226 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1230587012227 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587012228 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587012229 Walker A/P-loop; other site 1230587012230 ATP binding site [chemical binding]; other site 1230587012231 Q-loop/lid; other site 1230587012232 ABC transporter signature motif; other site 1230587012233 Walker B; other site 1230587012234 D-loop; other site 1230587012235 H-loop/switch region; other site 1230587012236 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587012237 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587012238 Walker A/P-loop; other site 1230587012239 ATP binding site [chemical binding]; other site 1230587012240 Q-loop/lid; other site 1230587012241 ABC transporter signature motif; other site 1230587012242 Walker B; other site 1230587012243 D-loop; other site 1230587012244 H-loop/switch region; other site 1230587012245 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587012246 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1230587012247 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012248 dimer interface [polypeptide binding]; other site 1230587012249 conserved gate region; other site 1230587012250 putative PBP binding loops; other site 1230587012251 ABC-ATPase subunit interface; other site 1230587012252 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587012253 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012254 ABC-ATPase subunit interface; other site 1230587012255 putative PBP binding loops; other site 1230587012256 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587012257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587012258 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 1230587012259 putative dimerization interface [polypeptide binding]; other site 1230587012260 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587012261 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 1230587012262 TM-ABC transporter signature motif; other site 1230587012263 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587012264 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587012265 Walker A/P-loop; other site 1230587012266 ATP binding site [chemical binding]; other site 1230587012267 Q-loop/lid; other site 1230587012268 ABC transporter signature motif; other site 1230587012269 Walker B; other site 1230587012270 D-loop; other site 1230587012271 H-loop/switch region; other site 1230587012272 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587012273 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587012274 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1230587012275 ligand binding site [chemical binding]; other site 1230587012276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587012277 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587012278 NAD(P) binding site [chemical binding]; other site 1230587012279 active site 1230587012280 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1230587012281 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587012282 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587012283 DNA-binding site [nucleotide binding]; DNA binding site 1230587012284 FCD domain; Region: FCD; pfam07729 1230587012285 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587012286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587012287 NAD(P) binding site [chemical binding]; other site 1230587012288 active site 1230587012289 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1230587012290 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1230587012291 dimer interface [polypeptide binding]; other site 1230587012292 active site 1230587012293 metal binding site [ion binding]; metal-binding site 1230587012294 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1230587012295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587012296 NAD(P) binding site [chemical binding]; other site 1230587012297 active site 1230587012298 short chain dehydrogenase; Provisional; Region: PRK06841 1230587012299 classical (c) SDRs; Region: SDR_c; cd05233 1230587012300 NAD(P) binding site [chemical binding]; other site 1230587012301 active site 1230587012302 glucose-6-phosphate isomerase; Provisional; Region: PRK04190 1230587012303 Glucose-6-phosphate isomerase (GPI); Region: GPI; pfam06560 1230587012304 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1230587012305 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1230587012306 active site 1230587012307 intersubunit interface [polypeptide binding]; other site 1230587012308 catalytic residue [active] 1230587012309 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1230587012310 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1230587012311 NAD(P) binding pocket [chemical binding]; other site 1230587012312 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 1230587012313 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1230587012314 putative ligand binding site [chemical binding]; other site 1230587012315 putative NAD binding site [chemical binding]; other site 1230587012316 catalytic site [active] 1230587012317 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1230587012318 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1230587012319 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1230587012320 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587012321 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 1230587012322 putative active site [active] 1230587012323 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1230587012324 intersubunit interface [polypeptide binding]; other site 1230587012325 active site 1230587012326 catalytic residue [active] 1230587012327 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1230587012328 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 1230587012329 N- and C-terminal domain interface [polypeptide binding]; other site 1230587012330 active site 1230587012331 MgATP binding site [chemical binding]; other site 1230587012332 catalytic site [active] 1230587012333 metal binding site [ion binding]; metal-binding site 1230587012334 xylulose binding site [chemical binding]; other site 1230587012335 putative homodimer interface [polypeptide binding]; other site 1230587012336 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1230587012337 D-xylulose kinases, subgroup 3; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_3; cd07811 1230587012338 putative N- and C-terminal domain interface [polypeptide binding]; other site 1230587012339 putative active site [active] 1230587012340 putative MgATP binding site [chemical binding]; other site 1230587012341 catalytic site [active] 1230587012342 metal binding site [ion binding]; metal-binding site 1230587012343 putative xylulose binding site [chemical binding]; other site 1230587012344 putative homodimer interface [polypeptide binding]; other site 1230587012345 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1230587012346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587012347 NAD(P) binding site [chemical binding]; other site 1230587012348 active site 1230587012349 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 1230587012350 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587012351 TM-ABC transporter signature motif; other site 1230587012352 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587012353 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587012354 Walker A/P-loop; other site 1230587012355 ATP binding site [chemical binding]; other site 1230587012356 Q-loop/lid; other site 1230587012357 ABC transporter signature motif; other site 1230587012358 Walker B; other site 1230587012359 D-loop; other site 1230587012360 H-loop/switch region; other site 1230587012361 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587012362 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587012363 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587012364 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587012365 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587012366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587012367 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587012368 NAD(P) binding site [chemical binding]; other site 1230587012369 active site 1230587012370 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1230587012371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587012372 DNA-binding site [nucleotide binding]; DNA binding site 1230587012373 UTRA domain; Region: UTRA; pfam07702 1230587012374 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1230587012375 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1230587012376 N- and C-terminal domain interface [polypeptide binding]; other site 1230587012377 active site 1230587012378 MgATP binding site [chemical binding]; other site 1230587012379 catalytic site [active] 1230587012380 metal binding site [ion binding]; metal-binding site 1230587012381 xylulose binding site [chemical binding]; other site 1230587012382 homodimer interface [polypeptide binding]; other site 1230587012383 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1230587012384 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 1230587012385 TPP-binding site [chemical binding]; other site 1230587012386 dimer interface [polypeptide binding]; other site 1230587012387 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 1230587012388 PYR/PP interface [polypeptide binding]; other site 1230587012389 dimer interface [polypeptide binding]; other site 1230587012390 TPP binding site [chemical binding]; other site 1230587012391 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587012392 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 1230587012393 putative transporter; Provisional; Region: PRK10504 1230587012394 putative substrate translocation pore; other site 1230587012395 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1230587012396 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 1230587012397 substrate binding pocket [chemical binding]; other site 1230587012398 membrane-bound complex binding site; other site 1230587012399 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1230587012400 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012401 dimer interface [polypeptide binding]; other site 1230587012402 conserved gate region; other site 1230587012403 putative PBP binding loops; other site 1230587012404 ABC-ATPase subunit interface; other site 1230587012405 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1230587012406 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1230587012407 Walker A/P-loop; other site 1230587012408 ATP binding site [chemical binding]; other site 1230587012409 Q-loop/lid; other site 1230587012410 ABC transporter signature motif; other site 1230587012411 Walker B; other site 1230587012412 D-loop; other site 1230587012413 H-loop/switch region; other site 1230587012414 Ferredoxin [Energy production and conversion]; Region: COG1146 1230587012415 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1230587012416 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1230587012417 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1230587012418 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1230587012419 putative catalytic residue [active] 1230587012420 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 1230587012421 apolar tunnel; other site 1230587012422 heme binding site [chemical binding]; other site 1230587012423 dimerization interface [polypeptide binding]; other site 1230587012424 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1230587012425 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 1230587012426 N-terminal plug; other site 1230587012427 ligand-binding site [chemical binding]; other site 1230587012428 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1230587012429 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1230587012430 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1230587012431 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587012432 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 1230587012433 putative active site [active] 1230587012434 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1230587012435 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587012436 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1230587012437 catalytic triad [active] 1230587012438 conserved cis-peptide bond; other site 1230587012439 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1230587012440 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587012441 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587012442 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1230587012443 Walker A/P-loop; other site 1230587012444 ATP binding site [chemical binding]; other site 1230587012445 Q-loop/lid; other site 1230587012446 ABC transporter signature motif; other site 1230587012447 Walker B; other site 1230587012448 D-loop; other site 1230587012449 H-loop/switch region; other site 1230587012450 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1230587012451 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1230587012452 Walker A/P-loop; other site 1230587012453 ATP binding site [chemical binding]; other site 1230587012454 Q-loop/lid; other site 1230587012455 ABC transporter signature motif; other site 1230587012456 Walker B; other site 1230587012457 D-loop; other site 1230587012458 H-loop/switch region; other site 1230587012459 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 1230587012460 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587012461 TM-ABC transporter signature motif; other site 1230587012462 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1230587012463 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 1230587012464 TM-ABC transporter signature motif; other site 1230587012465 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587012466 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1230587012467 catalytic triad [active] 1230587012468 conserved cis-peptide bond; other site 1230587012469 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1230587012470 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 1230587012471 inhibitor-cofactor binding pocket; inhibition site 1230587012472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587012473 catalytic residue [active] 1230587012474 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1230587012475 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 1230587012476 active site 1230587012477 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1230587012478 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587012479 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 1230587012480 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 1230587012481 active site 1230587012482 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587012483 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1230587012484 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587012485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012486 dimer interface [polypeptide binding]; other site 1230587012487 conserved gate region; other site 1230587012488 putative PBP binding loops; other site 1230587012489 ABC-ATPase subunit interface; other site 1230587012490 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1230587012491 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012492 dimer interface [polypeptide binding]; other site 1230587012493 conserved gate region; other site 1230587012494 putative PBP binding loops; other site 1230587012495 ABC-ATPase subunit interface; other site 1230587012496 cytosine deaminase; Provisional; Region: PRK05985 1230587012497 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1230587012498 active site 1230587012499 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 1230587012500 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 1230587012501 active site 1230587012502 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1230587012503 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587012504 Walker A/P-loop; other site 1230587012505 ATP binding site [chemical binding]; other site 1230587012506 Q-loop/lid; other site 1230587012507 ABC transporter signature motif; other site 1230587012508 Walker B; other site 1230587012509 D-loop; other site 1230587012510 H-loop/switch region; other site 1230587012511 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587012512 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1230587012513 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587012514 Walker A/P-loop; other site 1230587012515 ATP binding site [chemical binding]; other site 1230587012516 Q-loop/lid; other site 1230587012517 ABC transporter signature motif; other site 1230587012518 Walker B; other site 1230587012519 D-loop; other site 1230587012520 H-loop/switch region; other site 1230587012521 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1230587012522 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1230587012523 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587012524 DNA-binding site [nucleotide binding]; DNA binding site 1230587012525 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587012526 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1230587012527 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1230587012528 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587012529 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587012530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587012531 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 1230587012532 putative effector binding pocket; other site 1230587012533 putative dimerization interface [polypeptide binding]; other site 1230587012534 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1230587012535 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587012536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587012537 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587012538 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587012539 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587012540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587012541 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587012542 Transposase; Region: HTH_Tnp_1; pfam01527 1230587012543 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1230587012544 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1230587012545 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1230587012546 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587012547 MULE transposase domain; Region: MULE; pfam10551 1230587012548 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1230587012549 Transposase domain (DUF772); Region: DUF772; pfam05598 1230587012550 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1230587012551 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1230587012552 Peptidase family M23; Region: Peptidase_M23; pfam01551 1230587012553 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1230587012554 Clp amino terminal domain; Region: Clp_N; pfam02861 1230587012555 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 1230587012556 Walker A motif; other site 1230587012557 ATP binding site [chemical binding]; other site 1230587012558 Walker B motif; other site 1230587012559 arginine finger; other site 1230587012560 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 1230587012561 Walker A motif; other site 1230587012562 ATP binding site [chemical binding]; other site 1230587012563 Walker B motif; other site 1230587012564 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1230587012565 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1230587012566 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1230587012567 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 1230587012568 S-adenosylmethionine binding site [chemical binding]; other site 1230587012569 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1230587012570 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1230587012571 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1230587012572 RF-1 domain; Region: RF-1; pfam00472 1230587012573 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1230587012574 GAF domain; Region: GAF; pfam01590 1230587012575 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1230587012576 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1230587012577 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1230587012578 aspartate kinase; Reviewed; Region: PRK06635 1230587012579 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 1230587012580 putative nucleotide binding site [chemical binding]; other site 1230587012581 putative catalytic residues [active] 1230587012582 putative Mg ion binding site [ion binding]; other site 1230587012583 putative aspartate binding site [chemical binding]; other site 1230587012584 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 1230587012585 putative allosteric regulatory site; other site 1230587012586 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 1230587012587 RibD C-terminal domain; Region: RibD_C; cl17279 1230587012588 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1230587012589 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1230587012590 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 1230587012591 S-adenosylmethionine binding site [chemical binding]; other site 1230587012592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 1230587012593 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1230587012594 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1230587012595 putative active site [active] 1230587012596 catalytic triad [active] 1230587012597 dimer interface [polypeptide binding]; other site 1230587012598 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 1230587012599 GSH binding site [chemical binding]; other site 1230587012600 catalytic residues [active] 1230587012601 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1230587012602 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1230587012603 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1230587012604 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 1230587012605 active site 1230587012606 8-oxo-dGMP binding site [chemical binding]; other site 1230587012607 nudix motif; other site 1230587012608 metal binding site [ion binding]; metal-binding site 1230587012609 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587012610 Coenzyme A binding pocket [chemical binding]; other site 1230587012611 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 1230587012612 heterotetramer interface [polypeptide binding]; other site 1230587012613 active site pocket [active] 1230587012614 cleavage site 1230587012615 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1230587012616 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1230587012617 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1230587012618 SEC-C motif; Region: SEC-C; pfam02810 1230587012619 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1230587012620 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 1230587012621 putative substrate translocation pore; other site 1230587012622 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1230587012623 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1230587012624 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1230587012625 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1230587012626 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 1230587012627 active site 1230587012628 acyl-activating enzyme (AAE) consensus motif; other site 1230587012629 putative CoA binding site [chemical binding]; other site 1230587012630 AMP binding site [chemical binding]; other site 1230587012631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 1230587012632 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 1230587012633 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587012634 Coenzyme A binding pocket [chemical binding]; other site 1230587012635 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1230587012636 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1230587012637 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 1230587012638 active site 1230587012639 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1230587012640 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1230587012641 minor groove reading motif; other site 1230587012642 helix-hairpin-helix signature motif; other site 1230587012643 substrate binding pocket [chemical binding]; other site 1230587012644 active site 1230587012645 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1230587012646 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1230587012647 active site 1230587012648 HIGH motif; other site 1230587012649 nucleotide binding site [chemical binding]; other site 1230587012650 active site 1230587012651 KMSKS motif; other site 1230587012652 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1230587012653 short chain dehydrogenase; Provisional; Region: PRK05993 1230587012654 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1230587012655 NADP binding site [chemical binding]; other site 1230587012656 active site 1230587012657 steroid binding site; other site 1230587012658 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1230587012659 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1230587012660 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1230587012661 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 1230587012662 Ligand binding site [chemical binding]; other site 1230587012663 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1230587012664 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1230587012665 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 1230587012666 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1230587012667 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 1230587012668 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1230587012669 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1230587012670 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 1230587012671 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1230587012672 catalytic residues [active] 1230587012673 argininosuccinate lyase; Provisional; Region: PRK00855 1230587012674 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1230587012675 active sites [active] 1230587012676 tetramer interface [polypeptide binding]; other site 1230587012677 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1230587012678 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1230587012679 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1230587012680 active site 1230587012681 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587012682 substrate binding site [chemical binding]; other site 1230587012683 catalytic residues [active] 1230587012684 dimer interface [polypeptide binding]; other site 1230587012685 TIGR02302 family protein; Region: aProt_lowcomp 1230587012686 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1230587012687 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1230587012688 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1230587012689 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587012690 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 1230587012691 active site 1230587012692 phosphorylation site [posttranslational modification] 1230587012693 intermolecular recognition site; other site 1230587012694 dimerization interface [polypeptide binding]; other site 1230587012695 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1230587012696 active site 1230587012697 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1230587012698 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1230587012699 Walker A/P-loop; other site 1230587012700 ATP binding site [chemical binding]; other site 1230587012701 Q-loop/lid; other site 1230587012702 ABC transporter signature motif; other site 1230587012703 Walker B; other site 1230587012704 D-loop; other site 1230587012705 H-loop/switch region; other site 1230587012706 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1230587012707 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1230587012708 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 1230587012709 putative active site [active] 1230587012710 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1230587012711 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1230587012712 putative acyl-acceptor binding pocket; other site 1230587012713 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1230587012714 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 1230587012715 putative active site pocket [active] 1230587012716 dimerization interface [polypeptide binding]; other site 1230587012717 putative catalytic residue [active] 1230587012718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 1230587012719 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 1230587012720 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 1230587012721 prephenate dehydrogenase; Validated; Region: PRK08507 1230587012722 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1230587012723 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 1230587012724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587012725 homodimer interface [polypeptide binding]; other site 1230587012726 catalytic residue [active] 1230587012727 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1230587012728 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 1230587012729 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1230587012730 Uncharacterized conserved protein [Function unknown]; Region: COG3542 1230587012731 aromatic amino acid exporter; Provisional; Region: PRK11689 1230587012732 EamA-like transporter family; Region: EamA; pfam00892 1230587012733 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1230587012734 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1230587012735 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1230587012736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 1230587012737 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1230587012738 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1230587012739 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 1230587012740 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 1230587012741 metal ion-dependent adhesion site (MIDAS); other site 1230587012742 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1230587012743 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1230587012744 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 1230587012745 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 1230587012746 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 1230587012747 HSP70 interaction site [polypeptide binding]; other site 1230587012748 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1230587012749 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1230587012750 Domain of unknown function DUF21; Region: DUF21; pfam01595 1230587012751 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 1230587012752 Transporter associated domain; Region: CorC_HlyC; smart01091 1230587012753 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1230587012754 active site 1230587012755 dimer interface [polypeptide binding]; other site 1230587012756 metal binding site [ion binding]; metal-binding site 1230587012757 shikimate kinase; Provisional; Region: PRK13946 1230587012758 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 1230587012759 ADP binding site [chemical binding]; other site 1230587012760 magnesium binding site [ion binding]; other site 1230587012761 putative shikimate binding site; other site 1230587012762 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1230587012763 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1230587012764 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1230587012765 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 1230587012766 active site 1230587012767 DNA binding site [nucleotide binding] 1230587012768 Int/Topo IB signature motif; other site 1230587012769 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1230587012770 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1230587012771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1230587012772 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 1230587012773 CPxP motif; other site 1230587012774 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1230587012775 oligomeric interface; other site 1230587012776 putative active site [active] 1230587012777 homodimer interface [polypeptide binding]; other site 1230587012778 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1230587012779 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1230587012780 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 1230587012781 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1230587012782 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1230587012783 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1230587012784 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1230587012785 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1230587012786 metal binding site [ion binding]; metal-binding site 1230587012787 putative dimer interface [polypeptide binding]; other site 1230587012788 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587012789 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 1230587012790 putative DNA binding site [nucleotide binding]; other site 1230587012791 putative Zn2+ binding site [ion binding]; other site 1230587012792 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587012793 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1230587012794 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1230587012795 putative NAD(P) binding site [chemical binding]; other site 1230587012796 putative substrate binding site [chemical binding]; other site 1230587012797 catalytic Zn binding site [ion binding]; other site 1230587012798 structural Zn binding site [ion binding]; other site 1230587012799 dimer interface [polypeptide binding]; other site 1230587012800 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1230587012801 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587012802 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587012803 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587012804 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1230587012805 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587012806 hypothetical protein; Provisional; Region: PRK06148 1230587012807 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 1230587012808 active site 1230587012809 ATP binding site [chemical binding]; other site 1230587012810 Peptidase family M23; Region: Peptidase_M23; pfam01551 1230587012811 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 1230587012812 inhibitor-cofactor binding pocket; inhibition site 1230587012813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587012814 catalytic residue [active] 1230587012815 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1230587012816 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 1230587012817 substrate binding pocket [chemical binding]; other site 1230587012818 membrane-bound complex binding site; other site 1230587012819 hinge residues; other site 1230587012820 hypothetical protein; Provisional; Region: PRK06149 1230587012821 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 1230587012822 active site 1230587012823 substrate binding site [chemical binding]; other site 1230587012824 ATP binding site [chemical binding]; other site 1230587012825 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 1230587012826 inhibitor-cofactor binding pocket; inhibition site 1230587012827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587012828 catalytic residue [active] 1230587012829 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1230587012830 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587012831 DNA-binding site [nucleotide binding]; DNA binding site 1230587012832 UTRA domain; Region: UTRA; pfam07702 1230587012833 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1230587012834 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 1230587012835 active site 1230587012836 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1230587012837 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1230587012838 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1230587012839 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587012840 dimer interface [polypeptide binding]; other site 1230587012841 conserved gate region; other site 1230587012842 ABC-ATPase subunit interface; other site 1230587012843 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587012844 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1230587012845 Walker A/P-loop; other site 1230587012846 ATP binding site [chemical binding]; other site 1230587012847 Q-loop/lid; other site 1230587012848 ABC transporter signature motif; other site 1230587012849 Walker B; other site 1230587012850 D-loop; other site 1230587012851 H-loop/switch region; other site 1230587012852 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1230587012853 active sites [active] 1230587012854 tetramer interface [polypeptide binding]; other site 1230587012855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1230587012856 Nucleoside recognition; Region: Gate; pfam07670 1230587012857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 1230587012858 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1230587012859 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 1230587012860 Ligand Binding Site [chemical binding]; other site 1230587012861 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1230587012862 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 1230587012863 DNA binding residues [nucleotide binding] 1230587012864 dimerization interface [polypeptide binding]; other site 1230587012865 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1230587012866 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1230587012867 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587012868 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 1230587012869 active site 1230587012870 phosphorylation site [posttranslational modification] 1230587012871 intermolecular recognition site; other site 1230587012872 dimerization interface [polypeptide binding]; other site 1230587012873 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 1230587012874 DNA binding site [nucleotide binding] 1230587012875 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587012876 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 1230587012877 active site 1230587012878 phosphorylation site [posttranslational modification] 1230587012879 intermolecular recognition site; other site 1230587012880 dimerization interface [polypeptide binding]; other site 1230587012881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 1230587012882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 1230587012883 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1230587012884 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1230587012885 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1230587012886 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1230587012887 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 1230587012888 RNA binding surface [nucleotide binding]; other site 1230587012889 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1230587012890 active site 1230587012891 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1230587012892 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1230587012893 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587012894 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 1230587012895 DNA binding residues [nucleotide binding] 1230587012896 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1230587012897 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 1230587012898 GDP-binding site [chemical binding]; other site 1230587012899 ACT binding site; other site 1230587012900 IMP binding site; other site 1230587012901 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587012902 EamA-like transporter family; Region: EamA; pfam00892 1230587012903 EamA-like transporter family; Region: EamA; pfam00892 1230587012904 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1230587012905 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1230587012906 ligand binding site [chemical binding]; other site 1230587012907 NAD binding site [chemical binding]; other site 1230587012908 dimerization interface [polypeptide binding]; other site 1230587012909 catalytic site [active] 1230587012910 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1230587012911 putative L-serine binding site [chemical binding]; other site 1230587012912 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 1230587012913 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587012914 catalytic residue [active] 1230587012915 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1230587012916 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1230587012917 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1230587012918 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 1230587012919 active site 1230587012920 substrate binding site [chemical binding]; other site 1230587012921 metal binding site [ion binding]; metal-binding site 1230587012922 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1230587012923 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 1230587012924 Walker A motif; other site 1230587012925 ATP binding site [chemical binding]; other site 1230587012926 Walker B motif; other site 1230587012927 arginine finger; other site 1230587012928 Peptidase family M41; Region: Peptidase_M41; pfam01434 1230587012929 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1230587012930 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 1230587012931 Ligand Binding Site [chemical binding]; other site 1230587012932 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 1230587012933 binding surface 1230587012934 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1230587012935 TPR motif; other site 1230587012936 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1230587012937 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1230587012938 ligand binding site [chemical binding]; other site 1230587012939 translocation protein TolB; Provisional; Region: tolB; PRK05137 1230587012940 TolB amino-terminal domain; Region: TolB_N; pfam04052 1230587012941 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1230587012942 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1230587012943 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1230587012944 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1230587012945 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1230587012946 TolR protein; Region: tolR; TIGR02801 1230587012947 TolQ protein; Region: tolQ; TIGR02796 1230587012948 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1230587012949 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1230587012950 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1230587012951 active site 1230587012952 DNA binding site [nucleotide binding] 1230587012953 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1230587012954 DNA binding site [nucleotide binding] 1230587012955 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1230587012956 nucleotide binding site [chemical binding]; other site 1230587012957 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 1230587012958 active site 1230587012959 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 1230587012960 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587012961 NAD binding site [chemical binding]; other site 1230587012962 substrate binding site [chemical binding]; other site 1230587012963 active site 1230587012964 Glycogenin belongs the GT 8 family and initiates the biosynthesis of glycogen; Region: GT8_Glycogenin; cd02537 1230587012965 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1230587012966 substrate binding site; other site 1230587012967 Manganese binding site; other site 1230587012968 dimer interface; other site 1230587012969 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587012970 extended (e) SDRs; Region: SDR_e; cd08946 1230587012971 NAD(P) binding site [chemical binding]; other site 1230587012972 active site 1230587012973 substrate binding site [chemical binding]; other site 1230587012974 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 1230587012975 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1230587012976 active site 1230587012977 metal binding site [ion binding]; metal-binding site 1230587012978 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1230587012979 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 1230587012980 Walker A motif; other site 1230587012981 ATP binding site [chemical binding]; other site 1230587012982 Walker B motif; other site 1230587012983 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1230587012984 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1230587012985 RuvA N terminal domain; Region: RuvA_N; pfam01330 1230587012986 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 1230587012987 active site 1230587012988 putative DNA-binding cleft [nucleotide binding]; other site 1230587012989 dimer interface [polypeptide binding]; other site 1230587012990 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1230587012991 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1230587012992 hypothetical protein; Validated; Region: PRK00110 1230587012993 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1230587012994 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 1230587012995 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1230587012996 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1230587012997 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587012998 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587012999 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1230587013000 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1230587013001 putative active site [active] 1230587013002 metal binding site [ion binding]; metal-binding site 1230587013003 homodimer binding site [polypeptide binding]; other site 1230587013004 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1230587013005 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1230587013006 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587013007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587013008 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1230587013009 dimerization interface [polypeptide binding]; other site 1230587013010 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1230587013011 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 1230587013012 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1230587013013 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 1230587013014 TPP-binding site [chemical binding]; other site 1230587013015 dimer interface [polypeptide binding]; other site 1230587013016 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 1230587013017 PYR/PP interface [polypeptide binding]; other site 1230587013018 dimer interface [polypeptide binding]; other site 1230587013019 TPP binding site [chemical binding]; other site 1230587013020 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587013021 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1230587013022 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1230587013023 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1230587013024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3554 1230587013025 Phosphoglycerate kinase; Region: PGK; pfam00162 1230587013026 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 1230587013027 substrate binding site [chemical binding]; other site 1230587013028 hinge regions; other site 1230587013029 ADP binding site [chemical binding]; other site 1230587013030 catalytic site [active] 1230587013031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1230587013032 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1230587013033 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1230587013034 Fructose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: COG3588 1230587013035 catalytic residue [active] 1230587013036 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1230587013037 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587013038 cyclase homology domain; Region: CHD; cd07302 1230587013039 nucleotidyl binding site; other site 1230587013040 metal binding site [ion binding]; metal-binding site 1230587013041 dimer interface [polypeptide binding]; other site 1230587013042 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587013043 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1230587013044 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 1230587013045 TPR motif; other site 1230587013046 TPR repeat; Region: TPR_11; pfam13414 1230587013047 binding surface 1230587013048 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 1230587013049 binding surface 1230587013050 TPR motif; other site 1230587013051 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 1230587013052 putative substrate translocation pore; other site 1230587013053 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 1230587013054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 1230587013055 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 1230587013056 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1230587013057 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587013058 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1230587013059 Walker A/P-loop; other site 1230587013060 ATP binding site [chemical binding]; other site 1230587013061 Q-loop/lid; other site 1230587013062 ABC transporter signature motif; other site 1230587013063 Walker B; other site 1230587013064 D-loop; other site 1230587013065 H-loop/switch region; other site 1230587013066 hypothetical protein; Validated; Region: PRK09039 1230587013067 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1230587013068 ligand binding site [chemical binding]; other site 1230587013069 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587013070 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 1230587013071 active site 1230587013072 dimerization interface [polypeptide binding]; other site 1230587013073 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1230587013074 Sel1-like repeats; Region: SEL1; smart00671 1230587013075 Sel1-like repeats; Region: SEL1; smart00671 1230587013076 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 1230587013077 thiamine phosphate binding site [chemical binding]; other site 1230587013078 active site 1230587013079 pyrophosphate binding site [ion binding]; other site 1230587013080 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1230587013081 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 1230587013082 dimerization interface [polypeptide binding]; other site 1230587013083 putative DNA binding site [nucleotide binding]; other site 1230587013084 putative Zn2+ binding site [ion binding]; other site 1230587013085 Uncharacterized small protein [Function unknown]; Region: COG5570 1230587013086 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 1230587013087 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1230587013088 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1230587013089 ATP-grasp domain; Region: ATP-grasp; pfam02222 1230587013090 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1230587013091 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 1230587013092 TPR repeat; Region: TPR_11; pfam13414 1230587013093 binding surface 1230587013094 TPR motif; other site 1230587013095 pyruvate kinase; Provisional; Region: PRK06247 1230587013096 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 1230587013097 domain interfaces; other site 1230587013098 active site 1230587013099 Predicted integral membrane protein [Function unknown]; Region: COG5480 1230587013100 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1230587013101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1230587013102 hypothetical protein; Provisional; Region: PRK13694 1230587013103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1230587013104 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 1230587013105 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1230587013106 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 1230587013107 active site 1230587013108 phosphorylation site [posttranslational modification] 1230587013109 intermolecular recognition site; other site 1230587013110 dimerization interface [polypeptide binding]; other site 1230587013111 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 1230587013112 Walker A motif; other site 1230587013113 ATP binding site [chemical binding]; other site 1230587013114 Walker B motif; other site 1230587013115 arginine finger; other site 1230587013116 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1230587013117 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1230587013118 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1230587013119 active site 1230587013120 Zn binding site [ion binding]; other site 1230587013121 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1230587013122 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1230587013123 hypothetical protein; Provisional; Region: PRK07546 1230587013124 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1230587013125 substrate-cofactor binding pocket; other site 1230587013126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587013127 catalytic residue [active] 1230587013128 PAS fold; Region: PAS_7; pfam12860 1230587013129 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587013130 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587013131 metal binding site [ion binding]; metal-binding site 1230587013132 active site 1230587013133 I-site; other site 1230587013134 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 1230587013135 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1230587013136 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1230587013137 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 1230587013138 active site 1230587013139 metal binding site [ion binding]; metal-binding site 1230587013140 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1230587013141 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1230587013142 ferrochelatase; Reviewed; Region: hemH; PRK00035 1230587013143 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 1230587013144 C-terminal domain interface [polypeptide binding]; other site 1230587013145 active site 1230587013146 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 1230587013147 active site 1230587013148 N-terminal domain interface [polypeptide binding]; other site 1230587013149 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1230587013150 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 1230587013151 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1230587013152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 1230587013153 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1230587013154 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1230587013155 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1230587013156 active site 1230587013157 tetramer interface; other site 1230587013158 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1230587013159 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 1230587013160 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1230587013161 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587013162 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 1230587013163 active site 1230587013164 catalytic triad [active] 1230587013165 oxyanion hole [active] 1230587013166 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1230587013167 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1230587013168 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 1230587013169 active site 1230587013170 dimer interface [polypeptide binding]; other site 1230587013171 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1230587013172 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 1230587013173 active site 1230587013174 FMN binding site [chemical binding]; other site 1230587013175 substrate binding site [chemical binding]; other site 1230587013176 3Fe-4S cluster binding site [ion binding]; other site 1230587013177 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 1230587013178 domain interface; other site 1230587013179 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1230587013180 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 1230587013181 tetramer interface [polypeptide binding]; other site 1230587013182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587013183 catalytic residue [active] 1230587013184 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1230587013185 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1230587013186 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 1230587013187 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1230587013188 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587013189 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 1230587013190 DNA binding residues [nucleotide binding] 1230587013191 dimerization interface [polypeptide binding]; other site 1230587013192 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 1230587013193 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587013194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587013195 dimer interface [polypeptide binding]; other site 1230587013196 conserved gate region; other site 1230587013197 putative PBP binding loops; other site 1230587013198 ABC-ATPase subunit interface; other site 1230587013199 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1230587013200 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587013201 dimer interface [polypeptide binding]; other site 1230587013202 conserved gate region; other site 1230587013203 putative PBP binding loops; other site 1230587013204 ABC-ATPase subunit interface; other site 1230587013205 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587013206 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587013207 Walker A/P-loop; other site 1230587013208 ATP binding site [chemical binding]; other site 1230587013209 Q-loop/lid; other site 1230587013210 ABC transporter signature motif; other site 1230587013211 Walker B; other site 1230587013212 D-loop; other site 1230587013213 H-loop/switch region; other site 1230587013214 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587013215 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587013216 Walker A/P-loop; other site 1230587013217 ATP binding site [chemical binding]; other site 1230587013218 Q-loop/lid; other site 1230587013219 ABC transporter signature motif; other site 1230587013220 Walker B; other site 1230587013221 D-loop; other site 1230587013222 H-loop/switch region; other site 1230587013223 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587013224 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 1230587013225 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587013226 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1230587013227 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 1230587013228 putative dimer interface [polypeptide binding]; other site 1230587013229 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1230587013230 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587013231 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587013232 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 1230587013233 active site 1230587013234 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 1230587013235 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587013236 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 1230587013237 active site 1230587013238 phosphorylation site [posttranslational modification] 1230587013239 intermolecular recognition site; other site 1230587013240 dimerization interface [polypeptide binding]; other site 1230587013241 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1230587013242 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1230587013243 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1230587013244 pseudoazurin; Region: pseudoazurin; TIGR02375 1230587013245 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1230587013246 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1230587013247 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1230587013248 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 1230587013249 Moco binding site; other site 1230587013250 metal coordination site [ion binding]; other site 1230587013251 dimerization interface [polypeptide binding]; other site 1230587013252 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1230587013253 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1230587013254 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587013255 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 1230587013256 DNA binding residues [nucleotide binding] 1230587013257 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1230587013258 MarR family; Region: MarR; pfam01047 1230587013259 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 1230587013260 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587013261 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 1230587013262 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587013263 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 1230587013264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587013265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587013266 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 1230587013267 dimerization interface [polypeptide binding]; other site 1230587013268 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 1230587013269 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587013270 active site 1230587013271 catalytic tetrad [active] 1230587013272 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1230587013273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1230587013274 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1230587013275 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1230587013276 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1230587013277 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1230587013278 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1230587013279 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1230587013280 metal ion-dependent adhesion site (MIDAS); other site 1230587013281 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1230587013282 homodimer interface [polypeptide binding]; other site 1230587013283 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1230587013284 active site pocket [active] 1230587013285 glycogen branching enzyme; Provisional; Region: PRK05402 1230587013286 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1230587013287 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1230587013288 active site 1230587013289 catalytic site [active] 1230587013290 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1230587013291 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1230587013292 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1230587013293 ligand binding site; other site 1230587013294 oligomer interface; other site 1230587013295 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1230587013296 dimer interface [polypeptide binding]; other site 1230587013297 N-terminal domain interface [polypeptide binding]; other site 1230587013298 sulfate 1 binding site; other site 1230587013299 glycogen synthase; Provisional; Region: glgA; PRK00654 1230587013300 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1230587013301 ADP-binding pocket [chemical binding]; other site 1230587013302 homodimer interface [polypeptide binding]; other site 1230587013303 phosphoglucomutase; Region: PLN02307 1230587013304 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 1230587013305 substrate binding site [chemical binding]; other site 1230587013306 dimer interface [polypeptide binding]; other site 1230587013307 active site 1230587013308 metal binding site [ion binding]; metal-binding site 1230587013309 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1230587013310 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1230587013311 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1230587013312 active site 1230587013313 catalytic site [active] 1230587013314 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 1230587013315 putative active site [active] 1230587013316 putative catalytic site [active] 1230587013317 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 1230587013318 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1230587013319 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 1230587013320 NAD binding site [chemical binding]; other site 1230587013321 catalytic Zn binding site [ion binding]; other site 1230587013322 substrate binding site [chemical binding]; other site 1230587013323 structural Zn binding site [ion binding]; other site 1230587013324 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1230587013325 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1230587013326 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1230587013327 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587013328 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1230587013329 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1230587013330 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587013331 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1230587013332 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1230587013333 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1230587013334 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 1230587013335 TPR motif; other site 1230587013336 binding surface 1230587013337 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 1230587013338 binding surface 1230587013339 TPR motif; other site 1230587013340 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 1230587013341 binding surface 1230587013342 TPR motif; other site 1230587013343 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1230587013344 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587013345 cyclase homology domain; Region: CHD; cd07302 1230587013346 nucleotidyl binding site; other site 1230587013347 metal binding site [ion binding]; metal-binding site 1230587013348 dimer interface [polypeptide binding]; other site 1230587013349 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1230587013350 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1230587013351 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1230587013352 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1230587013353 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1230587013354 ligand binding site [chemical binding]; other site 1230587013355 homodimer interface [polypeptide binding]; other site 1230587013356 NAD(P) binding site [chemical binding]; other site 1230587013357 trimer interface B [polypeptide binding]; other site 1230587013358 trimer interface A [polypeptide binding]; other site 1230587013359 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 1230587013360 PAS domain; Region: PAS; smart00091 1230587013361 PAS fold; Region: PAS_7; pfam12860 1230587013362 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587013363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587013364 metal binding site [ion binding]; metal-binding site 1230587013365 active site 1230587013366 I-site; other site 1230587013367 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 1230587013368 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1230587013369 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1230587013370 catalytic triad [active] 1230587013371 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1230587013372 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1230587013373 putative ligand binding site [chemical binding]; other site 1230587013374 NAD binding site [chemical binding]; other site 1230587013375 catalytic site [active] 1230587013376 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587013377 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587013378 DNA binding site [nucleotide binding] 1230587013379 domain linker motif; other site 1230587013380 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 1230587013381 putative dimerization interface [polypeptide binding]; other site 1230587013382 putative ligand binding site [chemical binding]; other site 1230587013383 MarR family; Region: MarR_2; cl17246 1230587013384 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 1230587013385 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1230587013386 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 1230587013387 P-loop, Walker A motif; other site 1230587013388 Base recognition motif; other site 1230587013389 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1230587013390 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1230587013391 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 1230587013392 structural tetrad; other site 1230587013393 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587013394 Predicted acetyltransferase [General function prediction only]; Region: COG3153 1230587013395 Coenzyme A binding pocket [chemical binding]; other site 1230587013396 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1230587013397 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1230587013398 dimer interface [polypeptide binding]; other site 1230587013399 active site 1230587013400 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587013401 catalytic residues [active] 1230587013402 substrate binding site [chemical binding]; other site 1230587013403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587013404 LysR family transcriptional regulator; Provisional; Region: PRK14997 1230587013405 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 1230587013406 putative effector binding pocket; other site 1230587013407 dimerization interface [polypeptide binding]; other site 1230587013408 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 1230587013409 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1230587013410 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 1230587013411 putative active site [active] 1230587013412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4423 1230587013413 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1230587013414 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1230587013415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1230587013416 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1230587013417 putative metal binding site [ion binding]; other site 1230587013418 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1230587013419 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1230587013420 active site 1230587013421 intersubunit interface [polypeptide binding]; other site 1230587013422 catalytic residue [active] 1230587013423 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 1230587013424 putative active site [active] 1230587013425 putative metal binding residues [ion binding]; other site 1230587013426 signature motif; other site 1230587013427 putative dimer interface [polypeptide binding]; other site 1230587013428 putative phosphate binding site [ion binding]; other site 1230587013429 CHAD domain; Region: CHAD; pfam05235 1230587013430 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1230587013431 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1230587013432 active site residue [active] 1230587013433 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1230587013434 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1230587013435 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587013436 dimer interface [polypeptide binding]; other site 1230587013437 conserved gate region; other site 1230587013438 ABC-ATPase subunit interface; other site 1230587013439 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1230587013440 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1230587013441 Walker A/P-loop; other site 1230587013442 ATP binding site [chemical binding]; other site 1230587013443 Q-loop/lid; other site 1230587013444 ABC transporter signature motif; other site 1230587013445 Walker B; other site 1230587013446 D-loop; other site 1230587013447 H-loop/switch region; other site 1230587013448 NIL domain; Region: NIL; pfam09383 1230587013449 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1230587013450 beta-galactosidase; Region: BGL; TIGR03356 1230587013451 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587013452 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587013453 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587013454 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587013455 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1230587013456 xylose isomerase; Provisional; Region: PRK05474 1230587013457 xylose isomerase; Region: xylose_isom_A; TIGR02630 1230587013458 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1230587013459 N- and C-terminal domain interface [polypeptide binding]; other site 1230587013460 D-xylulose kinase; Region: XylB; TIGR01312 1230587013461 active site 1230587013462 MgATP binding site [chemical binding]; other site 1230587013463 catalytic site [active] 1230587013464 metal binding site [ion binding]; metal-binding site 1230587013465 xylulose binding site [chemical binding]; other site 1230587013466 homodimer interface [polypeptide binding]; other site 1230587013467 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587013468 DNA binding site [nucleotide binding] 1230587013469 domain linker motif; other site 1230587013470 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1230587013471 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587013472 putative ligand binding site [chemical binding]; other site 1230587013473 Cytolysin, a secreted calcineurin-like phosphatase [Cell motility and secretion]; Region: COG5555 1230587013474 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1230587013475 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 1230587013476 putative substrate translocation pore; other site 1230587013477 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 1230587013478 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1230587013479 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587013480 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587013481 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587013482 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587013483 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1230587013484 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587013485 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587013486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587013487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1230587013488 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1230587013489 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1230587013490 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1230587013491 HIGH motif; other site 1230587013492 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1230587013493 active site 1230587013494 KMSKS motif; other site 1230587013495 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1230587013496 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1230587013497 dimer interface [polypeptide binding]; other site 1230587013498 putative anticodon binding site; other site 1230587013499 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1230587013500 motif 1; other site 1230587013501 active site 1230587013502 motif 2; other site 1230587013503 motif 3; other site 1230587013504 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 1230587013505 active site 1230587013506 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1230587013507 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1230587013508 ATP-dependent DNA ligase; Validated; Region: PRK09247 1230587013509 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1230587013510 active site 1230587013511 DNA binding site [nucleotide binding] 1230587013512 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1230587013513 DNA binding site [nucleotide binding] 1230587013514 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3452 1230587013515 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 1230587013516 PAS fold; Region: PAS_3; pfam08447 1230587013517 putative active site [active] 1230587013518 heme pocket [chemical binding]; other site 1230587013519 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587013520 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587013521 metal binding site [ion binding]; metal-binding site 1230587013522 active site 1230587013523 I-site; other site 1230587013524 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 1230587013525 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1230587013526 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1230587013527 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587013528 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1230587013529 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1230587013530 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1230587013531 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1230587013532 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1230587013533 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1230587013534 Monovalent Cation (K+ or Na+):Proton Antiporter-3 (CPA3) subfamily; Region: 2a6301s05; TIGR00942 1230587013535 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1230587013536 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1230587013537 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1230587013538 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587013539 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587013540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587013541 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 1230587013542 putative effector binding pocket; other site 1230587013543 dimerization interface [polypeptide binding]; other site 1230587013544 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1230587013545 active site 1230587013546 SAM binding site [chemical binding]; other site 1230587013547 homodimer interface [polypeptide binding]; other site 1230587013548 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1230587013549 active site 1230587013550 putative homodimer interface [polypeptide binding]; other site 1230587013551 SAM binding site [chemical binding]; other site 1230587013552 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1230587013553 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 1230587013554 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1230587013555 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 1230587013556 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1230587013557 active site 1230587013558 SAM binding site [chemical binding]; other site 1230587013559 homodimer interface [polypeptide binding]; other site 1230587013560 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1230587013561 active site 1230587013562 SAM binding site [chemical binding]; other site 1230587013563 homodimer interface [polypeptide binding]; other site 1230587013564 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1230587013565 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1230587013566 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1230587013567 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1230587013568 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1230587013569 active site 1230587013570 SAM binding site [chemical binding]; other site 1230587013571 homodimer interface [polypeptide binding]; other site 1230587013572 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1230587013573 ligand binding site [chemical binding]; other site 1230587013574 active site 1230587013575 UGI interface [polypeptide binding]; other site 1230587013576 catalytic site [active] 1230587013577 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1230587013578 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587013579 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1230587013580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587013581 dimer interface [polypeptide binding]; other site 1230587013582 conserved gate region; other site 1230587013583 putative PBP binding loops; other site 1230587013584 ABC-ATPase subunit interface; other site 1230587013585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587013586 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1230587013587 Walker A/P-loop; other site 1230587013588 ATP binding site [chemical binding]; other site 1230587013589 Q-loop/lid; other site 1230587013590 ABC transporter signature motif; other site 1230587013591 Walker B; other site 1230587013592 D-loop; other site 1230587013593 H-loop/switch region; other site 1230587013594 TOBE domain; Region: TOBE; pfam03459 1230587013595 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1230587013596 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587013597 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587013598 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1230587013599 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1230587013600 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 1230587013601 tetramer interface [polypeptide binding]; other site 1230587013602 TPP-binding site [chemical binding]; other site 1230587013603 heterodimer interface [polypeptide binding]; other site 1230587013604 phosphorylation loop region [posttranslational modification] 1230587013605 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1230587013606 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 1230587013607 alpha subunit interface [polypeptide binding]; other site 1230587013608 TPP binding site [chemical binding]; other site 1230587013609 heterodimer interface [polypeptide binding]; other site 1230587013610 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587013611 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1230587013612 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 1230587013613 E3 interaction surface; other site 1230587013614 lipoyl attachment site [posttranslational modification]; other site 1230587013615 e3 binding domain; Region: E3_binding; pfam02817 1230587013616 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1230587013617 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1230587013618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1230587013619 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587013620 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1230587013621 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1230587013622 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1230587013623 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1230587013624 putative active site [active] 1230587013625 putative substrate binding site [chemical binding]; other site 1230587013626 putative cosubstrate binding site; other site 1230587013627 catalytic site [active] 1230587013628 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1230587013629 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 1230587013630 C-terminal domain interface [polypeptide binding]; other site 1230587013631 GSH binding site (G-site) [chemical binding]; other site 1230587013632 putative dimer interface [polypeptide binding]; other site 1230587013633 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1230587013634 dimer interface [polypeptide binding]; other site 1230587013635 N-terminal domain interface [polypeptide binding]; other site 1230587013636 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1230587013637 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 1230587013638 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1230587013639 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1230587013640 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1230587013641 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1230587013642 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587013643 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 1230587013644 putative DNA binding site [nucleotide binding]; other site 1230587013645 putative Zn2+ binding site [ion binding]; other site 1230587013646 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587013647 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1230587013648 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1230587013649 dimer interface [polypeptide binding]; other site 1230587013650 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1230587013651 active site 1230587013652 Fe binding site [ion binding]; other site 1230587013653 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587013654 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 1230587013655 DNA binding residues [nucleotide binding] 1230587013656 dimerization interface [polypeptide binding]; other site 1230587013657 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1230587013658 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587013659 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1230587013660 Walker A/P-loop; other site 1230587013661 ATP binding site [chemical binding]; other site 1230587013662 Q-loop/lid; other site 1230587013663 ABC transporter signature motif; other site 1230587013664 Walker B; other site 1230587013665 D-loop; other site 1230587013666 H-loop/switch region; other site 1230587013667 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1230587013668 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587013669 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587013670 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 1230587013671 TPR motif; other site 1230587013672 binding surface 1230587013673 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 1230587013674 binding surface 1230587013675 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1230587013676 TPR motif; other site 1230587013677 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1230587013678 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1230587013679 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587013680 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587013681 metal binding site [ion binding]; metal-binding site 1230587013682 active site 1230587013683 I-site; other site 1230587013684 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 1230587013685 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1230587013686 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587013687 DNA-binding site [nucleotide binding]; DNA binding site 1230587013688 UTRA domain; Region: UTRA; pfam07702 1230587013689 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1230587013690 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 1230587013691 putative active site [active] 1230587013692 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1230587013693 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587013694 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 1230587013695 substrate binding site [chemical binding]; other site 1230587013696 ATP binding site [chemical binding]; other site 1230587013697 Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]; Region: COG5573 1230587013698 putative active site [active] 1230587013699 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1230587013700 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587013701 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587013702 Walker A/P-loop; other site 1230587013703 ATP binding site [chemical binding]; other site 1230587013704 Q-loop/lid; other site 1230587013705 ABC transporter signature motif; other site 1230587013706 Walker B; other site 1230587013707 D-loop; other site 1230587013708 H-loop/switch region; other site 1230587013709 EamA-like transporter family; Region: EamA; pfam00892 1230587013710 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587013711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587013712 dimer interface [polypeptide binding]; other site 1230587013713 conserved gate region; other site 1230587013714 putative PBP binding loops; other site 1230587013715 ABC-ATPase subunit interface; other site 1230587013716 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587013717 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587013718 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587013719 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 1230587013720 substrate binding pocket [chemical binding]; other site 1230587013721 membrane-bound complex binding site; other site 1230587013722 hinge residues; other site 1230587013723 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587013724 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 1230587013725 AP (apurinic/apyrimidinic) site pocket; other site 1230587013726 DNA interaction; other site 1230587013727 Metal-binding active site; metal-binding site 1230587013728 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1230587013729 Glycerophosphodiester phosphodiesterase domain of putative Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_pAtGDE_like; cd08565 1230587013730 active site 1230587013731 catalytic site [active] 1230587013732 metal binding site [ion binding]; metal-binding site 1230587013733 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587013734 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587013735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587013736 dimer interface [polypeptide binding]; other site 1230587013737 conserved gate region; other site 1230587013738 putative PBP binding loops; other site 1230587013739 ABC-ATPase subunit interface; other site 1230587013740 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587013741 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587013742 dimer interface [polypeptide binding]; other site 1230587013743 conserved gate region; other site 1230587013744 putative PBP binding loops; other site 1230587013745 ABC-ATPase subunit interface; other site 1230587013746 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1230587013747 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587013748 Walker A/P-loop; other site 1230587013749 ATP binding site [chemical binding]; other site 1230587013750 Q-loop/lid; other site 1230587013751 ABC transporter signature motif; other site 1230587013752 Walker B; other site 1230587013753 D-loop; other site 1230587013754 H-loop/switch region; other site 1230587013755 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1230587013756 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1230587013757 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587013758 Walker A/P-loop; other site 1230587013759 ATP binding site [chemical binding]; other site 1230587013760 Q-loop/lid; other site 1230587013761 ABC transporter signature motif; other site 1230587013762 Walker B; other site 1230587013763 D-loop; other site 1230587013764 H-loop/switch region; other site 1230587013765 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1230587013766 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587013767 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_10; cd08515 1230587013768 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587013769 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 1230587013770 DNA binding residues [nucleotide binding] 1230587013771 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587013772 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587013773 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587013774 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1230587013775 dimerization interface [polypeptide binding]; other site 1230587013776 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1230587013777 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 1230587013778 putative ligand binding site [chemical binding]; other site 1230587013779 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587013780 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1230587013781 Walker A/P-loop; other site 1230587013782 ATP binding site [chemical binding]; other site 1230587013783 Q-loop/lid; other site 1230587013784 ABC transporter signature motif; other site 1230587013785 Walker B; other site 1230587013786 D-loop; other site 1230587013787 H-loop/switch region; other site 1230587013788 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1230587013789 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1230587013790 Walker A/P-loop; other site 1230587013791 ATP binding site [chemical binding]; other site 1230587013792 Q-loop/lid; other site 1230587013793 ABC transporter signature motif; other site 1230587013794 Walker B; other site 1230587013795 D-loop; other site 1230587013796 H-loop/switch region; other site 1230587013797 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587013798 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 1230587013799 TM-ABC transporter signature motif; other site 1230587013800 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1230587013801 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 1230587013802 TM-ABC transporter signature motif; other site 1230587013803 choline dehydrogenase; Validated; Region: PRK02106 1230587013804 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1230587013805 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587013806 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587013807 MULE transposase domain; Region: MULE; pfam10551 1230587013808 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1230587013809 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1230587013810 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 1230587013811 substrate binding pocket [chemical binding]; other site 1230587013812 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 1230587013813 B12 binding site [chemical binding]; other site 1230587013814 cobalt ligand [ion binding]; other site 1230587013815 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1230587013816 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 1230587013817 dimerization interface [polypeptide binding]; other site 1230587013818 putative active cleft [active] 1230587013819 hypothetical protein; Provisional; Region: PRK02487 1230587013820 fructokinase; Reviewed; Region: PRK09557 1230587013821 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1230587013822 nucleotide binding site [chemical binding]; other site 1230587013823 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587013824 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1230587013825 Predicted periplasmic protein [General function prediction only]; Region: COG3895 1230587013826 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1230587013827 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1230587013828 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1230587013829 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1230587013830 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1230587013831 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1230587013832 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 1230587013833 substrate-cofactor binding pocket; other site 1230587013834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587013835 catalytic residue [active] 1230587013836 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1230587013837 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1230587013838 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587013839 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587013840 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587013841 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1230587013842 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587013843 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1230587013844 Transposase domain (DUF772); Region: DUF772; pfam05598 1230587013845 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1230587013846 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587013847 cyclase homology domain; Region: CHD; cd07302 1230587013848 nucleotidyl binding site; other site 1230587013849 metal binding site [ion binding]; metal-binding site 1230587013850 dimer interface [polypeptide binding]; other site 1230587013851 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587013852 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1230587013853 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 1230587013854 TPR motif; other site 1230587013855 binding surface 1230587013856 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587013857 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1230587013858 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1230587013859 Surface antigen; Region: Bac_surface_Ag; pfam01103 1230587013860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1230587013861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1230587013862 Family of unknown function (DUF490); Region: DUF490; pfam04357 1230587013863 Family of unknown function (DUF490); Region: DUF490; pfam04357 1230587013864 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1230587013865 Phosphotransferase enzyme family; Region: APH; pfam01636 1230587013866 active site 1230587013867 ATP binding site [chemical binding]; other site 1230587013868 antibiotic binding site [chemical binding]; other site 1230587013869 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 1230587013870 putative dimer interface [polypeptide binding]; other site 1230587013871 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587013872 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587013873 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1230587013874 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587013875 Arginase family; Region: Arginase; cd09989 1230587013876 active site 1230587013877 Mn binding site [ion binding]; other site 1230587013878 oligomer interface [polypeptide binding]; other site 1230587013879 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1230587013880 putative CheA interaction surface; other site 1230587013881 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 1230587013882 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1230587013883 putative active site [active] 1230587013884 heme pocket [chemical binding]; other site 1230587013885 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 1230587013886 putative active site [active] 1230587013887 heme pocket [chemical binding]; other site 1230587013888 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1230587013889 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1230587013890 dimer interface [polypeptide binding]; other site 1230587013891 putative CheW interface [polypeptide binding]; other site 1230587013892 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1230587013893 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1230587013894 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1230587013895 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 1230587013896 catalytic loop [active] 1230587013897 iron binding site [ion binding]; other site 1230587013898 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1230587013899 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1230587013900 [4Fe-4S] binding site [ion binding]; other site 1230587013901 molybdopterin cofactor binding site; other site 1230587013902 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1230587013903 molybdopterin cofactor binding site; other site 1230587013904 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 1230587013905 putative dimer interface [polypeptide binding]; other site 1230587013906 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1230587013907 SLBB domain; Region: SLBB; pfam10531 1230587013908 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1230587013909 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1230587013910 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 1230587013911 putative dimer interface [polypeptide binding]; other site 1230587013912 [2Fe-2S] cluster binding site [ion binding]; other site 1230587013913 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587013914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587013915 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 1230587013916 dimerization interface [polypeptide binding]; other site 1230587013917 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1230587013918 classical (c) SDRs; Region: SDR_c; cd05233 1230587013919 NAD(P) binding site [chemical binding]; other site 1230587013920 active site 1230587013921 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1230587013922 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1230587013923 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1230587013924 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1230587013925 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587013926 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1230587013927 Walker A/P-loop; other site 1230587013928 ATP binding site [chemical binding]; other site 1230587013929 Q-loop/lid; other site 1230587013930 ABC transporter signature motif; other site 1230587013931 Walker B; other site 1230587013932 D-loop; other site 1230587013933 H-loop/switch region; other site 1230587013934 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587013935 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1230587013936 Walker A/P-loop; other site 1230587013937 ATP binding site [chemical binding]; other site 1230587013938 Q-loop/lid; other site 1230587013939 ABC transporter signature motif; other site 1230587013940 Walker B; other site 1230587013941 D-loop; other site 1230587013942 H-loop/switch region; other site 1230587013943 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587013944 dimer interface [polypeptide binding]; other site 1230587013945 conserved gate region; other site 1230587013946 putative PBP binding loops; other site 1230587013947 ABC-ATPase subunit interface; other site 1230587013948 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587013949 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587013950 dimer interface [polypeptide binding]; other site 1230587013951 conserved gate region; other site 1230587013952 putative PBP binding loops; other site 1230587013953 ABC-ATPase subunit interface; other site 1230587013954 Predicted small integral membrane protein [Function unknown]; Region: COG5477 1230587013955 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587013956 xanthine permease; Region: pbuX; TIGR03173 1230587013957 xanthine permease; Region: pbuX; TIGR03173 1230587013958 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1230587013959 EamA-like transporter family; Region: EamA; pfam00892 1230587013960 EamA-like transporter family; Region: EamA; pfam00892 1230587013961 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1230587013962 metal binding site 2 [ion binding]; metal-binding site 1230587013963 putative DNA binding helix; other site 1230587013964 metal binding site 1 [ion binding]; metal-binding site 1230587013965 dimer interface [polypeptide binding]; other site 1230587013966 structural Zn2+ binding site [ion binding]; other site 1230587013967 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1230587013968 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1230587013969 metal binding site [ion binding]; metal-binding site 1230587013970 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 1230587013971 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1230587013972 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1230587013973 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 1230587013974 ABC-ATPase subunit interface; other site 1230587013975 dimer interface [polypeptide binding]; other site 1230587013976 putative PBP binding regions; other site 1230587013977 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1230587013978 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 1230587013979 ABC-ATPase subunit interface; other site 1230587013980 dimer interface [polypeptide binding]; other site 1230587013981 putative PBP binding regions; other site 1230587013982 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587013983 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1230587013984 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587013985 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1230587013986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587013987 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1230587013988 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1230587013989 gamma subunit interface [polypeptide binding]; other site 1230587013990 epsilon subunit interface [polypeptide binding]; other site 1230587013991 LBP interface [polypeptide binding]; other site 1230587013992 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1230587013993 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1230587013994 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 1230587013995 alpha subunit interaction interface [polypeptide binding]; other site 1230587013996 Walker A motif; other site 1230587013997 ATP binding site [chemical binding]; other site 1230587013998 Walker B motif; other site 1230587013999 inhibitor binding site; inhibition site 1230587014000 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1230587014001 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1230587014002 core domain interface [polypeptide binding]; other site 1230587014003 delta subunit interface [polypeptide binding]; other site 1230587014004 epsilon subunit interface [polypeptide binding]; other site 1230587014005 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1230587014006 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1230587014007 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 1230587014008 beta subunit interaction interface [polypeptide binding]; other site 1230587014009 Walker A motif; other site 1230587014010 ATP binding site [chemical binding]; other site 1230587014011 Walker B motif; other site 1230587014012 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1230587014013 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1230587014014 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1230587014015 primosome assembly protein PriA; Validated; Region: PRK05580 1230587014016 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 1230587014017 ATP binding site [chemical binding]; other site 1230587014018 putative Mg++ binding site [ion binding]; other site 1230587014019 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1230587014020 nucleotide binding region [chemical binding]; other site 1230587014021 ATP-binding site [chemical binding]; other site 1230587014022 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1230587014023 active site 1230587014024 intersubunit interactions; other site 1230587014025 catalytic residue [active] 1230587014026 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587014027 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1230587014028 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1230587014029 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1230587014030 Predicted ATPase [General function prediction only]; Region: COG4637 1230587014031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587014032 Walker A/P-loop; other site 1230587014033 ATP binding site [chemical binding]; other site 1230587014034 Putative hemolysin [General function prediction only]; Region: COG3176 1230587014035 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1230587014036 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1230587014037 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 1230587014038 active site 1230587014039 DNA binding site [nucleotide binding] 1230587014040 Int/Topo IB signature motif; other site 1230587014041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 1230587014042 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1230587014043 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587014044 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587014045 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1230587014046 short chain dehydrogenase; Provisional; Region: PRK06123 1230587014047 classical (c) SDRs; Region: SDR_c; cd05233 1230587014048 NAD(P) binding site [chemical binding]; other site 1230587014049 active site 1230587014050 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587014051 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1230587014052 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 1230587014053 E3 interaction surface; other site 1230587014054 lipoyl attachment site [posttranslational modification]; other site 1230587014055 e3 binding domain; Region: E3_binding; pfam02817 1230587014056 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1230587014057 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1230587014058 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 1230587014059 TPP-binding site [chemical binding]; other site 1230587014060 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1230587014061 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1230587014062 CoA binding domain; Region: CoA_binding; smart00881 1230587014063 CoA-ligase; Region: Ligase_CoA; pfam00549 1230587014064 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1230587014065 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1230587014066 CoA-ligase; Region: Ligase_CoA; pfam00549 1230587014067 malate dehydrogenase; Reviewed; Region: PRK06223 1230587014068 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1230587014069 NAD(P) binding site [chemical binding]; other site 1230587014070 dimer interface [polypeptide binding]; other site 1230587014071 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1230587014072 substrate binding site [chemical binding]; other site 1230587014073 Predicted ATPase [General function prediction only]; Region: COG1485 1230587014074 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1230587014075 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 1230587014076 non-specific DNA binding site [nucleotide binding]; other site 1230587014077 salt bridge; other site 1230587014078 sequence-specific DNA binding site [nucleotide binding]; other site 1230587014079 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 1230587014080 Protease inhibitor Inh; Region: Inh; pfam02974 1230587014081 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587014082 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587014083 Walker A/P-loop; other site 1230587014084 ATP binding site [chemical binding]; other site 1230587014085 Q-loop/lid; other site 1230587014086 ABC transporter signature motif; other site 1230587014087 Walker B; other site 1230587014088 D-loop; other site 1230587014089 H-loop/switch region; other site 1230587014090 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587014091 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587014092 dimer interface [polypeptide binding]; other site 1230587014093 conserved gate region; other site 1230587014094 putative PBP binding loops; other site 1230587014095 ABC-ATPase subunit interface; other site 1230587014096 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587014097 dimer interface [polypeptide binding]; other site 1230587014098 conserved gate region; other site 1230587014099 putative PBP binding loops; other site 1230587014100 ABC-ATPase subunit interface; other site 1230587014101 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587014102 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587014103 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1230587014104 putative Zn2+ binding site [ion binding]; other site 1230587014105 putative DNA binding site [nucleotide binding]; other site 1230587014106 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1230587014107 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1230587014108 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587014109 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587014110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3828 1230587014111 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1230587014112 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1230587014113 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1230587014114 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1230587014115 L-aspartate oxidase; Provisional; Region: PRK06175 1230587014116 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1230587014117 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 1230587014118 putative SdhC subunit interface [polypeptide binding]; other site 1230587014119 putative proximal heme binding site [chemical binding]; other site 1230587014120 putative Iron-sulfur protein interface [polypeptide binding]; other site 1230587014121 putative proximal quinone binding site; other site 1230587014122 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 1230587014123 Iron-sulfur protein interface; other site 1230587014124 proximal quinone binding site [chemical binding]; other site 1230587014125 SdhD (CybS) interface [polypeptide binding]; other site 1230587014126 proximal heme binding site [chemical binding]; other site 1230587014127 Predicted methyltransferase [General function prediction only]; Region: COG3897 1230587014128 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 1230587014129 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1230587014130 YciI-like protein; Reviewed; Region: PRK12865 1230587014131 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1230587014132 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1230587014133 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1230587014134 UGMP family protein; Validated; Region: PRK09604 1230587014135 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1230587014136 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1230587014137 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1230587014138 domain interfaces; other site 1230587014139 active site 1230587014140 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1230587014141 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 1230587014142 active site 1230587014143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 1230587014144 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 1230587014145 HemY protein N-terminus; Region: HemY_N; pfam07219 1230587014146 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1230587014147 putative metal binding site [ion binding]; other site 1230587014148 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1230587014149 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1230587014150 catalytic triad [active] 1230587014151 H+ Antiporter protein; Region: 2A0121; TIGR00900 1230587014152 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 1230587014153 putative substrate translocation pore; other site 1230587014154 YGGT family; Region: YGGT; pfam02325 1230587014155 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 1230587014156 dimer interface [polypeptide binding]; other site 1230587014157 substrate binding site [chemical binding]; other site 1230587014158 metal binding sites [ion binding]; metal-binding site 1230587014159 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1230587014160 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587014161 Coenzyme A binding pocket [chemical binding]; other site 1230587014162 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1230587014163 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1230587014164 G1 box; other site 1230587014165 putative GEF interaction site [polypeptide binding]; other site 1230587014166 GTP/Mg2+ binding site [chemical binding]; other site 1230587014167 Switch I region; other site 1230587014168 G2 box; other site 1230587014169 G3 box; other site 1230587014170 Switch II region; other site 1230587014171 G4 box; other site 1230587014172 G5 box; other site 1230587014173 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 1230587014174 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 1230587014175 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 1230587014176 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1230587014177 putative active site [active] 1230587014178 putative metal binding site [ion binding]; other site 1230587014179 KTSC domain; Region: KTSC; pfam13619 1230587014180 amidase; Provisional; Region: PRK07056 1230587014181 amidase; Validated; Region: PRK05962 1230587014182 Predicted nuclease (RNAse H fold) [General function prediction only]; Region: COG4328 1230587014183 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1230587014184 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1230587014185 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1230587014186 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1230587014187 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1230587014188 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1230587014189 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1230587014190 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1230587014191 GTP1/OBG; Region: GTP1_OBG; pfam01018 1230587014192 Obg GTPase; Region: Obg; cd01898 1230587014193 G1 box; other site 1230587014194 GTP/Mg2+ binding site [chemical binding]; other site 1230587014195 Switch I region; other site 1230587014196 G2 box; other site 1230587014197 G3 box; other site 1230587014198 Switch II region; other site 1230587014199 G4 box; other site 1230587014200 G5 box; other site 1230587014201 gamma-glutamyl kinase; Provisional; Region: PRK05429 1230587014202 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 1230587014203 nucleotide binding site [chemical binding]; other site 1230587014204 homotetrameric interface [polypeptide binding]; other site 1230587014205 putative phosphate binding site [ion binding]; other site 1230587014206 putative allosteric binding site; other site 1230587014207 PUA domain; Region: PUA; pfam01472 1230587014208 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1230587014209 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1230587014210 putative catalytic cysteine [active] 1230587014211 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1230587014212 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1230587014213 active site 1230587014214 (T/H)XGH motif; other site 1230587014215 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1230587014216 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1230587014217 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1230587014218 Peptidase family M23; Region: Peptidase_M23; pfam01551 1230587014219 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1230587014220 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1230587014221 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 1230587014222 protein binding site [polypeptide binding]; other site 1230587014223 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1230587014224 Catalytic dyad [active] 1230587014225 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1230587014226 NodB motif; other site 1230587014227 putative active site [active] 1230587014228 putative catalytic site [active] 1230587014229 Zn binding site [ion binding]; other site 1230587014230 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 1230587014231 putative active site [active] 1230587014232 Ap4A binding site [chemical binding]; other site 1230587014233 nudix motif; other site 1230587014234 putative metal binding site [ion binding]; other site 1230587014235 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1230587014236 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1230587014237 heme binding site [chemical binding]; other site 1230587014238 ferroxidase pore; other site 1230587014239 ferroxidase diiron center [ion binding]; other site 1230587014240 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1230587014241 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 1230587014242 generic binding surface II; other site 1230587014243 generic binding surface I; other site 1230587014244 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1230587014245 putative active site [active] 1230587014246 putative PHP Thumb interface [polypeptide binding]; other site 1230587014247 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1230587014248 DNA Polymerase Y-family; Region: PolY_like; cd03468 1230587014249 active site 1230587014250 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1230587014251 DNA binding site [nucleotide binding] 1230587014252 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1230587014253 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1230587014254 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 1230587014255 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1230587014256 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1230587014257 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 1230587014258 substrate binding site [chemical binding]; other site 1230587014259 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_6; cd06154 1230587014260 homotrimer interaction site [polypeptide binding]; other site 1230587014261 putative active site [active] 1230587014262 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 1230587014263 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1230587014264 proposed active site lysine [active] 1230587014265 conserved cys residue [active] 1230587014266 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1230587014267 active site 1230587014268 catalytic residues [active] 1230587014269 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1230587014270 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 1230587014271 P-loop, Walker A motif; other site 1230587014272 Base recognition motif; other site 1230587014273 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1230587014274 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 1230587014275 putative deacylase active site [active] 1230587014276 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1230587014277 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 1230587014278 catalytic residues [active] 1230587014279 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1230587014280 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1230587014281 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 1230587014282 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1230587014283 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1230587014284 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 1230587014285 active site 1230587014286 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 1230587014287 catalytic triad [active] 1230587014288 dimer interface [polypeptide binding]; other site 1230587014289 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1230587014290 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1230587014291 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1230587014292 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1230587014293 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1230587014294 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1230587014295 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1230587014296 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1230587014297 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1230587014298 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587014299 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587014300 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587014301 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587014302 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587014303 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1230587014304 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587014305 ligand binding site [chemical binding]; other site 1230587014306 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587014307 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 1230587014308 TM-ABC transporter signature motif; other site 1230587014309 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587014310 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587014311 Walker A/P-loop; other site 1230587014312 ATP binding site [chemical binding]; other site 1230587014313 Q-loop/lid; other site 1230587014314 ABC transporter signature motif; other site 1230587014315 Walker B; other site 1230587014316 D-loop; other site 1230587014317 H-loop/switch region; other site 1230587014318 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1230587014319 MarR family; Region: MarR_2; pfam12802 1230587014320 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1230587014321 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1230587014322 nucleotide binding site [chemical binding]; other site 1230587014323 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1230587014324 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1230587014325 nucleotide binding site [chemical binding]; other site 1230587014326 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 1230587014327 putative catalytic site [active] 1230587014328 putative phosphate binding site [ion binding]; other site 1230587014329 active site 1230587014330 metal binding site A [ion binding]; metal-binding site 1230587014331 DNA binding site [nucleotide binding] 1230587014332 putative AP binding site [nucleotide binding]; other site 1230587014333 putative metal binding site B [ion binding]; other site 1230587014334 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1230587014335 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 1230587014336 ligand binding site [chemical binding]; other site 1230587014337 flexible hinge region; other site 1230587014338 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587014339 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 1230587014340 active site 1230587014341 phosphorylation site [posttranslational modification] 1230587014342 intermolecular recognition site; other site 1230587014343 dimerization interface [polypeptide binding]; other site 1230587014344 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 1230587014345 DNA binding site [nucleotide binding] 1230587014346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1230587014347 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 1230587014348 catalytic core [active] 1230587014349 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1230587014350 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1230587014351 substrate binding site [chemical binding]; other site 1230587014352 ligand binding site [chemical binding]; other site 1230587014353 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1230587014354 MarR family; Region: MarR_2; pfam12802 1230587014355 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 1230587014356 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587014357 putative substrate translocation pore; other site 1230587014358 argininosuccinate synthase; Provisional; Region: PRK13820 1230587014359 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 1230587014360 ANP binding site [chemical binding]; other site 1230587014361 Substrate Binding Site II [chemical binding]; other site 1230587014362 Substrate Binding Site I [chemical binding]; other site 1230587014363 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587014364 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1230587014365 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587014366 Walker A/P-loop; other site 1230587014367 ATP binding site [chemical binding]; other site 1230587014368 Q-loop/lid; other site 1230587014369 ABC transporter signature motif; other site 1230587014370 Walker B; other site 1230587014371 D-loop; other site 1230587014372 H-loop/switch region; other site 1230587014373 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587014374 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 1230587014375 TM-ABC transporter signature motif; other site 1230587014376 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 1230587014377 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587014378 zinc binding site [ion binding]; other site 1230587014379 putative ligand binding site [chemical binding]; other site 1230587014380 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1230587014381 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 1230587014382 FeS/SAM binding site; other site 1230587014383 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1230587014384 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1230587014385 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 1230587014386 aromatic arch; other site 1230587014387 DCoH dimer interaction site [polypeptide binding]; other site 1230587014388 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1230587014389 DCoH tetramer interaction site [polypeptide binding]; other site 1230587014390 substrate binding site [chemical binding]; other site 1230587014391 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1230587014392 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1230587014393 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1230587014394 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 1230587014395 active site 1230587014396 catalytic triad [active] 1230587014397 oxyanion hole [active] 1230587014398 switch loop; other site 1230587014399 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1230587014400 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1230587014401 Walker A/P-loop; other site 1230587014402 ATP binding site [chemical binding]; other site 1230587014403 Q-loop/lid; other site 1230587014404 ABC transporter signature motif; other site 1230587014405 Walker B; other site 1230587014406 D-loop; other site 1230587014407 H-loop/switch region; other site 1230587014408 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1230587014409 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1230587014410 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1230587014411 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1230587014412 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587014413 Coenzyme A binding pocket [chemical binding]; other site 1230587014414 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1230587014415 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1230587014416 oligomer interface [polypeptide binding]; other site 1230587014417 active site residues [active] 1230587014418 Uncharacterized conserved protein [Function unknown]; Region: COG3832 1230587014419 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 1230587014420 putative DNA binding site [nucleotide binding]; other site 1230587014421 putative Zn2+ binding site [ion binding]; other site 1230587014422 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 1230587014423 Uncharacterized secreted protein [Function unknown]; Region: COG5429 1230587014424 aconitate hydratase; Validated; Region: PRK09277 1230587014425 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1230587014426 substrate binding site [chemical binding]; other site 1230587014427 ligand binding site [chemical binding]; other site 1230587014428 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 1230587014429 substrate binding site [chemical binding]; other site 1230587014430 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1230587014431 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587014432 Walker A/P-loop; other site 1230587014433 ATP binding site [chemical binding]; other site 1230587014434 Q-loop/lid; other site 1230587014435 ABC transporter signature motif; other site 1230587014436 Walker B; other site 1230587014437 D-loop; other site 1230587014438 H-loop/switch region; other site 1230587014439 heme exporter protein CcmB; Region: ccmB; TIGR01190 1230587014440 heme exporter protein CcmC; Region: ccmC; TIGR01191 1230587014441 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1230587014442 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 1230587014443 catalytic residues [active] 1230587014444 central insert; other site 1230587014445 hypothetical protein; Provisional; Region: PRK00944 1230587014446 intracellular septation protein A; Reviewed; Region: PRK00259 1230587014447 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1230587014448 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1230587014449 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 1230587014450 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1230587014451 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1230587014452 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 1230587014453 FeS/SAM binding site; other site 1230587014454 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 1230587014455 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1230587014456 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1230587014457 signal recognition particle protein; Provisional; Region: PRK10867 1230587014458 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1230587014459 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 1230587014460 P loop; other site 1230587014461 GTP binding site [chemical binding]; other site 1230587014462 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1230587014463 chorismate mutase; Provisional; Region: PRK09239 1230587014464 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 1230587014465 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1230587014466 RimM N-terminal domain; Region: RimM; pfam01782 1230587014467 PRC-barrel domain; Region: PRC; pfam05239 1230587014468 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1230587014469 hypothetical protein; Provisional; Region: PRK10621 1230587014470 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1230587014471 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1230587014472 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587014473 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 1230587014474 substrate binding pocket [chemical binding]; other site 1230587014475 membrane-bound complex binding site; other site 1230587014476 hinge residues; other site 1230587014477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587014478 dimer interface [polypeptide binding]; other site 1230587014479 conserved gate region; other site 1230587014480 putative PBP binding loops; other site 1230587014481 ABC-ATPase subunit interface; other site 1230587014482 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1230587014483 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587014484 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1230587014485 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1230587014486 Thiamine pyrophosphokinase; Region: TPK; cd07995 1230587014487 active site 1230587014488 dimerization interface [polypeptide binding]; other site 1230587014489 thiamine binding site [chemical binding]; other site 1230587014490 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1230587014491 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1230587014492 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1230587014493 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587014494 ABC-ATPase subunit interface; other site 1230587014495 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587014496 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 1230587014497 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587014498 Walker A/P-loop; other site 1230587014499 ATP binding site [chemical binding]; other site 1230587014500 Q-loop/lid; other site 1230587014501 ABC transporter signature motif; other site 1230587014502 Walker B; other site 1230587014503 D-loop; other site 1230587014504 H-loop/switch region; other site 1230587014505 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1230587014506 Peptidase family M48; Region: Peptidase_M48; pfam01435 1230587014507 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1230587014508 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 1230587014509 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587014510 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 1230587014511 DNA binding residues [nucleotide binding] 1230587014512 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1230587014513 Ferredoxin [Energy production and conversion]; Region: COG1146 1230587014514 4Fe-4S binding domain; Region: Fer4; pfam00037 1230587014515 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1230587014516 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 1230587014517 RNA binding surface [nucleotide binding]; other site 1230587014518 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 1230587014519 ATP binding site [chemical binding]; other site 1230587014520 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1230587014521 putative Mg++ binding site [ion binding]; other site 1230587014522 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 1230587014523 nucleotide binding region [chemical binding]; other site 1230587014524 ATP-binding site [chemical binding]; other site 1230587014525 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1230587014526 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1230587014527 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1230587014528 NAD(P) binding site [chemical binding]; other site 1230587014529 homotetramer interface [polypeptide binding]; other site 1230587014530 homodimer interface [polypeptide binding]; other site 1230587014531 active site 1230587014532 putative acyltransferase; Provisional; Region: PRK05790 1230587014533 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 1230587014534 dimer interface [polypeptide binding]; other site 1230587014535 active site 1230587014536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 1230587014537 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1230587014538 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1230587014539 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1230587014540 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1230587014541 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587014542 putative C-terminal domain interface [polypeptide binding]; other site 1230587014543 putative GSH binding site (G-site) [chemical binding]; other site 1230587014544 putative dimer interface [polypeptide binding]; other site 1230587014545 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1230587014546 putative dimer interface [polypeptide binding]; other site 1230587014547 putative N-terminal domain interface [polypeptide binding]; other site 1230587014548 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587014549 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1230587014550 Transglycosylase; Region: Transgly; cl17702 1230587014551 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1230587014552 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1230587014553 substrate binding pocket [chemical binding]; other site 1230587014554 chain length determination region; other site 1230587014555 substrate-Mg2+ binding site; other site 1230587014556 catalytic residues [active] 1230587014557 aspartate-rich region 1; other site 1230587014558 active site lid residues [active] 1230587014559 aspartate-rich region 2; other site 1230587014560 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1230587014561 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 1230587014562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587014563 homodimer interface [polypeptide binding]; other site 1230587014564 catalytic residue [active] 1230587014565 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587014566 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1230587014567 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1230587014568 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1230587014569 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 1230587014570 putative substrate translocation pore; other site 1230587014571 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1230587014572 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1230587014573 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1230587014574 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587014575 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 1230587014576 substrate binding pocket [chemical binding]; other site 1230587014577 membrane-bound complex binding site; other site 1230587014578 hinge residues; other site 1230587014579 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587014580 dimer interface [polypeptide binding]; other site 1230587014581 conserved gate region; other site 1230587014582 putative PBP binding loops; other site 1230587014583 ABC-ATPase subunit interface; other site 1230587014584 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587014585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587014586 Walker A/P-loop; other site 1230587014587 ATP binding site [chemical binding]; other site 1230587014588 Q-loop/lid; other site 1230587014589 ABC transporter signature motif; other site 1230587014590 Walker B; other site 1230587014591 D-loop; other site 1230587014592 H-loop/switch region; other site 1230587014593 pyruvate carboxylase; Reviewed; Region: PRK12999 1230587014594 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1230587014595 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1230587014596 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1230587014597 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1230587014598 active site 1230587014599 catalytic residues [active] 1230587014600 metal binding site [ion binding]; metal-binding site 1230587014601 homodimer binding site [polypeptide binding]; other site 1230587014602 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 1230587014603 carboxyltransferase (CT) interaction site; other site 1230587014604 biotinylation site [posttranslational modification]; other site 1230587014605 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1230587014606 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1230587014607 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 1230587014608 DNA binding residues [nucleotide binding] 1230587014609 dimerization interface [polypeptide binding]; other site 1230587014610 glucan exporter ATP-binding protein; Region: chvA; TIGR01192 1230587014611 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587014612 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1230587014613 Walker A/P-loop; other site 1230587014614 ATP binding site [chemical binding]; other site 1230587014615 Q-loop/lid; other site 1230587014616 ABC transporter signature motif; other site 1230587014617 Walker B; other site 1230587014618 D-loop; other site 1230587014619 H-loop/switch region; other site 1230587014620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4645 1230587014621 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1230587014622 Putative glucoamylase; Region: Glycoamylase; pfam10091 1230587014623 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1230587014624 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1230587014625 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1230587014626 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587014627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587014628 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 1230587014629 dimerization interface [polypeptide binding]; other site 1230587014630 substrate binding pocket [chemical binding]; other site 1230587014631 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1230587014632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1230587014633 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1230587014634 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587014635 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1230587014636 aldehyde dehydrogenase family 7 member; Region: PLN02315 1230587014637 tetrameric interface [polypeptide binding]; other site 1230587014638 NAD binding site [chemical binding]; other site 1230587014639 catalytic residues [active] 1230587014640 aspartate aminotransferase; Provisional; Region: PRK05764 1230587014641 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 1230587014642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587014643 homodimer interface [polypeptide binding]; other site 1230587014644 catalytic residue [active] 1230587014645 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1230587014646 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 1230587014647 non-specific DNA binding site [nucleotide binding]; other site 1230587014648 salt bridge; other site 1230587014649 sequence-specific DNA binding site [nucleotide binding]; other site 1230587014650 Cupin domain; Region: Cupin_2; pfam07883 1230587014651 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1230587014652 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 1230587014653 inhibitor-cofactor binding pocket; inhibition site 1230587014654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587014655 catalytic residue [active] 1230587014656 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1230587014657 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1230587014658 MOFRL family; Region: MOFRL; pfam05161 1230587014659 choline dehydrogenase; Validated; Region: PRK02106 1230587014660 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587014661 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1230587014662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587014663 NAD(P) binding site [chemical binding]; other site 1230587014664 active site 1230587014665 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1230587014666 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587014667 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587014668 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587014669 Walker A/P-loop; other site 1230587014670 ATP binding site [chemical binding]; other site 1230587014671 Q-loop/lid; other site 1230587014672 ABC transporter signature motif; other site 1230587014673 Walker B; other site 1230587014674 D-loop; other site 1230587014675 H-loop/switch region; other site 1230587014676 TOBE domain; Region: TOBE; cl01440 1230587014677 TOBE domain; Region: TOBE_2; pfam08402 1230587014678 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587014679 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587014680 dimer interface [polypeptide binding]; other site 1230587014681 conserved gate region; other site 1230587014682 putative PBP binding loops; other site 1230587014683 ABC-ATPase subunit interface; other site 1230587014684 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587014685 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587014686 dimer interface [polypeptide binding]; other site 1230587014687 conserved gate region; other site 1230587014688 putative PBP binding loops; other site 1230587014689 ABC-ATPase subunit interface; other site 1230587014690 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587014691 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587014692 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587014693 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1230587014694 NAD(P) binding site [chemical binding]; other site 1230587014695 catalytic residues [active] 1230587014696 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1230587014697 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 1230587014698 substrate binding site [chemical binding]; other site 1230587014699 oxyanion hole (OAH) forming residues; other site 1230587014700 trimer interface [polypeptide binding]; other site 1230587014701 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1230587014702 Coenzyme A transferase; Region: CoA_trans; smart00882 1230587014703 Coenzyme A transferase; Region: CoA_trans; cl17247 1230587014704 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587014705 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587014706 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587014707 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587014708 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587014709 DNA binding site [nucleotide binding] 1230587014710 domain linker motif; other site 1230587014711 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 1230587014712 putative dimerization interface [polypeptide binding]; other site 1230587014713 putative ligand binding site [chemical binding]; other site 1230587014714 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1230587014715 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1230587014716 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1230587014717 active site 1230587014718 Zn binding site [ion binding]; other site 1230587014719 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587014720 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1230587014721 tartrate dehydrogenase; Region: TTC; TIGR02089 1230587014722 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 1230587014723 active site 1230587014724 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 1230587014725 putative substrate translocation pore; other site 1230587014726 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1230587014727 oligomeric interface; other site 1230587014728 putative active site [active] 1230587014729 homodimer interface [polypeptide binding]; other site 1230587014730 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1230587014731 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1230587014732 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1230587014733 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1230587014734 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 1230587014735 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1230587014736 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1230587014737 active site clefts [active] 1230587014738 zinc binding site [ion binding]; other site 1230587014739 dimer interface [polypeptide binding]; other site 1230587014740 pyridoxamine kinase; Validated; Region: PRK05756 1230587014741 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 1230587014742 pyridoxal binding site [chemical binding]; other site 1230587014743 dimer interface [polypeptide binding]; other site 1230587014744 ATP binding site [chemical binding]; other site 1230587014745 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1230587014746 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1230587014747 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1230587014748 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 1230587014749 purine monophosphate binding site [chemical binding]; other site 1230587014750 dimer interface [polypeptide binding]; other site 1230587014751 putative catalytic residues [active] 1230587014752 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1230587014753 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1230587014754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 1230587014755 NusB family; Region: NusB; pfam01029 1230587014756 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1230587014757 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 1230587014758 S-adenosylmethionine binding site [chemical binding]; other site 1230587014759 heat shock protein HtpX; Provisional; Region: PRK01345 1230587014760 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1230587014761 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1230587014762 acetyl-CoA synthetase; Provisional; Region: PRK00174 1230587014763 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1230587014764 active site 1230587014765 CoA binding site [chemical binding]; other site 1230587014766 acyl-activating enzyme (AAE) consensus motif; other site 1230587014767 AMP binding site [chemical binding]; other site 1230587014768 acetate binding site [chemical binding]; other site 1230587014769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1230587014770 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1230587014771 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1230587014772 acyl-activating enzyme (AAE) consensus motif; other site 1230587014773 putative AMP binding site [chemical binding]; other site 1230587014774 putative active site [active] 1230587014775 putative CoA binding site [chemical binding]; other site 1230587014776 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1230587014777 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587014778 catalytic residue [active] 1230587014779 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1230587014780 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1230587014781 HIGH motif; other site 1230587014782 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1230587014783 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1230587014784 active site 1230587014785 KMSKS motif; other site 1230587014786 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1230587014787 tRNA binding surface [nucleotide binding]; other site 1230587014788 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 1230587014789 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1230587014790 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1230587014791 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1230587014792 ParB-like nuclease domain; Region: ParBc; pfam02195 1230587014793 KorB domain; Region: KorB; pfam08535 1230587014794 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1230587014795 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 1230587014796 P-loop; other site 1230587014797 Magnesium ion binding site [ion binding]; other site 1230587014798 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 1230587014799 Magnesium ion binding site [ion binding]; other site 1230587014800 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1230587014801 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1230587014802 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1230587014803 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1230587014804 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1230587014805 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1230587014806 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1230587014807 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1230587014808 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1230587014809 G1 box; other site 1230587014810 GTP/Mg2+ binding site [chemical binding]; other site 1230587014811 Switch I region; other site 1230587014812 G2 box; other site 1230587014813 Switch II region; other site 1230587014814 G3 box; other site 1230587014815 G4 box; other site 1230587014816 G5 box; other site 1230587014817 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1230587014818 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1230587014819 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1230587014820 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 1230587014821 RNA binding site [nucleotide binding]; other site 1230587014822 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 1230587014823 multimer interface [polypeptide binding]; other site 1230587014824 Walker A motif; other site 1230587014825 ATP binding site [chemical binding]; other site 1230587014826 Walker B motif; other site 1230587014827 Predicted membrane protein [Function unknown]; Region: COG1981 1230587014828 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 1230587014829 substrate binding site [chemical binding]; other site 1230587014830 active site 1230587014831 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1230587014832 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 1230587014833 active site 1230587014834 dimer interface [polypeptide binding]; other site 1230587014835 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1230587014836 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1230587014837 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1230587014838 shikimate binding site; other site 1230587014839 NAD(P) binding site [chemical binding]; other site 1230587014840 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1230587014841 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 1230587014842 CoA-binding site [chemical binding]; other site 1230587014843 ATP-binding [chemical binding]; other site 1230587014844 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1230587014845 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 1230587014846 active site 1230587014847 catalytic site [active] 1230587014848 substrate binding site [chemical binding]; other site 1230587014849 Preprotein translocase subunit SecB [Intracellular trafficking and secretion]; Region: SecB; COG1952 1230587014850 SecA binding site; other site 1230587014851 Preprotein binding site; other site 1230587014852 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1230587014853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1230587014854 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1230587014855 MltA specific insert domain; Region: MltA; pfam03562 1230587014856 3D domain; Region: 3D; pfam06725 1230587014857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1230587014858 Smr domain; Region: Smr; pfam01713 1230587014859 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1230587014860 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 1230587014861 non-specific DNA binding site [nucleotide binding]; other site 1230587014862 salt bridge; other site 1230587014863 sequence-specific DNA binding site [nucleotide binding]; other site 1230587014864 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1230587014865 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 1230587014866 Mg2+ binding site [ion binding]; other site 1230587014867 G-X-G motif; other site 1230587014868 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 1230587014869 anchoring element; other site 1230587014870 dimer interface [polypeptide binding]; other site 1230587014871 ATP binding site [chemical binding]; other site 1230587014872 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 1230587014873 active site 1230587014874 putative metal-binding site [ion binding]; other site 1230587014875 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1230587014876 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 1230587014877 putative FMN binding site [chemical binding]; other site 1230587014878 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1230587014879 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1230587014880 tetramerization interface [polypeptide binding]; other site 1230587014881 NAD(P) binding site [chemical binding]; other site 1230587014882 catalytic residues [active] 1230587014883 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1230587014884 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1230587014885 DNA-binding site [nucleotide binding]; DNA binding site 1230587014886 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587014887 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1230587014888 DNA-binding site [nucleotide binding]; DNA binding site 1230587014889 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587014890 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1230587014891 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1230587014892 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1230587014893 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 1230587014894 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587014895 active site 1230587014896 catalytic tetrad [active] 1230587014897 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 1230587014898 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587014899 putative ligand binding site [chemical binding]; other site 1230587014900 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587014901 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587014902 Walker A/P-loop; other site 1230587014903 ATP binding site [chemical binding]; other site 1230587014904 Q-loop/lid; other site 1230587014905 ABC transporter signature motif; other site 1230587014906 Walker B; other site 1230587014907 D-loop; other site 1230587014908 H-loop/switch region; other site 1230587014909 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587014910 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587014911 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 1230587014912 TM-ABC transporter signature motif; other site 1230587014913 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587014914 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1230587014915 putative NAD(P) binding site [chemical binding]; other site 1230587014916 catalytic Zn binding site [ion binding]; other site 1230587014917 structural Zn binding site [ion binding]; other site 1230587014918 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1230587014919 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1230587014920 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 1230587014921 Protein of unknown function DUF45; Region: DUF45; pfam01863 1230587014922 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 1230587014923 active site 1230587014924 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1230587014925 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 1230587014926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587014927 catalytic residue [active] 1230587014928 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 1230587014929 substrate binding site [chemical binding]; other site 1230587014930 active site 1230587014931 catalytic residues [active] 1230587014932 heterodimer interface [polypeptide binding]; other site 1230587014933 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1230587014934 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1230587014935 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1230587014936 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1230587014937 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 1230587014938 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1230587014939 catalytic residues [active] 1230587014940 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1230587014941 Family description; Region: UvrD_C_2; pfam13538 1230587014942 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1230587014943 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 1230587014944 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1230587014945 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1230587014946 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 1230587014947 Substrate binding site; other site 1230587014948 metal-binding site 1230587014949 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1230587014950 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1230587014951 Phosphotransferase enzyme family; Region: APH; pfam01636 1230587014952 PAS fold; Region: PAS_7; pfam12860 1230587014953 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1230587014954 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 1230587014955 dimer interface [polypeptide binding]; other site 1230587014956 phosphorylation site [posttranslational modification] 1230587014957 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 1230587014958 ATP binding site [chemical binding]; other site 1230587014959 Mg2+ binding site [ion binding]; other site 1230587014960 G-X-G motif; other site 1230587014961 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1230587014962 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1230587014963 homotetramer interface [polypeptide binding]; other site 1230587014964 ligand binding site [chemical binding]; other site 1230587014965 catalytic site [active] 1230587014966 NAD binding site [chemical binding]; other site 1230587014967 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 1230587014968 dimerization domain swap beta strand [polypeptide binding]; other site 1230587014969 regulatory protein interface [polypeptide binding]; other site 1230587014970 active site 1230587014971 regulatory phosphorylation site [posttranslational modification]; other site 1230587014972 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 1230587014973 active pocket/dimerization site; other site 1230587014974 active site 1230587014975 phosphorylation site [posttranslational modification] 1230587014976 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 1230587014977 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 1230587014978 Hpr binding site; other site 1230587014979 active site 1230587014980 homohexamer subunit interaction site [polypeptide binding]; other site 1230587014981 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1230587014982 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1230587014983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587014984 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1230587014985 dimerization interface [polypeptide binding]; other site 1230587014986 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 1230587014987 dimer interface [polypeptide binding]; other site 1230587014988 phosphorylation site [posttranslational modification] 1230587014989 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 1230587014990 ATP binding site [chemical binding]; other site 1230587014991 Mg2+ binding site [ion binding]; other site 1230587014992 G-X-G motif; other site 1230587014993 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587014994 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 1230587014995 active site 1230587014996 phosphorylation site [posttranslational modification] 1230587014997 intermolecular recognition site; other site 1230587014998 dimerization interface [polypeptide binding]; other site 1230587014999 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 1230587015000 DNA binding site [nucleotide binding] 1230587015001 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1230587015002 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 1230587015003 active site 1230587015004 substrate-binding site [chemical binding]; other site 1230587015005 metal-binding site [ion binding] 1230587015006 ATP binding site [chemical binding]; other site 1230587015007 hypothetical protein; Provisional; Region: PRK09256 1230587015008 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1230587015009 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1230587015010 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1230587015011 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1230587015012 pantothenate kinase; Provisional; Region: PRK05439 1230587015013 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 1230587015014 ATP-binding site [chemical binding]; other site 1230587015015 CoA-binding site [chemical binding]; other site 1230587015016 Mg2+-binding site [ion binding]; other site 1230587015017 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 1230587015018 metal binding site [ion binding]; metal-binding site 1230587015019 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 1230587015020 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1230587015021 substrate binding site [chemical binding]; other site 1230587015022 glutamase interaction surface [polypeptide binding]; other site 1230587015023 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 1230587015024 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1230587015025 catalytic residues [active] 1230587015026 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1230587015027 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1230587015028 putative active site [active] 1230587015029 oxyanion strand; other site 1230587015030 catalytic triad [active] 1230587015031 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1230587015032 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1230587015033 putative active site pocket [active] 1230587015034 4-fold oligomerization interface [polypeptide binding]; other site 1230587015035 metal binding residues [ion binding]; metal-binding site 1230587015036 3-fold/trimer interface [polypeptide binding]; other site 1230587015037 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 1230587015038 active site 1230587015039 HslU subunit interaction site [polypeptide binding]; other site 1230587015040 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1230587015041 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1230587015042 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1230587015043 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1230587015044 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 1230587015045 Walker A motif; other site 1230587015046 ATP binding site [chemical binding]; other site 1230587015047 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1230587015048 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1230587015049 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 1230587015050 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1230587015051 Cytochrome P450; Region: p450; cl12078 1230587015052 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1230587015053 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1230587015054 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1230587015055 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 1230587015056 active site 1230587015057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587015058 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587015059 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 1230587015060 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1230587015061 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 1230587015062 active site 1230587015063 phosphorylation site [posttranslational modification] 1230587015064 intermolecular recognition site; other site 1230587015065 dimerization interface [polypeptide binding]; other site 1230587015066 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1230587015067 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587015068 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 1230587015069 dimer interface [polypeptide binding]; other site 1230587015070 phosphorylation site [posttranslational modification] 1230587015071 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 1230587015072 ATP binding site [chemical binding]; other site 1230587015073 Mg2+ binding site [ion binding]; other site 1230587015074 G-X-G motif; other site 1230587015075 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1230587015076 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 1230587015077 ATP binding site [chemical binding]; other site 1230587015078 putative Mg++ binding site [ion binding]; other site 1230587015079 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 1230587015080 nucleotide binding region [chemical binding]; other site 1230587015081 ATP-binding site [chemical binding]; other site 1230587015082 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1230587015083 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 1230587015084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587015085 Walker A/P-loop; other site 1230587015086 ATP binding site [chemical binding]; other site 1230587015087 Q-loop/lid; other site 1230587015088 ABC transporter signature motif; other site 1230587015089 Walker B; other site 1230587015090 D-loop; other site 1230587015091 H-loop/switch region; other site 1230587015092 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 1230587015093 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587015094 dimer interface [polypeptide binding]; other site 1230587015095 conserved gate region; other site 1230587015096 putative PBP binding loops; other site 1230587015097 ABC-ATPase subunit interface; other site 1230587015098 hypothetical protein; Provisional; Region: PRK11622 1230587015099 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1230587015100 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1230587015101 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1230587015102 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 1230587015103 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 1230587015104 homodimer interface [polypeptide binding]; other site 1230587015105 substrate-cofactor binding pocket; other site 1230587015106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587015107 catalytic residue [active] 1230587015108 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587015109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587015110 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1230587015111 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1230587015112 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1230587015113 HPP family; Region: HPP; pfam04982 1230587015114 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 1230587015115 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 1230587015116 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1230587015117 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1230587015118 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1230587015119 homodimer interface [polypeptide binding]; other site 1230587015120 NADP binding site [chemical binding]; other site 1230587015121 substrate binding site [chemical binding]; other site 1230587015122 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1230587015123 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1230587015124 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1230587015125 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587015126 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1230587015127 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1230587015128 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587015129 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1230587015130 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1230587015131 conserved cys residue [active] 1230587015132 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587015133 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 1230587015134 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 1230587015135 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 1230587015136 putative active site [active] 1230587015137 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 1230587015138 domain_subunit interface; other site 1230587015139 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 1230587015140 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 1230587015141 active site 1230587015142 FMN binding site [chemical binding]; other site 1230587015143 substrate binding site [chemical binding]; other site 1230587015144 3Fe-4S cluster binding site [ion binding]; other site 1230587015145 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 1230587015146 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1230587015147 ethanolamine permease; Region: 2A0305; TIGR00908 1230587015148 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1230587015149 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 1230587015150 non-specific DNA binding site [nucleotide binding]; other site 1230587015151 salt bridge; other site 1230587015152 sequence-specific DNA binding site [nucleotide binding]; other site 1230587015153 Cupin domain; Region: Cupin_2; pfam07883 1230587015154 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1230587015155 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1230587015156 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1230587015157 putative active site [active] 1230587015158 putative substrate binding site [chemical binding]; other site 1230587015159 putative cosubstrate binding site; other site 1230587015160 catalytic site [active] 1230587015161 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1230587015162 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587015163 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1230587015164 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1230587015165 FMN-binding pocket [chemical binding]; other site 1230587015166 flavin binding motif; other site 1230587015167 phosphate binding motif [ion binding]; other site 1230587015168 beta-alpha-beta structure motif; other site 1230587015169 NAD binding pocket [chemical binding]; other site 1230587015170 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 1230587015171 catalytic loop [active] 1230587015172 iron binding site [ion binding]; other site 1230587015173 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 1230587015174 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1230587015175 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1230587015176 Uncharacterized conserved protein [Function unknown]; Region: COG3665 1230587015177 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1230587015178 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587015179 Amino acid permease; Region: AA_permease_2; pfam13520 1230587015180 putative phosphoketolase; Provisional; Region: PRK05261 1230587015181 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 1230587015182 TPP-binding site; other site 1230587015183 XFP C-terminal domain; Region: XFP_C; pfam09363 1230587015184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587015185 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1230587015186 NAD(P) binding site [chemical binding]; other site 1230587015187 active site 1230587015188 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 1230587015189 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587015190 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587015191 DNA-binding site [nucleotide binding]; DNA binding site 1230587015192 FCD domain; Region: FCD; pfam07729 1230587015193 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1230587015194 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587015195 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1230587015196 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1230587015197 N-terminal domain interface [polypeptide binding]; other site 1230587015198 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587015199 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587015200 Walker A/P-loop; other site 1230587015201 ATP binding site [chemical binding]; other site 1230587015202 Q-loop/lid; other site 1230587015203 ABC transporter signature motif; other site 1230587015204 Walker B; other site 1230587015205 D-loop; other site 1230587015206 H-loop/switch region; other site 1230587015207 TOBE domain; Region: TOBE_2; pfam08402 1230587015208 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587015209 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587015210 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587015211 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587015212 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587015213 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587015214 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587015215 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587015216 dimer interface [polypeptide binding]; other site 1230587015217 conserved gate region; other site 1230587015218 putative PBP binding loops; other site 1230587015219 ABC-ATPase subunit interface; other site 1230587015220 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1230587015221 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587015222 dimer interface [polypeptide binding]; other site 1230587015223 conserved gate region; other site 1230587015224 putative PBP binding loops; other site 1230587015225 ABC-ATPase subunit interface; other site 1230587015226 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587015227 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587015228 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1230587015229 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587015230 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587015231 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587015232 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1230587015233 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1230587015234 metal binding site [ion binding]; metal-binding site 1230587015235 substrate binding pocket [chemical binding]; other site 1230587015236 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587015237 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 1230587015238 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587015239 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587015240 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587015241 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 1230587015242 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 1230587015243 metal-binding site [ion binding] 1230587015244 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1230587015245 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1230587015246 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587015247 Walker A/P-loop; other site 1230587015248 ATP binding site [chemical binding]; other site 1230587015249 Q-loop/lid; other site 1230587015250 ABC transporter signature motif; other site 1230587015251 Walker B; other site 1230587015252 D-loop; other site 1230587015253 H-loop/switch region; other site 1230587015254 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587015255 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587015256 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 1230587015257 TM-ABC transporter signature motif; other site 1230587015258 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587015259 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 1230587015260 TM-ABC transporter signature motif; other site 1230587015261 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1230587015262 active site 1230587015263 catalytic motif [active] 1230587015264 Zn binding site [ion binding]; other site 1230587015265 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1230587015266 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 1230587015267 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1230587015268 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1230587015269 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1230587015270 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1230587015271 active site 1230587015272 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1230587015273 adenosine deaminase; Provisional; Region: PRK09358 1230587015274 active site 1230587015275 phosphopentomutase; Provisional; Region: PRK05362 1230587015276 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1230587015277 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1230587015278 TadE-like protein; Region: TadE; pfam07811 1230587015279 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1230587015280 TadE-like protein; Region: TadE; pfam07811 1230587015281 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1230587015282 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1230587015283 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1230587015284 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1230587015285 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1230587015286 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1230587015287 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1230587015288 BON domain; Region: BON; pfam04972 1230587015289 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1230587015290 Type IV pili component [Cell motility and secretion]; Region: COG5461 1230587015291 pilus (Caulobacter type) biogenesis lipoprotein CpaD; Region: pilus_cpaD; TIGR02522 1230587015292 AAA domain; Region: AAA_31; pfam13614 1230587015293 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1230587015294 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 1230587015295 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1230587015296 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 1230587015297 ATP binding site [chemical binding]; other site 1230587015298 Walker A motif; other site 1230587015299 hexamer interface [polypeptide binding]; other site 1230587015300 Walker B motif; other site 1230587015301 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1230587015302 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1230587015303 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1230587015304 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1230587015305 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1230587015306 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1230587015307 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1230587015308 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 1230587015309 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 1230587015310 TPR motif; other site 1230587015311 binding surface 1230587015312 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 1230587015313 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 1230587015314 interface (dimer of trimers) [polypeptide binding]; other site 1230587015315 Substrate-binding/catalytic site; other site 1230587015316 Zn-binding sites [ion binding]; other site 1230587015317 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1230587015318 MarR family; Region: MarR; pfam01047 1230587015319 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1230587015320 NlpC/P60 family; Region: NLPC_P60; cl17555 1230587015321 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1230587015322 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1230587015323 putative ligand binding site [chemical binding]; other site 1230587015324 NAD binding site [chemical binding]; other site 1230587015325 dimerization interface [polypeptide binding]; other site 1230587015326 catalytic site [active] 1230587015327 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1230587015328 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587015329 Walker A/P-loop; other site 1230587015330 ATP binding site [chemical binding]; other site 1230587015331 Q-loop/lid; other site 1230587015332 ABC transporter signature motif; other site 1230587015333 Walker B; other site 1230587015334 D-loop; other site 1230587015335 H-loop/switch region; other site 1230587015336 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1230587015337 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587015338 Walker A/P-loop; other site 1230587015339 ATP binding site [chemical binding]; other site 1230587015340 Q-loop/lid; other site 1230587015341 ABC transporter signature motif; other site 1230587015342 Walker B; other site 1230587015343 D-loop; other site 1230587015344 H-loop/switch region; other site 1230587015345 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587015346 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1230587015347 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587015348 dimer interface [polypeptide binding]; other site 1230587015349 conserved gate region; other site 1230587015350 putative PBP binding loops; other site 1230587015351 ABC-ATPase subunit interface; other site 1230587015352 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1230587015353 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587015354 dimer interface [polypeptide binding]; other site 1230587015355 conserved gate region; other site 1230587015356 putative PBP binding loops; other site 1230587015357 ABC-ATPase subunit interface; other site 1230587015358 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1230587015359 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 1230587015360 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1230587015361 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1230587015362 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 1230587015363 active site 1230587015364 dimer interfaces [polypeptide binding]; other site 1230587015365 catalytic residues [active] 1230587015366 glucokinase; Provisional; Region: glk; PRK00292 1230587015367 glucokinase, proteobacterial type; Region: glk; TIGR00749 1230587015368 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1230587015369 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587015370 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1230587015371 Walker A/P-loop; other site 1230587015372 ATP binding site [chemical binding]; other site 1230587015373 Q-loop/lid; other site 1230587015374 ABC transporter signature motif; other site 1230587015375 Walker B; other site 1230587015376 D-loop; other site 1230587015377 H-loop/switch region; other site 1230587015378 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1230587015379 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1230587015380 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1230587015381 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 1230587015382 catalytic core [active] 1230587015383 Helix-turn-helix domain; Region: HTH_18; pfam12833 1230587015384 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1230587015385 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 1230587015386 DNA binding site [nucleotide binding] 1230587015387 active site 1230587015388 Integral membrane protein [Function unknown]; Region: COG5488 1230587015389 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1230587015390 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1230587015391 minor groove reading motif; other site 1230587015392 helix-hairpin-helix signature motif; other site 1230587015393 substrate binding pocket [chemical binding]; other site 1230587015394 active site 1230587015395 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1230587015396 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587015397 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_22; cd08359 1230587015398 putative dimer interface [polypeptide binding]; other site 1230587015399 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587015400 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 1230587015401 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587015402 substrate binding site [chemical binding]; other site 1230587015403 ATP binding site [chemical binding]; other site 1230587015404 Predicted kinase [General function prediction only]; Region: COG0645 1230587015405 AAA domain; Region: AAA_17; pfam13207 1230587015406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1230587015407 Bacterial SH3 domain; Region: SH3_4; pfam06347 1230587015408 Bacterial SH3 domain; Region: SH3_4; pfam06347 1230587015409 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1230587015410 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1230587015411 dimerization interface [polypeptide binding]; other site 1230587015412 ligand binding site [chemical binding]; other site 1230587015413 NADP binding site [chemical binding]; other site 1230587015414 catalytic site [active] 1230587015415 5'-3' exonuclease; Region: 53EXOc; smart00475 1230587015416 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1230587015417 active site 1230587015418 metal binding site 1 [ion binding]; metal-binding site 1230587015419 putative 5' ssDNA interaction site; other site 1230587015420 metal binding site 3; metal-binding site 1230587015421 metal binding site 2 [ion binding]; metal-binding site 1230587015422 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1230587015423 putative DNA binding site [nucleotide binding]; other site 1230587015424 putative metal binding site [ion binding]; other site 1230587015425 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 1230587015426 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 1230587015427 active site 1230587015428 catalytic site [active] 1230587015429 substrate binding site [chemical binding]; other site 1230587015430 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1230587015431 active site 1230587015432 DNA binding site [nucleotide binding] 1230587015433 catalytic site [active] 1230587015434 MarR family; Region: MarR; pfam01047 1230587015435 hypothetical protein; Validated; Region: PRK09104 1230587015436 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1230587015437 metal binding site [ion binding]; metal-binding site 1230587015438 putative dimer interface [polypeptide binding]; other site 1230587015439 Predicted integral membrane protein [Function unknown]; Region: COG0392 1230587015440 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587015441 EamA-like transporter family; Region: EamA; cl17759 1230587015442 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1230587015443 Transglycosylase; Region: Transgly; pfam00912 1230587015444 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1230587015445 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1230587015446 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1230587015447 nucleotide binding site [chemical binding]; other site 1230587015448 NEF interaction site [polypeptide binding]; other site 1230587015449 SBD interface [polypeptide binding]; other site 1230587015450 chaperone protein DnaJ; Provisional; Region: PRK10767 1230587015451 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 1230587015452 HSP70 interaction site [polypeptide binding]; other site 1230587015453 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1230587015454 substrate binding site [polypeptide binding]; other site 1230587015455 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1230587015456 Zn binding sites [ion binding]; other site 1230587015457 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1230587015458 dimer interface [polypeptide binding]; other site 1230587015459 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 1230587015460 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1230587015461 Uncharacterized conserved protein [Function unknown]; Region: COG5588 1230587015462 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1230587015463 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 1230587015464 recombination protein F; Reviewed; Region: recF; PRK00064 1230587015465 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1230587015466 Walker A/P-loop; other site 1230587015467 ATP binding site [chemical binding]; other site 1230587015468 Q-loop/lid; other site 1230587015469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587015470 ABC transporter signature motif; other site 1230587015471 Walker B; other site 1230587015472 D-loop; other site 1230587015473 H-loop/switch region; other site 1230587015474 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1230587015475 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 1230587015476 ATP binding site [chemical binding]; other site 1230587015477 substrate interface [chemical binding]; other site 1230587015478 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587015479 Coenzyme A binding pocket [chemical binding]; other site 1230587015480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587015481 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1230587015482 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1230587015483 Protein export membrane protein; Region: SecD_SecF; cl14618 1230587015484 Protein export membrane protein; Region: SecD_SecF; cl14618 1230587015485 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1230587015486 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587015487 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587015488 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587015489 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587015490 Walker A/P-loop; other site 1230587015491 ATP binding site [chemical binding]; other site 1230587015492 Q-loop/lid; other site 1230587015493 ABC transporter signature motif; other site 1230587015494 Walker B; other site 1230587015495 D-loop; other site 1230587015496 H-loop/switch region; other site 1230587015497 TOBE domain; Region: TOBE_2; pfam08402 1230587015498 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587015499 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587015500 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587015501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587015502 dimer interface [polypeptide binding]; other site 1230587015503 conserved gate region; other site 1230587015504 putative PBP binding loops; other site 1230587015505 ABC-ATPase subunit interface; other site 1230587015506 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587015507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587015508 dimer interface [polypeptide binding]; other site 1230587015509 conserved gate region; other site 1230587015510 putative PBP binding loops; other site 1230587015511 ABC-ATPase subunit interface; other site 1230587015512 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587015513 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587015514 Predicted sugar phosphate isomerase [General function prediction only]; Region: COG2103 1230587015515 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1230587015516 putative active site [active] 1230587015517 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1230587015518 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1230587015519 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587015520 DNA-binding site [nucleotide binding]; DNA binding site 1230587015521 UTRA domain; Region: UTRA; pfam07702 1230587015522 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1230587015523 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 1230587015524 dimer interface [polypeptide binding]; other site 1230587015525 active site 1230587015526 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 1230587015527 dimer interface [polypeptide binding]; other site 1230587015528 active site 1230587015529 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1230587015530 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 1230587015531 active site 1230587015532 dimer interface [polypeptide binding]; other site 1230587015533 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1230587015534 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1230587015535 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1230587015536 hypothetical protein; Provisional; Region: PRK06102 1230587015537 Amidase; Region: Amidase; cl11426 1230587015538 CysZ-like protein; Reviewed; Region: PRK12768 1230587015539 hypothetical protein; Provisional; Region: PRK00736 1230587015540 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1230587015541 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 1230587015542 ligand binding site [chemical binding]; other site 1230587015543 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1230587015544 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1230587015545 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587015546 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587015547 muropeptide transporter; Validated; Region: ampG; cl17669 1230587015548 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1230587015549 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 1230587015550 N-terminal plug; other site 1230587015551 ligand-binding site [chemical binding]; other site 1230587015552 hypothetical protein; Provisional; Region: PRK07588 1230587015553 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1230587015554 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587015555 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 1230587015556 putative substrate translocation pore; other site 1230587015557 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587015558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587015559 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 1230587015560 putative substrate binding pocket [chemical binding]; other site 1230587015561 putative dimerization interface [polypeptide binding]; other site 1230587015562 Predicted permeases [General function prediction only]; Region: COG0679 1230587015563 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1230587015564 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1230587015565 homodimer interface [polypeptide binding]; other site 1230587015566 substrate-cofactor binding pocket; other site 1230587015567 catalytic residue [active] 1230587015568 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1230587015569 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1230587015570 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1230587015571 Ligand binding site; other site 1230587015572 oligomer interface; other site 1230587015573 prephenate dehydratase; Provisional; Region: PRK11899 1230587015574 Prephenate dehydratase; Region: PDT; pfam00800 1230587015575 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 1230587015576 putative L-Phe binding site [chemical binding]; other site 1230587015577 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1230587015578 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_11; cd07261 1230587015579 putative dimer interface [polypeptide binding]; other site 1230587015580 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587015581 Predicted transcriptional regulator [Transcription]; Region: COG2378 1230587015582 HTH domain; Region: HTH_11; pfam08279 1230587015583 WYL domain; Region: WYL; pfam13280 1230587015584 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1230587015585 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1230587015586 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1230587015587 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 1230587015588 putative NADH binding site [chemical binding]; other site 1230587015589 putative active site [active] 1230587015590 nudix motif; other site 1230587015591 putative metal binding site [ion binding]; other site 1230587015592 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1230587015593 nucleotide binding site/active site [active] 1230587015594 HIT family signature motif; other site 1230587015595 catalytic residue [active] 1230587015596 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1230587015597 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 1230587015598 Walker A motif; other site 1230587015599 ATP binding site [chemical binding]; other site 1230587015600 Walker B motif; other site 1230587015601 arginine finger; other site 1230587015602 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1230587015603 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1230587015604 hypothetical protein; Validated; Region: PRK00153 1230587015605 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587015606 recombination protein RecR; Reviewed; Region: recR; PRK00076 1230587015607 RecR protein; Region: RecR; pfam02132 1230587015608 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 1230587015609 putative active site [active] 1230587015610 putative metal-binding site [ion binding]; other site 1230587015611 tetramer interface [polypeptide binding]; other site 1230587015612 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1230587015613 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 1230587015614 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1230587015615 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587015616 Transmembrane secretion effector; Region: MFS_3; pfam05977 1230587015617 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 1230587015618 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 1230587015619 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1230587015620 Sm and related proteins; Region: Sm_like; cl00259 1230587015621 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1230587015622 putative oligomer interface [polypeptide binding]; other site 1230587015623 putative RNA binding site [nucleotide binding]; other site 1230587015624 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1230587015625 NusA N-terminal domain; Region: NusA_N; pfam08529 1230587015626 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 1230587015627 RNA binding site [nucleotide binding]; other site 1230587015628 homodimer interface [polypeptide binding]; other site 1230587015629 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 1230587015630 G-X-X-G motif; other site 1230587015631 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 1230587015632 G-X-X-G motif; other site 1230587015633 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1230587015634 hypothetical protein; Provisional; Region: PRK09190 1230587015635 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 1230587015636 putative RNA binding cleft [nucleotide binding]; other site 1230587015637 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1230587015638 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1230587015639 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1230587015640 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1230587015641 G1 box; other site 1230587015642 putative GEF interaction site [polypeptide binding]; other site 1230587015643 GTP/Mg2+ binding site [chemical binding]; other site 1230587015644 Switch I region; other site 1230587015645 G2 box; other site 1230587015646 G3 box; other site 1230587015647 Switch II region; other site 1230587015648 G4 box; other site 1230587015649 G5 box; other site 1230587015650 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 1230587015651 Translation-initiation factor 2; Region: IF-2; pfam11987 1230587015652 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 1230587015653 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1230587015654 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 1230587015655 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1230587015656 RNA binding site [nucleotide binding]; other site 1230587015657 active site 1230587015658 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1230587015659 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1230587015660 HWE histidine kinase; Region: HWE_HK; pfam07536 1230587015661 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 1230587015662 16S/18S rRNA binding site [nucleotide binding]; other site 1230587015663 S13e-L30e interaction site [polypeptide binding]; other site 1230587015664 25S rRNA binding site [nucleotide binding]; other site 1230587015665 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1230587015666 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1230587015667 RNase E interface [polypeptide binding]; other site 1230587015668 trimer interface [polypeptide binding]; other site 1230587015669 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1230587015670 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1230587015671 RNase E interface [polypeptide binding]; other site 1230587015672 trimer interface [polypeptide binding]; other site 1230587015673 active site 1230587015674 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 1230587015675 putative nucleic acid binding region [nucleotide binding]; other site 1230587015676 G-X-X-G motif; other site 1230587015677 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 1230587015678 RNA binding site [nucleotide binding]; other site 1230587015679 domain interface; other site 1230587015680 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1230587015681 Methyltransferase small domain; Region: MTS; pfam05175 1230587015682 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 1230587015683 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1230587015684 NAD binding site [chemical binding]; other site 1230587015685 homotetramer interface [polypeptide binding]; other site 1230587015686 homodimer interface [polypeptide binding]; other site 1230587015687 substrate binding site [chemical binding]; other site 1230587015688 active site 1230587015689 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1230587015690 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 1230587015691 dimer interface [polypeptide binding]; other site 1230587015692 active site 1230587015693 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 1230587015694 active site 1 [active] 1230587015695 dimer interface [polypeptide binding]; other site 1230587015696 active site 2 [active] 1230587015697 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1230587015698 metal binding site 2 [ion binding]; metal-binding site 1230587015699 putative DNA binding helix; other site 1230587015700 metal binding site 1 [ion binding]; metal-binding site 1230587015701 dimer interface [polypeptide binding]; other site 1230587015702 Predicted membrane protein [Function unknown]; Region: COG2860 1230587015703 UPF0126 domain; Region: UPF0126; pfam03458 1230587015704 UPF0126 domain; Region: UPF0126; pfam03458 1230587015705 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1230587015706 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 1230587015707 putative active site [active] 1230587015708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 1230587015709 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 1230587015710 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1230587015711 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 1230587015712 hinge; other site 1230587015713 active site 1230587015714 cytidylate kinase; Provisional; Region: cmk; PRK00023 1230587015715 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 1230587015716 CMP-binding site; other site 1230587015717 The sites determining sugar specificity; other site 1230587015718 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1230587015719 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 1230587015720 RNA binding site [nucleotide binding]; other site 1230587015721 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 1230587015722 RNA binding site [nucleotide binding]; other site 1230587015723 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 1230587015724 RNA binding site [nucleotide binding]; other site 1230587015725 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 1230587015726 RNA binding site [nucleotide binding]; other site 1230587015727 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 1230587015728 RNA binding site [nucleotide binding]; other site 1230587015729 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 1230587015730 RNA binding site [nucleotide binding]; other site 1230587015731 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587015732 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587015733 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587015734 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1230587015735 Integrase core domain; Region: rve; pfam00665 1230587015736 Integrase core domain; Region: rve_3; pfam13683 1230587015737 BA14K-like protein; Region: BA14K; pfam07886 1230587015738 Cache domain; Region: Cache_1; pfam02743 1230587015739 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1230587015740 dimerization interface [polypeptide binding]; other site 1230587015741 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587015742 cyclase homology domain; Region: CHD; cd07302 1230587015743 nucleotidyl binding site; other site 1230587015744 metal binding site [ion binding]; metal-binding site 1230587015745 dimer interface [polypeptide binding]; other site 1230587015746 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1230587015747 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 1230587015748 putative ligand binding site [chemical binding]; other site 1230587015749 putative NAD binding site [chemical binding]; other site 1230587015750 catalytic site [active] 1230587015751 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1230587015752 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1230587015753 catalytic site [active] 1230587015754 putative active site [active] 1230587015755 putative substrate binding site [chemical binding]; other site 1230587015756 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587015757 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587015758 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587015759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1230587015760 Integrase core domain; Region: rve; pfam00665 1230587015761 Integrase core domain; Region: rve_3; pfam13683 1230587015762 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 1230587015763 GIY-YIG motif/motif A; other site 1230587015764 putative active site [active] 1230587015765 putative metal binding site [ion binding]; other site 1230587015766 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 1230587015767 Predicted membrane protein [Function unknown]; Region: COG2259 1230587015768 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1230587015769 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1230587015770 Post-segregation antitoxin (ccd killing mechanism protein) encoded by the F plasmid [General function prediction only]; Region: COG5302 1230587015771 GTP-binding protein LepA; Provisional; Region: PRK05433 1230587015772 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1230587015773 G1 box; other site 1230587015774 putative GEF interaction site [polypeptide binding]; other site 1230587015775 GTP/Mg2+ binding site [chemical binding]; other site 1230587015776 Switch I region; other site 1230587015777 G2 box; other site 1230587015778 G3 box; other site 1230587015779 Switch II region; other site 1230587015780 G4 box; other site 1230587015781 G5 box; other site 1230587015782 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 1230587015783 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 1230587015784 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1230587015785 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 1230587015786 putative substrate translocation pore; other site 1230587015787 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1230587015788 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 1230587015789 sequence-specific DNA binding site [nucleotide binding]; other site 1230587015790 salt bridge; other site 1230587015791 Cupin domain; Region: Cupin_2; pfam07883 1230587015792 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587015793 Coenzyme A binding pocket [chemical binding]; other site 1230587015794 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 1230587015795 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1230587015796 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1230587015797 ligand binding site [chemical binding]; other site 1230587015798 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1230587015799 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 1230587015800 FeS/SAM binding site; other site 1230587015801 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 1230587015802 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 1230587015803 motif 1; other site 1230587015804 dimer interface [polypeptide binding]; other site 1230587015805 active site 1230587015806 motif 2; other site 1230587015807 motif 3; other site 1230587015808 elongation factor P; Validated; Region: PRK00529 1230587015809 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1230587015810 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 1230587015811 RNA binding site [nucleotide binding]; other site 1230587015812 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 1230587015813 RNA binding site [nucleotide binding]; other site 1230587015814 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1230587015815 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 1230587015816 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 1230587015817 S-adenosylmethionine binding site [chemical binding]; other site 1230587015818 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1230587015819 diiron binding motif [ion binding]; other site 1230587015820 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1230587015821 CCC1-related protein family; Region: CCC1_like_1; cd02437 1230587015822 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1230587015823 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587015824 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1230587015825 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1230587015826 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1230587015827 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1230587015828 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1230587015829 23S rRNA binding site [nucleotide binding]; other site 1230587015830 L21 binding site [polypeptide binding]; other site 1230587015831 L13 binding site [polypeptide binding]; other site 1230587015832 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1230587015833 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1230587015834 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 1230587015835 dimer interface [polypeptide binding]; other site 1230587015836 motif 1; other site 1230587015837 active site 1230587015838 motif 2; other site 1230587015839 motif 3; other site 1230587015840 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1230587015841 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 1230587015842 putative tRNA-binding site [nucleotide binding]; other site 1230587015843 B3/4 domain; Region: B3_4; pfam03483 1230587015844 tRNA synthetase B5 domain; Region: B5; smart00874 1230587015845 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 1230587015846 dimer interface [polypeptide binding]; other site 1230587015847 motif 1; other site 1230587015848 motif 3; other site 1230587015849 motif 2; other site 1230587015850 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1230587015851 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 1230587015852 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 1230587015853 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587015854 active site 1230587015855 catalytic tetrad [active] 1230587015856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587015857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587015858 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 1230587015859 putative effector binding pocket; other site 1230587015860 putative dimerization interface [polypeptide binding]; other site 1230587015861 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 1230587015862 dimerization interface [polypeptide binding]; other site 1230587015863 metal binding site [ion binding]; metal-binding site 1230587015864 short chain dehydrogenase; Provisional; Region: PRK07478 1230587015865 classical (c) SDRs; Region: SDR_c; cd05233 1230587015866 NAD(P) binding site [chemical binding]; other site 1230587015867 active site 1230587015868 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 1230587015869 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587015870 active site 1230587015871 catalytic tetrad [active] 1230587015872 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587015873 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587015874 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587015875 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 1230587015876 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1230587015877 sequence-specific DNA binding site [nucleotide binding]; other site 1230587015878 salt bridge; other site 1230587015879 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1230587015880 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 1230587015881 generic binding surface II; other site 1230587015882 generic binding surface I; other site 1230587015883 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1230587015884 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587015885 MarR family; Region: MarR_2; cl17246 1230587015886 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1230587015887 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1230587015888 EamA-like transporter family; Region: EamA; pfam00892 1230587015889 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1230587015890 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1230587015891 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587015892 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 1230587015893 C-terminal domain interface [polypeptide binding]; other site 1230587015894 GSH binding site (G-site) [chemical binding]; other site 1230587015895 dimer interface [polypeptide binding]; other site 1230587015896 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1230587015897 N-terminal domain interface [polypeptide binding]; other site 1230587015898 dimer interface [polypeptide binding]; other site 1230587015899 substrate binding pocket (H-site) [chemical binding]; other site 1230587015900 MarR family; Region: MarR_2; pfam12802 1230587015901 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1230587015902 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1230587015903 putative deacylase active site [active] 1230587015904 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 1230587015905 ArsC family; Region: ArsC; pfam03960 1230587015906 putative catalytic residues [active] 1230587015907 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1230587015908 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 1230587015909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587015910 homodimer interface [polypeptide binding]; other site 1230587015911 catalytic residue [active] 1230587015912 Predicted deacylase [General function prediction only]; Region: COG3608 1230587015913 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1230587015914 active site 1230587015915 Zn binding site [ion binding]; other site 1230587015916 VirB8 protein; Region: VirB8; cl01500 1230587015917 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1230587015918 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 1230587015919 putative active site [active] 1230587015920 GMP synthase; Reviewed; Region: guaA; PRK00074 1230587015921 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1230587015922 AMP/PPi binding site [chemical binding]; other site 1230587015923 candidate oxyanion hole; other site 1230587015924 catalytic triad [active] 1230587015925 potential glutamine specificity residues [chemical binding]; other site 1230587015926 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 1230587015927 ATP Binding subdomain [chemical binding]; other site 1230587015928 Ligand Binding sites [chemical binding]; other site 1230587015929 Dimerization subdomain; other site 1230587015930 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 1230587015931 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 1230587015932 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 1230587015933 CoenzymeA binding site [chemical binding]; other site 1230587015934 subunit interaction site [polypeptide binding]; other site 1230587015935 PHB binding site; other site 1230587015936 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1230587015937 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587015938 Coenzyme A binding pocket [chemical binding]; other site 1230587015939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 1230587015940 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1230587015941 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1230587015942 Cl binding site [ion binding]; other site 1230587015943 oligomer interface [polypeptide binding]; other site 1230587015944 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG3489 1230587015945 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1230587015946 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1230587015947 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 1230587015948 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1230587015949 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 1230587015950 S-adenosylmethionine binding site [chemical binding]; other site 1230587015951 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1230587015952 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1230587015953 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587015954 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1230587015955 putative NAD(P) binding site [chemical binding]; other site 1230587015956 epoxyqueuosine reductase; Region: TIGR00276 1230587015957 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1230587015958 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587015959 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 1230587015960 C-terminal domain interface [polypeptide binding]; other site 1230587015961 GSH binding site (G-site) [chemical binding]; other site 1230587015962 dimer interface [polypeptide binding]; other site 1230587015963 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1230587015964 N-terminal domain interface [polypeptide binding]; other site 1230587015965 dimer interface [polypeptide binding]; other site 1230587015966 substrate binding pocket (H-site) [chemical binding]; other site 1230587015967 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 1230587015968 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1230587015969 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1230587015970 putative NAD(P) binding site [chemical binding]; other site 1230587015971 active site 1230587015972 Uncharacterized conserved protein [Function unknown]; Region: COG5470 1230587015973 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 1230587015974 active site 1230587015975 dimer interface [polypeptide binding]; other site 1230587015976 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 1230587015977 catalytic core [active] 1230587015978 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1230587015979 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 1230587015980 S-adenosylmethionine binding site [chemical binding]; other site 1230587015981 DNA polymerase III subunit beta; Validated; Region: PRK05643 1230587015982 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 1230587015983 putative DNA binding surface [nucleotide binding]; other site 1230587015984 dimer interface [polypeptide binding]; other site 1230587015985 beta-clamp/clamp loader binding surface; other site 1230587015986 beta-clamp/translesion DNA polymerase binding surface; other site 1230587015987 Predicted methyltransferases [General function prediction only]; Region: COG0313 1230587015988 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1230587015989 putative SAM binding site [chemical binding]; other site 1230587015990 putative homodimer interface [polypeptide binding]; other site 1230587015991 hypothetical protein; Reviewed; Region: PRK12497 1230587015992 glutathione synthetase; Provisional; Region: PRK05246 1230587015993 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1230587015994 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1230587015995 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1230587015996 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1230587015997 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 1230587015998 Walker A motif; other site 1230587015999 ATP binding site [chemical binding]; other site 1230587016000 Walker B motif; other site 1230587016001 arginine finger; other site 1230587016002 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1230587016003 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1230587016004 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 1230587016005 dimer interface [polypeptide binding]; other site 1230587016006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587016007 catalytic residue [active] 1230587016008 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587016009 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1230587016010 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1230587016011 EamA-like transporter family; Region: EamA; pfam00892 1230587016012 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587016013 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 1230587016014 putative DNA binding site [nucleotide binding]; other site 1230587016015 putative Zn2+ binding site [ion binding]; other site 1230587016016 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587016017 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1230587016018 trimer interface [polypeptide binding]; other site 1230587016019 active site 1230587016020 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1230587016021 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1230587016022 G1 box; other site 1230587016023 putative GEF interaction site [polypeptide binding]; other site 1230587016024 GTP/Mg2+ binding site [chemical binding]; other site 1230587016025 Switch I region; other site 1230587016026 G2 box; other site 1230587016027 G3 box; other site 1230587016028 Switch II region; other site 1230587016029 G4 box; other site 1230587016030 G5 box; other site 1230587016031 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 1230587016032 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587016033 EamA-like transporter family; Region: EamA; pfam00892 1230587016034 EamA-like transporter family; Region: EamA; pfam00892 1230587016035 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1230587016036 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1230587016037 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587016038 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587016039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587016040 NAD(P) binding site [chemical binding]; other site 1230587016041 active site 1230587016042 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587016043 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1230587016044 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587016045 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1230587016046 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587016047 dimer interface [polypeptide binding]; other site 1230587016048 PYR/PP interface [polypeptide binding]; other site 1230587016049 TPP binding site [chemical binding]; other site 1230587016050 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587016051 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 1230587016052 TPP-binding site [chemical binding]; other site 1230587016053 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587016054 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 1230587016055 substrate binding site [chemical binding]; other site 1230587016056 ATP binding site [chemical binding]; other site 1230587016057 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1230587016058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1230587016059 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1230587016060 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587016061 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 1230587016062 putative active site [active] 1230587016063 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587016064 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587016065 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587016066 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1230587016067 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 1230587016068 putative active site [active] 1230587016069 putative dimer interface [polypeptide binding]; other site 1230587016070 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1230587016071 Flavoprotein; Region: Flavoprotein; pfam02441 1230587016072 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1230587016073 Predicted transcriptional regulator [Transcription]; Region: COG1959 1230587016074 Transcriptional regulator; Region: Rrf2; pfam02082 1230587016075 Transcriptional regulator; Region: Rrf2; cl17282 1230587016076 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1230587016077 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1230587016078 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1230587016079 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1230587016080 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1230587016081 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587016082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587016083 NAD(P) binding site [chemical binding]; other site 1230587016084 active site 1230587016085 ABC1 family; Region: ABC1; cl17513 1230587016086 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1230587016087 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1230587016088 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 1230587016089 S-adenosylmethionine binding site [chemical binding]; other site 1230587016090 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1230587016091 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1230587016092 DNA binding site [nucleotide binding] 1230587016093 catalytic residue [active] 1230587016094 H2TH interface [polypeptide binding]; other site 1230587016095 putative catalytic residues [active] 1230587016096 turnover-facilitating residue; other site 1230587016097 intercalation triad [nucleotide binding]; other site 1230587016098 8OG recognition residue [nucleotide binding]; other site 1230587016099 putative reading head residues; other site 1230587016100 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1230587016101 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1230587016102 enoyl-CoA hydratase; Provisional; Region: PRK05862 1230587016103 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 1230587016104 substrate binding site [chemical binding]; other site 1230587016105 oxyanion hole (OAH) forming residues; other site 1230587016106 trimer interface [polypeptide binding]; other site 1230587016107 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1230587016108 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1230587016109 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 1230587016110 P-loop; other site 1230587016111 Magnesium ion binding site [ion binding]; other site 1230587016112 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 1230587016113 Magnesium ion binding site [ion binding]; other site 1230587016114 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1230587016115 ParB-like nuclease domain; Region: ParB; smart00470 1230587016116 replication initiation protein RepC; Provisional; Region: PRK13824 1230587016117 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1230587016118 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1230587016119 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 1230587016120 HTH DNA binding domain; Region: HTH_13; pfam11972 1230587016121 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587016122 EamA-like transporter family; Region: EamA; pfam00892 1230587016123 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 1230587016124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587016125 DNA-binding site [nucleotide binding]; DNA binding site 1230587016126 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 1230587016127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587016128 homodimer interface [polypeptide binding]; other site 1230587016129 catalytic residue [active] 1230587016130 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1230587016131 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1230587016132 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1230587016133 shikimate binding site; other site 1230587016134 NAD(P) binding site [chemical binding]; other site 1230587016135 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587016136 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1230587016137 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1230587016138 DctM-like transporters; Region: DctM; pfam06808 1230587016139 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587016140 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587016141 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587016142 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 1230587016143 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587016144 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1230587016145 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1230587016146 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1230587016147 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1230587016148 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 1230587016149 active site 1230587016150 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1230587016151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1230587016152 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1230587016153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1230587016154 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1230587016155 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 1230587016156 RNA binding surface [nucleotide binding]; other site 1230587016157 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1230587016158 active site 1230587016159 5-oxoprolinase; Region: PLN02666 1230587016160 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1230587016161 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1230587016162 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1230587016163 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1230587016164 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587016165 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 1230587016166 putative DNA binding site [nucleotide binding]; other site 1230587016167 putative Zn2+ binding site [ion binding]; other site 1230587016168 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587016169 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1230587016170 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 1230587016171 tetramer interface [polypeptide binding]; other site 1230587016172 TPP-binding site [chemical binding]; other site 1230587016173 heterodimer interface [polypeptide binding]; other site 1230587016174 phosphorylation loop region [posttranslational modification] 1230587016175 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1230587016176 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 1230587016177 alpha subunit interface [polypeptide binding]; other site 1230587016178 TPP binding site [chemical binding]; other site 1230587016179 heterodimer interface [polypeptide binding]; other site 1230587016180 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587016181 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 1230587016182 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 1230587016183 E3 interaction surface; other site 1230587016184 lipoyl attachment site [posttranslational modification]; other site 1230587016185 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1230587016186 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 1230587016187 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587016188 putative ligand binding site [chemical binding]; other site 1230587016189 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587016190 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1230587016191 Walker A/P-loop; other site 1230587016192 ATP binding site [chemical binding]; other site 1230587016193 Q-loop/lid; other site 1230587016194 ABC transporter signature motif; other site 1230587016195 Walker B; other site 1230587016196 D-loop; other site 1230587016197 H-loop/switch region; other site 1230587016198 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587016199 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587016200 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 1230587016201 TM-ABC transporter signature motif; other site 1230587016202 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587016203 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 1230587016204 TM-ABC transporter signature motif; other site 1230587016205 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587016206 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587016207 DNA binding site [nucleotide binding] 1230587016208 domain linker motif; other site 1230587016209 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1230587016210 dimerization interface [polypeptide binding]; other site 1230587016211 ligand binding site [chemical binding]; other site 1230587016212 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587016213 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587016214 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587016215 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1230587016216 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587016217 putative NAD(P) binding site [chemical binding]; other site 1230587016218 active site 1230587016219 putative substrate binding site [chemical binding]; other site 1230587016220 Vitamin K epoxide reductase family in bacteria; Region: VKOR_2; cd12919 1230587016221 putative active site [active] 1230587016222 redox center [active] 1230587016223 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1230587016224 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1230587016225 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587016226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587016227 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1230587016228 dimerization interface [polypeptide binding]; other site 1230587016229 substrate binding pocket [chemical binding]; other site 1230587016230 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 1230587016231 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 1230587016232 active site 1230587016233 DNA binding site [nucleotide binding] 1230587016234 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 1230587016235 DNA binding site [nucleotide binding] 1230587016236 hydroperoxidase II; Provisional; Region: katE; PRK11249 1230587016237 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1230587016238 tetramer interface [polypeptide binding]; other site 1230587016239 heme binding pocket [chemical binding]; other site 1230587016240 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1230587016241 domain interactions; other site 1230587016242 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1230587016243 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587016244 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 1230587016245 putative C-terminal domain interface [polypeptide binding]; other site 1230587016246 putative GSH binding site (G-site) [chemical binding]; other site 1230587016247 putative dimer interface [polypeptide binding]; other site 1230587016248 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1230587016249 putative N-terminal domain interface [polypeptide binding]; other site 1230587016250 putative dimer interface [polypeptide binding]; other site 1230587016251 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587016252 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587016253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587016254 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1230587016255 putative effector binding pocket; other site 1230587016256 putative dimerization interface [polypeptide binding]; other site 1230587016257 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 1230587016258 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1230587016259 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587016260 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587016261 Walker A/P-loop; other site 1230587016262 ATP binding site [chemical binding]; other site 1230587016263 Q-loop/lid; other site 1230587016264 ABC transporter signature motif; other site 1230587016265 Walker B; other site 1230587016266 D-loop; other site 1230587016267 H-loop/switch region; other site 1230587016268 TOBE domain; Region: TOBE_2; pfam08402 1230587016269 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1230587016270 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1230587016271 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1230587016272 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1230587016273 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587016274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587016275 dimer interface [polypeptide binding]; other site 1230587016276 conserved gate region; other site 1230587016277 putative PBP binding loops; other site 1230587016278 ABC-ATPase subunit interface; other site 1230587016279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587016280 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587016281 putative PBP binding loops; other site 1230587016282 ABC-ATPase subunit interface; other site 1230587016283 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587016284 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587016285 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1230587016286 oligomeric interface; other site 1230587016287 putative active site [active] 1230587016288 homodimer interface [polypeptide binding]; other site 1230587016289 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587016290 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1230587016291 putative dimerization interface [polypeptide binding]; other site 1230587016292 putative ligand binding site [chemical binding]; other site 1230587016293 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1230587016294 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587016295 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587016296 alpha-galactosidase; Provisional; Region: PRK15076 1230587016297 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1230587016298 NAD binding site [chemical binding]; other site 1230587016299 sugar binding site [chemical binding]; other site 1230587016300 divalent metal binding site [ion binding]; other site 1230587016301 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1230587016302 dimer interface [polypeptide binding]; other site 1230587016303 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 1230587016304 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1230587016305 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587016306 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587016307 dimer interface [polypeptide binding]; other site 1230587016308 conserved gate region; other site 1230587016309 putative PBP binding loops; other site 1230587016310 ABC-ATPase subunit interface; other site 1230587016311 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587016312 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587016313 dimer interface [polypeptide binding]; other site 1230587016314 conserved gate region; other site 1230587016315 putative PBP binding loops; other site 1230587016316 ABC-ATPase subunit interface; other site 1230587016317 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1230587016318 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587016319 Walker A/P-loop; other site 1230587016320 ATP binding site [chemical binding]; other site 1230587016321 Q-loop/lid; other site 1230587016322 ABC transporter signature motif; other site 1230587016323 Walker B; other site 1230587016324 D-loop; other site 1230587016325 H-loop/switch region; other site 1230587016326 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587016327 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587016328 Walker A/P-loop; other site 1230587016329 ATP binding site [chemical binding]; other site 1230587016330 Q-loop/lid; other site 1230587016331 ABC transporter signature motif; other site 1230587016332 Walker B; other site 1230587016333 D-loop; other site 1230587016334 H-loop/switch region; other site 1230587016335 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587016336 alpha-galactosidase; Provisional; Region: PRK15076 1230587016337 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1230587016338 NAD binding site [chemical binding]; other site 1230587016339 sugar binding site [chemical binding]; other site 1230587016340 divalent metal binding site [ion binding]; other site 1230587016341 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1230587016342 dimer interface [polypeptide binding]; other site 1230587016343 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1230587016344 Phenylacetic acid-responsive transcriptional repressor [Transcription]; Region: PaaX; COG3327 1230587016345 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 1230587016346 putative DNA binding site [nucleotide binding]; other site 1230587016347 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1230587016348 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1230587016349 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1230587016350 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1230587016351 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1230587016352 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1230587016353 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1230587016354 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1230587016355 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1230587016356 FAD binding pocket [chemical binding]; other site 1230587016357 FAD binding motif [chemical binding]; other site 1230587016358 phosphate binding motif [ion binding]; other site 1230587016359 beta-alpha-beta structure motif; other site 1230587016360 NAD(p) ribose binding residues [chemical binding]; other site 1230587016361 NAD binding pocket [chemical binding]; other site 1230587016362 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1230587016363 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 1230587016364 catalytic loop [active] 1230587016365 iron binding site [ion binding]; other site 1230587016366 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1230587016367 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1230587016368 substrate binding site [chemical binding]; other site 1230587016369 dimer interface [polypeptide binding]; other site 1230587016370 NADP binding site [chemical binding]; other site 1230587016371 catalytic residues [active] 1230587016372 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 1230587016373 substrate binding site [chemical binding]; other site 1230587016374 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 1230587016375 enoyl-CoA hydratase; Provisional; Region: PRK08140 1230587016376 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 1230587016377 substrate binding site [chemical binding]; other site 1230587016378 oxyanion hole (OAH) forming residues; other site 1230587016379 trimer interface [polypeptide binding]; other site 1230587016380 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1230587016381 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1230587016382 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1230587016383 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1230587016384 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1230587016385 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1230587016386 dimer interface [polypeptide binding]; other site 1230587016387 active site 1230587016388 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587016389 catalytic residues [active] 1230587016390 substrate binding site [chemical binding]; other site 1230587016391 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1230587016392 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1230587016393 NAD(P) binding pocket [chemical binding]; other site 1230587016394 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587016395 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587016396 DNA binding site [nucleotide binding] 1230587016397 domain linker motif; other site 1230587016398 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587016399 dimerization interface [polypeptide binding]; other site 1230587016400 ligand binding site [chemical binding]; other site 1230587016401 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587016402 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587016403 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587016404 dimer interface [polypeptide binding]; other site 1230587016405 conserved gate region; other site 1230587016406 putative PBP binding loops; other site 1230587016407 ABC-ATPase subunit interface; other site 1230587016408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587016409 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587016410 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587016411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587016412 putative PBP binding loops; other site 1230587016413 ABC-ATPase subunit interface; other site 1230587016414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1230587016415 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1230587016416 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587016417 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587016418 Walker A/P-loop; other site 1230587016419 ATP binding site [chemical binding]; other site 1230587016420 Q-loop/lid; other site 1230587016421 ABC transporter signature motif; other site 1230587016422 Walker B; other site 1230587016423 D-loop; other site 1230587016424 H-loop/switch region; other site 1230587016425 TOBE domain; Region: TOBE_2; pfam08402 1230587016426 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 1230587016427 Predicted transcriptional regulator [Transcription]; Region: COG3905 1230587016428 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1230587016429 Cupin; Region: Cupin_6; pfam12852 1230587016430 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587016431 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587016432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587016433 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1230587016434 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 1230587016435 putative substrate translocation pore; other site 1230587016436 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1230587016437 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 1230587016438 Phosphotransferase enzyme family; Region: APH; pfam01636 1230587016439 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 1230587016440 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587016441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587016442 Walker A/P-loop; other site 1230587016443 ATP binding site [chemical binding]; other site 1230587016444 Q-loop/lid; other site 1230587016445 ABC transporter signature motif; other site 1230587016446 Walker B; other site 1230587016447 D-loop; other site 1230587016448 H-loop/switch region; other site 1230587016449 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587016450 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 1230587016451 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587016452 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 1230587016453 TM-ABC transporter signature motif; other site 1230587016454 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1230587016455 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587016456 putative ligand binding site [chemical binding]; other site 1230587016457 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587016458 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587016459 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 1230587016460 thiamine phosphate binding site [chemical binding]; other site 1230587016461 active site 1230587016462 pyrophosphate binding site [ion binding]; other site 1230587016463 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 1230587016464 ThiS interaction site; other site 1230587016465 putative active site [active] 1230587016466 tetramer interface [polypeptide binding]; other site 1230587016467 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1230587016468 thiS-thiF/thiG interaction site; other site 1230587016469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587016470 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1230587016471 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1230587016472 ThiC-associated domain; Region: ThiC-associated; pfam13667 1230587016473 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1230587016474 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1230587016475 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 1230587016476 active site 1230587016477 phosphorylation site [posttranslational modification] 1230587016478 intermolecular recognition site; other site 1230587016479 dimerization interface [polypeptide binding]; other site 1230587016480 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 1230587016481 Walker A motif; other site 1230587016482 ATP binding site [chemical binding]; other site 1230587016483 Walker B motif; other site 1230587016484 arginine finger; other site 1230587016485 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1230587016486 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1230587016487 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 1230587016488 dimer interface [polypeptide binding]; other site 1230587016489 phosphorylation site [posttranslational modification] 1230587016490 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 1230587016491 ATP binding site [chemical binding]; other site 1230587016492 Mg2+ binding site [ion binding]; other site 1230587016493 G-X-G motif; other site 1230587016494 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1230587016495 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1230587016496 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587016497 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 1230587016498 active site 1230587016499 phosphorylation site [posttranslational modification] 1230587016500 intermolecular recognition site; other site 1230587016501 dimerization interface [polypeptide binding]; other site 1230587016502 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 1230587016503 DNA binding residues [nucleotide binding] 1230587016504 dimerization interface [polypeptide binding]; other site 1230587016505 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1230587016506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587016507 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 1230587016508 dimer interface [polypeptide binding]; other site 1230587016509 phosphorylation site [posttranslational modification] 1230587016510 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 1230587016511 ATP binding site [chemical binding]; other site 1230587016512 Mg2+ binding site [ion binding]; other site 1230587016513 G-X-G motif; other site 1230587016514 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587016515 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 1230587016516 active site 1230587016517 phosphorylation site [posttranslational modification] 1230587016518 intermolecular recognition site; other site 1230587016519 dimerization interface [polypeptide binding]; other site 1230587016520 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 1230587016521 dimerization interface [polypeptide binding]; other site 1230587016522 putative DNA binding site [nucleotide binding]; other site 1230587016523 putative Zn2+ binding site [ion binding]; other site 1230587016524 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1230587016525 putative hydrophobic ligand binding site [chemical binding]; other site 1230587016526 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587016527 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1230587016528 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1230587016529 putative ligand binding site [chemical binding]; other site 1230587016530 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 1230587016531 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587016532 TM-ABC transporter signature motif; other site 1230587016533 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 1230587016534 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1230587016535 TM-ABC transporter signature motif; other site 1230587016536 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1230587016537 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1230587016538 Walker A/P-loop; other site 1230587016539 ATP binding site [chemical binding]; other site 1230587016540 Q-loop/lid; other site 1230587016541 ABC transporter signature motif; other site 1230587016542 Walker B; other site 1230587016543 D-loop; other site 1230587016544 H-loop/switch region; other site 1230587016545 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1230587016546 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1230587016547 Walker A/P-loop; other site 1230587016548 ATP binding site [chemical binding]; other site 1230587016549 Q-loop/lid; other site 1230587016550 ABC transporter signature motif; other site 1230587016551 Walker B; other site 1230587016552 D-loop; other site 1230587016553 H-loop/switch region; other site 1230587016554 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1230587016555 ParB-like nuclease domain; Region: ParBc; pfam02195 1230587016556 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1230587016557 MerR family regulatory protein; Region: MerR; pfam00376 1230587016558 DNA binding residues [nucleotide binding] 1230587016559 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 1230587016560 P-loop; other site 1230587016561 Magnesium ion binding site [ion binding]; other site 1230587016562 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 1230587016563 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 1230587016564 Magnesium ion binding site [ion binding]; other site 1230587016565 Predicted membrane protein [Function unknown]; Region: COG2259 1230587016566 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1230587016567 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1230587016568 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1230587016569 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1230587016570 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1230587016571 Predicted outer membrane protein [Function unknown]; Region: COG3652 1230587016572 RNA polymerase sigma factor; Provisional; Region: PRK11922 1230587016573 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587016574 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 1230587016575 DNA binding residues [nucleotide binding] 1230587016576 acylphosphatase; Provisional; Region: PRK14425 1230587016577 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1230587016578 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 1230587016579 dimer interface [polypeptide binding]; other site 1230587016580 active site 1230587016581 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1230587016582 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1230587016583 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1230587016584 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1230587016585 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587016586 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1230587016587 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1230587016588 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1230587016589 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 1230587016590 Moco binding site; other site 1230587016591 metal coordination site [ion binding]; other site 1230587016592 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1230587016593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587016594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587016595 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 1230587016596 putative dimerization interface [polypeptide binding]; other site 1230587016597 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587016598 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1230587016599 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1230587016600 dimer interface [polypeptide binding]; other site 1230587016601 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1230587016602 active site 1230587016603 Fe binding site [ion binding]; other site 1230587016604 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1230587016605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587016606 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 1230587016607 dimerization interface [polypeptide binding]; other site 1230587016608 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587016609 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1230587016610 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1230587016611 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 1230587016612 heterodimer interface [polypeptide binding]; other site 1230587016613 multimer interface [polypeptide binding]; other site 1230587016614 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1230587016615 active site 1230587016616 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1230587016617 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 1230587016618 heterodimer interface [polypeptide binding]; other site 1230587016619 active site 1230587016620 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 1230587016621 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1230587016622 tetramer interface [polypeptide binding]; other site 1230587016623 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 1230587016624 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1230587016625 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1230587016626 active site 1230587016627 catalytic site [active] 1230587016628 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587016629 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 1230587016630 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1230587016631 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1230587016632 active site 1230587016633 non-prolyl cis peptide bond; other site 1230587016634 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1230587016635 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587016636 dimer interface [polypeptide binding]; other site 1230587016637 conserved gate region; other site 1230587016638 putative PBP binding loops; other site 1230587016639 ABC-ATPase subunit interface; other site 1230587016640 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1230587016641 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 1230587016642 substrate binding pocket [chemical binding]; other site 1230587016643 membrane-bound complex binding site; other site 1230587016644 hinge residues; other site 1230587016645 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1230587016646 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1230587016647 Walker A/P-loop; other site 1230587016648 ATP binding site [chemical binding]; other site 1230587016649 Q-loop/lid; other site 1230587016650 ABC transporter signature motif; other site 1230587016651 Walker B; other site 1230587016652 D-loop; other site 1230587016653 H-loop/switch region; other site 1230587016654 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1230587016655 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587016656 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 1230587016657 TM-ABC transporter signature motif; other site 1230587016658 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1230587016659 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 1230587016660 TM-ABC transporter signature motif; other site 1230587016661 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587016662 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1230587016663 Walker A/P-loop; other site 1230587016664 ATP binding site [chemical binding]; other site 1230587016665 Q-loop/lid; other site 1230587016666 ABC transporter signature motif; other site 1230587016667 Walker B; other site 1230587016668 D-loop; other site 1230587016669 H-loop/switch region; other site 1230587016670 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1230587016671 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1230587016672 Walker A/P-loop; other site 1230587016673 ATP binding site [chemical binding]; other site 1230587016674 Q-loop/lid; other site 1230587016675 ABC transporter signature motif; other site 1230587016676 Walker B; other site 1230587016677 D-loop; other site 1230587016678 H-loop/switch region; other site 1230587016679 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1230587016680 CHASE2 domain; Region: CHASE2; pfam05226 1230587016681 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587016682 cyclase homology domain; Region: CHD; cd07302 1230587016683 nucleotidyl binding site; other site 1230587016684 metal binding site [ion binding]; metal-binding site 1230587016685 dimer interface [polypeptide binding]; other site 1230587016686 FecR protein; Region: FecR; pfam04773 1230587016687 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 1230587016688 TPR motif; other site 1230587016689 TPR repeat; Region: TPR_11; pfam13414 1230587016690 binding surface 1230587016691 TPR repeat; Region: TPR_11; pfam13414 1230587016692 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 1230587016693 binding surface 1230587016694 TPR motif; other site 1230587016695 TPR repeat; Region: TPR_11; pfam13414 1230587016696 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 1230587016697 binding surface 1230587016698 TPR motif; other site 1230587016699 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1230587016700 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587016701 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587016702 DNA-binding site [nucleotide binding]; DNA binding site 1230587016703 FCD domain; Region: FCD; pfam07729 1230587016704 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1230587016705 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1230587016706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1230587016707 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1230587016708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1230587016709 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1230587016710 dihydroxyacetone kinase; Provisional; Region: PRK14479 1230587016711 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1230587016712 DAK2 domain; Region: Dak2; pfam02734 1230587016713 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 1230587016714 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 1230587016715 trimer interface [polypeptide binding]; other site 1230587016716 active site 1230587016717 substrate binding site [chemical binding]; other site 1230587016718 CoA binding site [chemical binding]; other site 1230587016719 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1230587016720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587016721 Walker A/P-loop; other site 1230587016722 ATP binding site [chemical binding]; other site 1230587016723 Q-loop/lid; other site 1230587016724 ABC transporter signature motif; other site 1230587016725 Walker B; other site 1230587016726 D-loop; other site 1230587016727 H-loop/switch region; other site 1230587016728 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1230587016729 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587016730 Walker A/P-loop; other site 1230587016731 ATP binding site [chemical binding]; other site 1230587016732 Q-loop/lid; other site 1230587016733 ABC transporter signature motif; other site 1230587016734 Walker B; other site 1230587016735 D-loop; other site 1230587016736 H-loop/switch region; other site 1230587016737 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587016738 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 1230587016739 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 1230587016740 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 1230587016741 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1230587016742 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 1230587016743 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587016744 DNA-binding site [nucleotide binding]; DNA binding site 1230587016745 UTRA domain; Region: UTRA; pfam07702 1230587016746 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1230587016747 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 1230587016748 active site 1230587016749 substrate binding site [chemical binding]; other site 1230587016750 coenzyme B12 binding site [chemical binding]; other site 1230587016751 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 1230587016752 B12 binding site [chemical binding]; other site 1230587016753 cobalt ligand [ion binding]; other site 1230587016754 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1230587016755 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1230587016756 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1230587016757 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1230587016758 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 1230587016759 carboxyltransferase (CT) interaction site; other site 1230587016760 biotinylation site [posttranslational modification]; other site 1230587016761 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1230587016762 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1230587016763 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1230587016764 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1230587016765 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 1230587016766 non-specific DNA binding site [nucleotide binding]; other site 1230587016767 salt bridge; other site 1230587016768 sequence-specific DNA binding site [nucleotide binding]; other site 1230587016769 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1230587016770 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1230587016771 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1230587016772 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1230587016773 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1230587016774 substrate binding pocket [chemical binding]; other site 1230587016775 FAD binding site [chemical binding]; other site 1230587016776 catalytic base [active] 1230587016777 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1230587016778 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 1230587016779 substrate binding site [chemical binding]; other site 1230587016780 oxyanion hole (OAH) forming residues; other site 1230587016781 trimer interface [polypeptide binding]; other site 1230587016782 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1230587016783 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1230587016784 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1230587016785 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 1230587016786 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587016787 NAD(P) binding site [chemical binding]; other site 1230587016788 active site 1230587016789 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1230587016790 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1230587016791 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1230587016792 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1230587016793 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1230587016794 active site 1230587016795 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1230587016796 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 1230587016797 motif II; other site 1230587016798 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 1230587016799 glutamine synthetase; Region: PLN02284 1230587016800 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1230587016801 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1230587016802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1230587016803 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1230587016804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1230587016805 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587016806 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587016807 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587016808 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 1230587016809 active site 1230587016810 phosphorylation site [posttranslational modification] 1230587016811 intermolecular recognition site; other site 1230587016812 dimerization interface [polypeptide binding]; other site 1230587016813 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 1230587016814 DNA binding site [nucleotide binding] 1230587016815 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1230587016816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587016817 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 1230587016818 dimer interface [polypeptide binding]; other site 1230587016819 phosphorylation site [posttranslational modification] 1230587016820 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 1230587016821 ATP binding site [chemical binding]; other site 1230587016822 Mg2+ binding site [ion binding]; other site 1230587016823 G-X-G motif; other site 1230587016824 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587016825 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 1230587016826 putative ligand binding site [chemical binding]; other site 1230587016827 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587016828 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 1230587016829 TM-ABC transporter signature motif; other site 1230587016830 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587016831 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587016832 Walker A/P-loop; other site 1230587016833 ATP binding site [chemical binding]; other site 1230587016834 Q-loop/lid; other site 1230587016835 ABC transporter signature motif; other site 1230587016836 Walker B; other site 1230587016837 D-loop; other site 1230587016838 H-loop/switch region; other site 1230587016839 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587016840 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587016841 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587016842 DNA binding site [nucleotide binding] 1230587016843 domain linker motif; other site 1230587016844 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1230587016845 dimerization interface [polypeptide binding]; other site 1230587016846 ligand binding site [chemical binding]; other site 1230587016847 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1230587016848 EamA-like transporter family; Region: EamA; pfam00892 1230587016849 EamA-like transporter family; Region: EamA; pfam00892 1230587016850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587016851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587016852 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 1230587016853 dimerization interface [polypeptide binding]; other site 1230587016854 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587016855 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 1230587016856 TM-ABC transporter signature motif; other site 1230587016857 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587016858 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587016859 Walker A/P-loop; other site 1230587016860 ATP binding site [chemical binding]; other site 1230587016861 Q-loop/lid; other site 1230587016862 ABC transporter signature motif; other site 1230587016863 Walker B; other site 1230587016864 D-loop; other site 1230587016865 H-loop/switch region; other site 1230587016866 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587016867 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587016868 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1230587016869 putative ligand binding site [chemical binding]; other site 1230587016870 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 1230587016871 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 1230587016872 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1230587016873 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1230587016874 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1230587016875 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1230587016876 active site 1230587016877 DNA binding site [nucleotide binding] 1230587016878 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1230587016879 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 1230587016880 DNA binding site [nucleotide binding] 1230587016881 active site 1230587016882 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587016883 cyclase homology domain; Region: CHD; cd07302 1230587016884 nucleotidyl binding site; other site 1230587016885 metal binding site [ion binding]; metal-binding site 1230587016886 dimer interface [polypeptide binding]; other site 1230587016887 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1230587016888 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 1230587016889 substrate binding pocket [chemical binding]; other site 1230587016890 membrane-bound complex binding site; other site 1230587016891 hinge residues; other site 1230587016892 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587016893 EamA-like transporter family; Region: EamA; pfam00892 1230587016894 glycogen synthase; Provisional; Region: glgA; PRK00654 1230587016895 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1230587016896 ADP-binding pocket [chemical binding]; other site 1230587016897 homodimer interface [polypeptide binding]; other site 1230587016898 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1230587016899 substrate binding site [chemical binding]; other site 1230587016900 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587016901 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 1230587016902 DNA binding site [nucleotide binding] 1230587016903 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587016904 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1230587016905 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 1230587016906 TPR motif; other site 1230587016907 binding surface 1230587016908 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 1230587016909 binding surface 1230587016910 TPR motif; other site 1230587016911 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1230587016912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587016913 NAD(P) binding site [chemical binding]; other site 1230587016914 active site 1230587016915 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1230587016916 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1230587016917 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587016918 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587016919 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1230587016920 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 1230587016921 putative substrate translocation pore; other site 1230587016922 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 1230587016923 putative metal binding site [ion binding]; other site 1230587016924 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 1230587016925 putative dimer interface [polypeptide binding]; other site 1230587016926 Uncharacterized conserved protein [Function unknown]; Region: COG5642 1230587016927 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1230587016928 Uncharacterized conserved protein [Function unknown]; Region: COG5654 1230587016929 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587016930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587016931 active site 1230587016932 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 1230587016933 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1230587016934 NADP binding site [chemical binding]; other site 1230587016935 homodimer interface [polypeptide binding]; other site 1230587016936 active site 1230587016937 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1230587016938 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 1230587016939 putative catalytic site [active] 1230587016940 putative phosphate binding site [ion binding]; other site 1230587016941 active site 1230587016942 metal binding site A [ion binding]; metal-binding site 1230587016943 DNA binding site [nucleotide binding] 1230587016944 putative AP binding site [nucleotide binding]; other site 1230587016945 putative metal binding site B [ion binding]; other site 1230587016946 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1230587016947 TPR repeat; Region: TPR_11; pfam13414 1230587016948 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 1230587016949 binding surface 1230587016950 TPR motif; other site 1230587016951 TPR repeat; Region: TPR_11; pfam13414 1230587016952 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 1230587016953 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1230587016954 putative DNA binding site [nucleotide binding]; other site 1230587016955 putative homodimer interface [polypeptide binding]; other site 1230587016956 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1230587016957 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1230587016958 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1230587016959 active site 1230587016960 DNA binding site [nucleotide binding] 1230587016961 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1230587016962 DNA binding site [nucleotide binding] 1230587016963 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1230587016964 nucleotide binding site [chemical binding]; other site 1230587016965 hypothetical protein; Provisional; Region: PRK11171 1230587016966 Cupin domain; Region: Cupin_2; pfam07883 1230587016967 Cupin domain; Region: Cupin_2; pfam07883 1230587016968 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1230587016969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587016970 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 1230587016971 putative dimerization interface [polypeptide binding]; other site 1230587016972 putative substrate binding pocket [chemical binding]; other site 1230587016973 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1230587016974 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587016975 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587016976 glyoxylate carboligase; Provisional; Region: PRK11269 1230587016977 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587016978 PYR/PP interface [polypeptide binding]; other site 1230587016979 dimer interface [polypeptide binding]; other site 1230587016980 TPP binding site [chemical binding]; other site 1230587016981 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587016982 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 1230587016983 TPP-binding site [chemical binding]; other site 1230587016984 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1230587016985 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1230587016986 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1230587016987 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1230587016988 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1230587016989 MOFRL family; Region: MOFRL; pfam05161 1230587016990 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1230587016991 ureidoglycolate hydrolase; Provisional; Region: PRK13395 1230587016992 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 1230587016993 Uncharacterized conserved protein [Function unknown]; Region: COG3506 1230587016994 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587016995 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587016996 DNA binding site [nucleotide binding] 1230587016997 domain linker motif; other site 1230587016998 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587016999 dimerization interface [polypeptide binding]; other site 1230587017000 ligand binding site [chemical binding]; other site 1230587017001 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587017002 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587017003 Walker A/P-loop; other site 1230587017004 ATP binding site [chemical binding]; other site 1230587017005 Q-loop/lid; other site 1230587017006 ABC transporter signature motif; other site 1230587017007 Walker B; other site 1230587017008 D-loop; other site 1230587017009 H-loop/switch region; other site 1230587017010 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587017011 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 1230587017012 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587017013 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 1230587017014 TM-ABC transporter signature motif; other site 1230587017015 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587017016 Periplasmic binding domain of two-component sensor kinase signaling systems; Region: PBP1_sensor_kinase_like; cd06308 1230587017017 putative ligand binding site [chemical binding]; other site 1230587017018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1230587017019 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1230587017020 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1230587017021 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1230587017022 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587017023 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587017024 DNA binding site [nucleotide binding] 1230587017025 domain linker motif; other site 1230587017026 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1230587017027 putative dimerization interface [polypeptide binding]; other site 1230587017028 putative ligand binding site [chemical binding]; other site 1230587017029 putative aldolase; Validated; Region: PRK08130 1230587017030 intersubunit interface [polypeptide binding]; other site 1230587017031 active site 1230587017032 Zn2+ binding site [ion binding]; other site 1230587017033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1230587017034 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1230587017035 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1230587017036 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587017037 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587017038 DNA-binding site [nucleotide binding]; DNA binding site 1230587017039 FCD domain; Region: FCD; pfam07729 1230587017040 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587017041 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1230587017042 putative NAD(P) binding site [chemical binding]; other site 1230587017043 active site 1230587017044 putative substrate binding site [chemical binding]; other site 1230587017045 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587017046 classical (c) SDRs; Region: SDR_c; cd05233 1230587017047 NAD(P) binding site [chemical binding]; other site 1230587017048 active site 1230587017049 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587017050 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587017051 Walker A/P-loop; other site 1230587017052 ATP binding site [chemical binding]; other site 1230587017053 Q-loop/lid; other site 1230587017054 ABC transporter signature motif; other site 1230587017055 Walker B; other site 1230587017056 D-loop; other site 1230587017057 H-loop/switch region; other site 1230587017058 TOBE domain; Region: TOBE; pfam03459 1230587017059 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587017060 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587017061 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587017062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017063 dimer interface [polypeptide binding]; other site 1230587017064 conserved gate region; other site 1230587017065 putative PBP binding loops; other site 1230587017066 ABC-ATPase subunit interface; other site 1230587017067 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587017068 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017069 dimer interface [polypeptide binding]; other site 1230587017070 conserved gate region; other site 1230587017071 putative PBP binding loops; other site 1230587017072 ABC-ATPase subunit interface; other site 1230587017073 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 1230587017074 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587017075 active site 1230587017076 catalytic tetrad [active] 1230587017077 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1230587017078 dimer interface [polypeptide binding]; other site 1230587017079 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1230587017080 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1230587017081 active site 1230587017082 dimer interface [polypeptide binding]; other site 1230587017083 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1230587017084 Ligand Binding Site [chemical binding]; other site 1230587017085 Molecular Tunnel; other site 1230587017086 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1230587017087 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1230587017088 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1230587017089 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 1230587017090 acyl-activating enzyme (AAE) consensus motif; other site 1230587017091 putative AMP binding site [chemical binding]; other site 1230587017092 putative active site [active] 1230587017093 putative CoA binding site [chemical binding]; other site 1230587017094 NAD synthetase; Reviewed; Region: nadE; PRK00876 1230587017095 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 1230587017096 homodimer interface [polypeptide binding]; other site 1230587017097 NAD binding pocket [chemical binding]; other site 1230587017098 ATP binding pocket [chemical binding]; other site 1230587017099 Mg binding site [ion binding]; other site 1230587017100 active-site loop [active] 1230587017101 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 1230587017102 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587017103 active site 1230587017104 catalytic tetrad [active] 1230587017105 septum formation inhibitor; Reviewed; Region: minC; PRK05177 1230587017106 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1230587017107 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1230587017108 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 1230587017109 Switch I; other site 1230587017110 Switch II; other site 1230587017111 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1230587017112 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587017113 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 1230587017114 active site 1230587017115 phosphorylation site [posttranslational modification] 1230587017116 intermolecular recognition site; other site 1230587017117 dimerization interface [polypeptide binding]; other site 1230587017118 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 1230587017119 DNA binding residues [nucleotide binding] 1230587017120 dimerization interface [polypeptide binding]; other site 1230587017121 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1230587017122 Histidine kinase; Region: HisKA_3; pfam07730 1230587017123 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 1230587017124 ATP binding site [chemical binding]; other site 1230587017125 Mg2+ binding site [ion binding]; other site 1230587017126 G-X-G motif; other site 1230587017127 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 1230587017128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587017129 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587017130 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1230587017131 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1230587017132 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 1230587017133 S-adenosylmethionine binding site [chemical binding]; other site 1230587017134 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1230587017135 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587017136 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1230587017137 inhibitor site; inhibition site 1230587017138 active site 1230587017139 dimer interface [polypeptide binding]; other site 1230587017140 catalytic residue [active] 1230587017141 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1230587017142 Chain length determinant protein; Region: Wzz; cl15801 1230587017143 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1230587017144 O-Antigen ligase; Region: Wzy_C; pfam04932 1230587017145 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1230587017146 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 1230587017147 putative active site [active] 1230587017148 putative metal binding site [ion binding]; other site 1230587017149 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587017150 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 1230587017151 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587017152 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_6; cd04955 1230587017153 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 1230587017154 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1230587017155 active site 1230587017156 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1230587017157 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1230587017158 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1230587017159 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587017160 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587017161 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 1230587017162 active site 1230587017163 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587017164 ornithine cyclodeaminase; Validated; Region: PRK07589 1230587017165 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1230587017166 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587017167 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1230587017168 putative DNA binding site [nucleotide binding]; other site 1230587017169 putative Zn2+ binding site [ion binding]; other site 1230587017170 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587017171 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 1230587017172 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1230587017173 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 1230587017174 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1230587017175 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 1230587017176 Subunit I/III interface [polypeptide binding]; other site 1230587017177 Subunit III/IV interface [polypeptide binding]; other site 1230587017178 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1230587017179 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1230587017180 D-pathway; other site 1230587017181 Putative ubiquinol binding site [chemical binding]; other site 1230587017182 Low-spin heme (heme b) binding site [chemical binding]; other site 1230587017183 Putative water exit pathway; other site 1230587017184 Binuclear center (heme o3/CuB) [ion binding]; other site 1230587017185 K-pathway; other site 1230587017186 Putative proton exit pathway; other site 1230587017187 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1230587017188 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1230587017189 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1230587017190 metabolite-proton symporter; Region: 2A0106; TIGR00883 1230587017191 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 1230587017192 RNA polymerase sigma factor; Provisional; Region: PRK12547 1230587017193 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1230587017194 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 1230587017195 DNA binding residues [nucleotide binding] 1230587017196 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1230587017197 FOG: CBS domain [General function prediction only]; Region: COG0517 1230587017198 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_9; cd04622 1230587017199 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1230587017200 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1230587017201 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1230587017202 putative active site [active] 1230587017203 putative NTP binding site [chemical binding]; other site 1230587017204 putative nucleic acid binding site [nucleotide binding]; other site 1230587017205 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1230587017206 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587017207 classical (c) SDRs; Region: SDR_c; cd05233 1230587017208 NAD(P) binding site [chemical binding]; other site 1230587017209 active site 1230587017210 Predicted small integral membrane protein [Function unknown]; Region: COG5478 1230587017211 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1230587017212 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1230587017213 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1230587017214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 1230587017215 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1230587017216 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1230587017217 Walker A/P-loop; other site 1230587017218 ATP binding site [chemical binding]; other site 1230587017219 Q-loop/lid; other site 1230587017220 ABC transporter signature motif; other site 1230587017221 Walker B; other site 1230587017222 D-loop; other site 1230587017223 H-loop/switch region; other site 1230587017224 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1230587017225 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587017226 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587017227 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1230587017228 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587017229 DNA-binding site [nucleotide binding]; DNA binding site 1230587017230 UTRA domain; Region: UTRA; pfam07702 1230587017231 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1230587017232 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1230587017233 NAD binding site [chemical binding]; other site 1230587017234 sugar binding site [chemical binding]; other site 1230587017235 divalent metal binding site [ion binding]; other site 1230587017236 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1230587017237 dimer interface [polypeptide binding]; other site 1230587017238 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587017239 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 1230587017240 substrate binding site [chemical binding]; other site 1230587017241 ATP binding site [chemical binding]; other site 1230587017242 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587017243 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587017244 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587017245 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587017246 Walker A/P-loop; other site 1230587017247 ATP binding site [chemical binding]; other site 1230587017248 Q-loop/lid; other site 1230587017249 ABC transporter signature motif; other site 1230587017250 Walker B; other site 1230587017251 D-loop; other site 1230587017252 H-loop/switch region; other site 1230587017253 TOBE domain; Region: TOBE_2; pfam08402 1230587017254 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017255 dimer interface [polypeptide binding]; other site 1230587017256 conserved gate region; other site 1230587017257 putative PBP binding loops; other site 1230587017258 ABC-ATPase subunit interface; other site 1230587017259 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587017260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017261 dimer interface [polypeptide binding]; other site 1230587017262 conserved gate region; other site 1230587017263 putative PBP binding loops; other site 1230587017264 ABC-ATPase subunit interface; other site 1230587017265 Uncharacterized conserved protein [Function unknown]; Region: COG1415 1230587017266 Not1 N-terminal domain, CCR4-Not complex component; Region: Not3; pfam04065 1230587017267 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1230587017268 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 1230587017269 glutathione s-transferase; Provisional; Region: PTZ00057 1230587017270 GSH binding site (G-site) [chemical binding]; other site 1230587017271 C-terminal domain interface [polypeptide binding]; other site 1230587017272 dimer interface [polypeptide binding]; other site 1230587017273 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 1230587017274 N-terminal domain interface [polypeptide binding]; other site 1230587017275 substrate binding pocket (H-site) [chemical binding]; other site 1230587017276 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1230587017277 Fe-S cluster binding site [ion binding]; other site 1230587017278 active site 1230587017279 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1230587017280 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1230587017281 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1230587017282 catalytic site [active] 1230587017283 active site 1230587017284 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1230587017285 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1230587017286 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1230587017287 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1230587017288 active site 1230587017289 catalytic site [active] 1230587017290 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1230587017291 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 1230587017292 active site 1230587017293 DNA binding site [nucleotide binding] 1230587017294 Int/Topo IB signature motif; other site 1230587017295 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1230587017296 BON domain; Region: BON; pfam04972 1230587017297 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1230587017298 FOG: CBS domain [General function prediction only]; Region: COG0517 1230587017299 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_9; cd04622 1230587017300 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 1230587017301 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1230587017302 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 1230587017303 S-adenosylmethionine binding site [chemical binding]; other site 1230587017304 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1230587017305 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 1230587017306 putative ligand binding residues [chemical binding]; other site 1230587017307 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1230587017308 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 1230587017309 ABC-ATPase subunit interface; other site 1230587017310 dimer interface [polypeptide binding]; other site 1230587017311 putative PBP binding regions; other site 1230587017312 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1230587017313 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1230587017314 Walker A/P-loop; other site 1230587017315 ATP binding site [chemical binding]; other site 1230587017316 Q-loop/lid; other site 1230587017317 ABC transporter signature motif; other site 1230587017318 Walker B; other site 1230587017319 D-loop; other site 1230587017320 H-loop/switch region; other site 1230587017321 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1230587017322 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1230587017323 putative trimer interface [polypeptide binding]; other site 1230587017324 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1230587017325 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1230587017326 trimer interface [polypeptide binding]; other site 1230587017327 active site 1230587017328 substrate binding site [chemical binding]; other site 1230587017329 putative CoA binding site [chemical binding]; other site 1230587017330 CoA binding site [chemical binding]; other site 1230587017331 extended (e) SDRs; Region: SDR_e; cd08946 1230587017332 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1230587017333 NAD(P) binding site [chemical binding]; other site 1230587017334 active site 1230587017335 substrate binding site [chemical binding]; other site 1230587017336 Cephalosporin hydroxylase [Defense mechanisms]; Region: CmcI; COG3510 1230587017337 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1230587017338 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1230587017339 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1230587017340 S-adenosylmethionine binding site [chemical binding]; other site 1230587017341 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1230587017342 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 1230587017343 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 1230587017344 NAD binding site [chemical binding]; other site 1230587017345 homotetramer interface [polypeptide binding]; other site 1230587017346 homodimer interface [polypeptide binding]; other site 1230587017347 substrate binding site [chemical binding]; other site 1230587017348 active site 1230587017349 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 1230587017350 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 1230587017351 substrate binding site; other site 1230587017352 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1230587017353 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587017354 Berberine and berberine like; Region: BBE; pfam08031 1230587017355 tyrosine decarboxylase; Region: PLN02880 1230587017356 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1230587017357 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587017358 catalytic residue [active] 1230587017359 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1230587017360 Ca2+ binding site [ion binding]; other site 1230587017361 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1230587017362 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1230587017363 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 1230587017364 S-adenosylmethionine binding site [chemical binding]; other site 1230587017365 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 1230587017366 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1230587017367 putative DNA binding site [nucleotide binding]; other site 1230587017368 putative homodimer interface [polypeptide binding]; other site 1230587017369 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 1230587017370 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1230587017371 putative DNA binding site [nucleotide binding]; other site 1230587017372 putative homodimer interface [polypeptide binding]; other site 1230587017373 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1230587017374 catalytic triad [active] 1230587017375 conserved cis-peptide bond; other site 1230587017376 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1230587017377 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 1230587017378 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1230587017379 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1230587017380 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1230587017381 Helix-turn-helix domain; Region: HTH_28; pfam13518 1230587017382 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587017383 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587017384 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 1230587017385 active site 1230587017386 phosphorylation site [posttranslational modification] 1230587017387 intermolecular recognition site; other site 1230587017388 dimerization interface [polypeptide binding]; other site 1230587017389 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1230587017390 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 1230587017391 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 1230587017392 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1230587017393 DNA binding site [nucleotide binding] 1230587017394 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587017395 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587017396 Walker A/P-loop; other site 1230587017397 ATP binding site [chemical binding]; other site 1230587017398 Q-loop/lid; other site 1230587017399 ABC transporter signature motif; other site 1230587017400 Walker B; other site 1230587017401 D-loop; other site 1230587017402 H-loop/switch region; other site 1230587017403 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 1230587017404 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587017405 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 1230587017406 TM-ABC transporter signature motif; other site 1230587017407 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1230587017408 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 1230587017409 putative ligand binding site [chemical binding]; other site 1230587017410 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1230587017411 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1230587017412 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1230587017413 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1230587017414 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1230587017415 PAS domain S-box; Region: sensory_box; TIGR00229 1230587017416 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587017417 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587017418 metal binding site [ion binding]; metal-binding site 1230587017419 active site 1230587017420 I-site; other site 1230587017421 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 1230587017422 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587017423 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587017424 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587017425 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587017426 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587017427 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1230587017428 putative dimerization interface [polypeptide binding]; other site 1230587017429 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1230587017430 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 1230587017431 putative ligand binding site [chemical binding]; other site 1230587017432 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587017433 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587017434 Walker A/P-loop; other site 1230587017435 ATP binding site [chemical binding]; other site 1230587017436 Q-loop/lid; other site 1230587017437 ABC transporter signature motif; other site 1230587017438 Walker B; other site 1230587017439 D-loop; other site 1230587017440 H-loop/switch region; other site 1230587017441 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587017442 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587017443 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 1230587017444 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 1230587017445 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587017446 TM-ABC transporter signature motif; other site 1230587017447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1230587017448 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1230587017449 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1230587017450 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587017451 NAD(P) binding site [chemical binding]; other site 1230587017452 catalytic residues [active] 1230587017453 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1230587017454 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1230587017455 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1230587017456 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1230587017457 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1230587017458 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1230587017459 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1230587017460 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1230587017461 EamA-like transporter family; Region: EamA; pfam00892 1230587017462 YtkA-like; Region: YtkA; pfam13115 1230587017463 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1230587017464 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1230587017465 helicase 45; Provisional; Region: PTZ00424 1230587017466 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 1230587017467 ATP binding site [chemical binding]; other site 1230587017468 Mg++ binding site [ion binding]; other site 1230587017469 motif III; other site 1230587017470 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 1230587017471 nucleotide binding region [chemical binding]; other site 1230587017472 ATP-binding site [chemical binding]; other site 1230587017473 Protein required for attachment to host cells [Cell motility and secretion]; Region: COG5622 1230587017474 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1230587017475 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587017476 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1230587017477 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 1230587017478 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1230587017479 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1230587017480 active site 1230587017481 catalytic site [active] 1230587017482 tetramer interface [polypeptide binding]; other site 1230587017483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1230587017484 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1230587017485 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1230587017486 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 1230587017487 active site 1230587017488 homotetramer interface [polypeptide binding]; other site 1230587017489 short chain dehydrogenase; Provisional; Region: PRK06500 1230587017490 classical (c) SDRs; Region: SDR_c; cd05233 1230587017491 NAD(P) binding site [chemical binding]; other site 1230587017492 active site 1230587017493 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587017494 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587017495 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 1230587017496 putative effector binding pocket; other site 1230587017497 dimerization interface [polypeptide binding]; other site 1230587017498 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1230587017499 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 1230587017500 active site 1230587017501 phosphorylation site [posttranslational modification] 1230587017502 intermolecular recognition site; other site 1230587017503 dimerization interface [polypeptide binding]; other site 1230587017504 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 1230587017505 DNA binding residues [nucleotide binding] 1230587017506 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 1230587017507 active site 1230587017508 phosphorylation site [posttranslational modification] 1230587017509 intermolecular recognition site; other site 1230587017510 dimerization interface [polypeptide binding]; other site 1230587017511 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 1230587017512 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 1230587017513 PAS fold; Region: PAS_3; pfam08447 1230587017514 putative active site [active] 1230587017515 heme pocket [chemical binding]; other site 1230587017516 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 1230587017517 PAS domain; Region: PAS_9; pfam13426 1230587017518 putative active site [active] 1230587017519 heme pocket [chemical binding]; other site 1230587017520 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 1230587017521 PAS fold; Region: PAS_3; pfam08447 1230587017522 putative active site [active] 1230587017523 heme pocket [chemical binding]; other site 1230587017524 PAS fold; Region: PAS_3; pfam08447 1230587017525 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 1230587017526 putative active site [active] 1230587017527 heme pocket [chemical binding]; other site 1230587017528 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 1230587017529 ATP binding site [chemical binding]; other site 1230587017530 Mg2+ binding site [ion binding]; other site 1230587017531 G-X-G motif; other site 1230587017532 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1230587017533 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1230587017534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587017535 NAD(P) binding site [chemical binding]; other site 1230587017536 active site 1230587017537 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1230587017538 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1230587017539 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1230587017540 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1230587017541 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587017542 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587017543 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587017544 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1230587017545 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587017546 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 1230587017547 phosphate binding site [ion binding]; other site 1230587017548 glucose-6-phosphate isomerase; Provisional; Region: PRK04190 1230587017549 Glucose-6-phosphate isomerase (GPI); Region: GPI; pfam06560 1230587017550 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_9; cd06318 1230587017551 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587017552 putative ligand binding site [chemical binding]; other site 1230587017553 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587017554 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587017555 Walker A/P-loop; other site 1230587017556 ATP binding site [chemical binding]; other site 1230587017557 Q-loop/lid; other site 1230587017558 ABC transporter signature motif; other site 1230587017559 Walker B; other site 1230587017560 D-loop; other site 1230587017561 H-loop/switch region; other site 1230587017562 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587017563 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587017564 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 1230587017565 TM-ABC transporter signature motif; other site 1230587017566 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587017567 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 1230587017568 putative NAD(P) binding site [chemical binding]; other site 1230587017569 catalytic Zn binding site [ion binding]; other site 1230587017570 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1230587017571 Carbohydrate kinase and ribulose-phosphate 3-epimerase fusion proteins-like; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CarbK-RPE_like; cd07783 1230587017572 N- and C-terminal domain interface [polypeptide binding]; other site 1230587017573 active site 1230587017574 MgATP binding site [chemical binding]; other site 1230587017575 catalytic site [active] 1230587017576 metal binding site [ion binding]; metal-binding site 1230587017577 putative carbohydrate binding site [chemical binding]; other site 1230587017578 putative homodimer interface [polypeptide binding]; other site 1230587017579 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587017580 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1230587017581 DNA binding residues [nucleotide binding] 1230587017582 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587017583 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1230587017584 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1230587017585 active site 1230587017586 substrate binding site [chemical binding]; other site 1230587017587 FMN binding site [chemical binding]; other site 1230587017588 putative catalytic residues [active] 1230587017589 guanine deaminase; Provisional; Region: PRK09228 1230587017590 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 1230587017591 active site 1230587017592 Predicted membrane protein [Function unknown]; Region: COG3748 1230587017593 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1230587017594 Cytochrome c; Region: Cytochrom_C; pfam00034 1230587017595 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587017596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587017597 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1230587017598 dimerization interface [polypeptide binding]; other site 1230587017599 substrate binding pocket [chemical binding]; other site 1230587017600 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 1230587017601 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587017602 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587017603 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 1230587017604 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 1230587017605 catalytic loop [active] 1230587017606 iron binding site [ion binding]; other site 1230587017607 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587017608 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1230587017609 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1230587017610 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 1230587017611 NAD binding site [chemical binding]; other site 1230587017612 homotetramer interface [polypeptide binding]; other site 1230587017613 homodimer interface [polypeptide binding]; other site 1230587017614 substrate binding site [chemical binding]; other site 1230587017615 active site 1230587017616 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1230587017617 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1230587017618 N- and C-terminal domain interface [polypeptide binding]; other site 1230587017619 active site 1230587017620 MgATP binding site [chemical binding]; other site 1230587017621 catalytic site [active] 1230587017622 metal binding site [ion binding]; metal-binding site 1230587017623 glycerol binding site [chemical binding]; other site 1230587017624 homotetramer interface [polypeptide binding]; other site 1230587017625 homodimer interface [polypeptide binding]; other site 1230587017626 FBP binding site [chemical binding]; other site 1230587017627 protein IIAGlc interface [polypeptide binding]; other site 1230587017628 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 1230587017629 dimerization interface [polypeptide binding]; other site 1230587017630 putative DNA binding site [nucleotide binding]; other site 1230587017631 putative Zn2+ binding site [ion binding]; other site 1230587017632 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1230587017633 putative hydrophobic ligand binding site [chemical binding]; other site 1230587017634 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1230587017635 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1230587017636 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1230587017637 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1230587017638 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 1230587017639 active site 1230587017640 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1230587017641 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1230587017642 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 1230587017643 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 1230587017644 microcin B17 transporter; Reviewed; Region: PRK11098 1230587017645 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 1230587017646 NodB motif; other site 1230587017647 putative active site [active] 1230587017648 putative catalytic site [active] 1230587017649 Predicted membrane protein [Function unknown]; Region: COG4094 1230587017650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1230587017651 GTP-binding protein Der; Reviewed; Region: PRK00093 1230587017652 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1230587017653 G1 box; other site 1230587017654 GTP/Mg2+ binding site [chemical binding]; other site 1230587017655 Switch I region; other site 1230587017656 G2 box; other site 1230587017657 Switch II region; other site 1230587017658 G3 box; other site 1230587017659 G4 box; other site 1230587017660 G5 box; other site 1230587017661 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1230587017662 G1 box; other site 1230587017663 GTP/Mg2+ binding site [chemical binding]; other site 1230587017664 Switch I region; other site 1230587017665 G2 box; other site 1230587017666 G3 box; other site 1230587017667 Switch II region; other site 1230587017668 G4 box; other site 1230587017669 G5 box; other site 1230587017670 Predicted transcriptional regulator [Transcription]; Region: COG1959 1230587017671 Transcriptional regulator; Region: Rrf2; pfam02082 1230587017672 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1230587017673 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1230587017674 active site 1230587017675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1230587017676 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1230587017677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1230587017678 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1230587017679 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1230587017680 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1230587017681 dimer interface [polypeptide binding]; other site 1230587017682 active site residues [active] 1230587017683 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1230587017684 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1230587017685 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 1230587017686 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 1230587017687 nudix motif; other site 1230587017688 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 1230587017689 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 1230587017690 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1230587017691 Uroporphyrinogen-III methylase [Coenzyme metabolism]; Region: CysG; COG0007 1230587017692 homodimer interface [polypeptide binding]; other site 1230587017693 active site 1230587017694 SAM binding site [chemical binding]; other site 1230587017695 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1230587017696 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1230587017697 [4Fe-4S] binding site [ion binding]; other site 1230587017698 molybdopterin cofactor binding site; other site 1230587017699 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1230587017700 molybdopterin cofactor binding site; other site 1230587017701 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1230587017702 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 1230587017703 [2Fe-2S] cluster binding site [ion binding]; other site 1230587017704 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1230587017705 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587017706 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1230587017707 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1230587017708 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1230587017709 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587017710 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1230587017711 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587017712 DctM-like transporters; Region: DctM; pfam06808 1230587017713 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1230587017714 Acyl dehydratase [Lipid metabolism]; Region: MaoC; COG2030 1230587017715 active site 2 [active] 1230587017716 active site 1 [active] 1230587017717 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587017718 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587017719 DNA binding site [nucleotide binding] 1230587017720 domain linker motif; other site 1230587017721 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 1230587017722 ligand binding site [chemical binding]; other site 1230587017723 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587017724 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 1230587017725 substrate binding pocket [chemical binding]; other site 1230587017726 membrane-bound complex binding site; other site 1230587017727 hinge residues; other site 1230587017728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017729 dimer interface [polypeptide binding]; other site 1230587017730 conserved gate region; other site 1230587017731 putative PBP binding loops; other site 1230587017732 ABC-ATPase subunit interface; other site 1230587017733 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1230587017734 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1230587017735 NADP binding site [chemical binding]; other site 1230587017736 homodimer interface [polypeptide binding]; other site 1230587017737 active site 1230587017738 hypothetical protein; Provisional; Region: PRK06148 1230587017739 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 1230587017740 active site 1230587017741 ATP binding site [chemical binding]; other site 1230587017742 substrate binding site [chemical binding]; other site 1230587017743 Peptidase family M23; Region: Peptidase_M23; pfam01551 1230587017744 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 1230587017745 inhibitor-cofactor binding pocket; inhibition site 1230587017746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587017747 catalytic residue [active] 1230587017748 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587017749 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587017750 Walker A/P-loop; other site 1230587017751 ATP binding site [chemical binding]; other site 1230587017752 Q-loop/lid; other site 1230587017753 ABC transporter signature motif; other site 1230587017754 Walker B; other site 1230587017755 D-loop; other site 1230587017756 H-loop/switch region; other site 1230587017757 TOBE domain; Region: TOBE_2; pfam08402 1230587017758 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587017759 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587017760 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587017761 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017762 dimer interface [polypeptide binding]; other site 1230587017763 conserved gate region; other site 1230587017764 putative PBP binding loops; other site 1230587017765 ABC-ATPase subunit interface; other site 1230587017766 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587017767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017768 dimer interface [polypeptide binding]; other site 1230587017769 conserved gate region; other site 1230587017770 putative PBP binding loops; other site 1230587017771 ABC-ATPase subunit interface; other site 1230587017772 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1230587017773 Trehalase; Region: Trehalase; cl17346 1230587017774 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587017775 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587017776 DNA binding site [nucleotide binding] 1230587017777 domain linker motif; other site 1230587017778 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 1230587017779 ligand binding site [chemical binding]; other site 1230587017780 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1230587017781 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1230587017782 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1230587017783 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 1230587017784 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1230587017785 Beta-lactamase; Region: Beta-lactamase; pfam00144 1230587017786 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1230587017787 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1230587017788 dimer interface [polypeptide binding]; other site 1230587017789 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1230587017790 catalytic triad [active] 1230587017791 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 1230587017792 substrate binding site [chemical binding]; other site 1230587017793 dimer interface [polypeptide binding]; other site 1230587017794 ATP binding site [chemical binding]; other site 1230587017795 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 1230587017796 Chain length determinant protein; Region: Wzz; pfam02706 1230587017797 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1230587017798 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 1230587017799 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1230587017800 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1230587017801 active site 1230587017802 tetramer interface; other site 1230587017803 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1230587017804 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 1230587017805 active site 1230587017806 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1230587017807 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 1230587017808 active site 1230587017809 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 1230587017810 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1230587017811 Ligand binding site; other site 1230587017812 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 1230587017813 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 1230587017814 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 1230587017815 active site 1230587017816 active site 1230587017817 catalytic residues [active] 1230587017818 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1230587017819 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1230587017820 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1230587017821 Catalytic site; other site 1230587017822 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1230587017823 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1230587017824 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1230587017825 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 1230587017826 active site 1230587017827 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1230587017828 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1230587017829 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 1230587017830 active site 1230587017831 Exopolysaccharide production repressor; Region: SyrA; pfam11089 1230587017832 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1230587017833 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1230587017834 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1230587017835 SLBB domain; Region: SLBB; pfam10531 1230587017836 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1230587017837 O-Antigen ligase; Region: Wzy_C; pfam04932 1230587017838 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1230587017839 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1230587017840 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1230587017841 NAD binding site [chemical binding]; other site 1230587017842 homodimer interface [polypeptide binding]; other site 1230587017843 active site 1230587017844 substrate binding site [chemical binding]; other site 1230587017845 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587017846 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1230587017847 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1230587017848 Walker A/P-loop; other site 1230587017849 ATP binding site [chemical binding]; other site 1230587017850 Q-loop/lid; other site 1230587017851 ABC transporter signature motif; other site 1230587017852 Walker B; other site 1230587017853 D-loop; other site 1230587017854 H-loop/switch region; other site 1230587017855 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 1230587017856 Ligand Binding Site [chemical binding]; other site 1230587017857 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1230587017858 active site 1230587017859 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1230587017860 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1230587017861 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1230587017862 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1230587017863 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1230587017864 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1230587017865 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 1230587017866 non-specific DNA binding site [nucleotide binding]; other site 1230587017867 salt bridge; other site 1230587017868 sequence-specific DNA binding site [nucleotide binding]; other site 1230587017869 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587017870 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 1230587017871 active site 1230587017872 phosphorylation site [posttranslational modification] 1230587017873 intermolecular recognition site; other site 1230587017874 dimerization interface [polypeptide binding]; other site 1230587017875 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 1230587017876 PAS domain; Region: PAS_9; pfam13426 1230587017877 putative active site [active] 1230587017878 heme pocket [chemical binding]; other site 1230587017879 PAS domain S-box; Region: sensory_box; TIGR00229 1230587017880 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 1230587017881 putative active site [active] 1230587017882 heme pocket [chemical binding]; other site 1230587017883 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1230587017884 GAF domain; Region: GAF; pfam01590 1230587017885 PAS fold; Region: PAS_4; pfam08448 1230587017886 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 1230587017887 PAS fold; Region: PAS_3; pfam08447 1230587017888 putative active site [active] 1230587017889 heme pocket [chemical binding]; other site 1230587017890 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1230587017891 HWE histidine kinase; Region: HWE_HK; pfam07536 1230587017892 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1230587017893 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 1230587017894 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1230587017895 active site 1230587017896 catalytic residues [active] 1230587017897 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1230587017898 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587017899 ligand binding site [chemical binding]; other site 1230587017900 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1230587017901 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587017902 Walker A/P-loop; other site 1230587017903 ATP binding site [chemical binding]; other site 1230587017904 Q-loop/lid; other site 1230587017905 ABC transporter signature motif; other site 1230587017906 Walker B; other site 1230587017907 D-loop; other site 1230587017908 H-loop/switch region; other site 1230587017909 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587017910 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 1230587017911 TM-ABC transporter signature motif; other site 1230587017912 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1230587017913 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 1230587017914 protein binding site [polypeptide binding]; other site 1230587017915 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1230587017916 Active site serine [active] 1230587017917 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 1230587017918 Peptidase family M50; Region: Peptidase_M50; pfam02163 1230587017919 active site 1230587017920 putative substrate binding region [chemical binding]; other site 1230587017921 FOG: CBS domain [General function prediction only]; Region: COG0517 1230587017922 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_26; cd04639 1230587017923 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1230587017924 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 1230587017925 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587017926 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587017927 Walker A/P-loop; other site 1230587017928 ATP binding site [chemical binding]; other site 1230587017929 Q-loop/lid; other site 1230587017930 ABC transporter signature motif; other site 1230587017931 Walker B; other site 1230587017932 D-loop; other site 1230587017933 H-loop/switch region; other site 1230587017934 TOBE domain; Region: TOBE_2; pfam08402 1230587017935 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587017936 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587017937 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017938 dimer interface [polypeptide binding]; other site 1230587017939 conserved gate region; other site 1230587017940 putative PBP binding loops; other site 1230587017941 ABC-ATPase subunit interface; other site 1230587017942 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587017943 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017944 dimer interface [polypeptide binding]; other site 1230587017945 conserved gate region; other site 1230587017946 putative PBP binding loops; other site 1230587017947 ABC-ATPase subunit interface; other site 1230587017948 Predicted transcriptional regulator [Transcription]; Region: COG4189 1230587017949 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 1230587017950 putative DNA binding site [nucleotide binding]; other site 1230587017951 dimerization interface [polypeptide binding]; other site 1230587017952 putative Zn2+ binding site [ion binding]; other site 1230587017953 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1230587017954 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1230587017955 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587017956 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587017957 DNA binding site [nucleotide binding] 1230587017958 domain linker motif; other site 1230587017959 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 1230587017960 ligand binding site [chemical binding]; other site 1230587017961 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587017962 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587017963 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587017964 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 1230587017965 DNA interaction; other site 1230587017966 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587017967 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587017968 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587017969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017970 dimer interface [polypeptide binding]; other site 1230587017971 conserved gate region; other site 1230587017972 putative PBP binding loops; other site 1230587017973 ABC-ATPase subunit interface; other site 1230587017974 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587017975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587017976 dimer interface [polypeptide binding]; other site 1230587017977 conserved gate region; other site 1230587017978 ABC-ATPase subunit interface; other site 1230587017979 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587017980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587017981 Walker A/P-loop; other site 1230587017982 ATP binding site [chemical binding]; other site 1230587017983 Q-loop/lid; other site 1230587017984 ABC transporter signature motif; other site 1230587017985 Walker B; other site 1230587017986 D-loop; other site 1230587017987 H-loop/switch region; other site 1230587017988 TOBE domain; Region: TOBE; cl01440 1230587017989 TOBE domain; Region: TOBE_2; pfam08402 1230587017990 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587017991 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587017992 DNA-binding site [nucleotide binding]; DNA binding site 1230587017993 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587017994 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 1230587017995 TM-ABC transporter signature motif; other site 1230587017996 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587017997 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 1230587017998 TM-ABC transporter signature motif; other site 1230587017999 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587018000 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587018001 Walker A/P-loop; other site 1230587018002 ATP binding site [chemical binding]; other site 1230587018003 Q-loop/lid; other site 1230587018004 ABC transporter signature motif; other site 1230587018005 Walker B; other site 1230587018006 D-loop; other site 1230587018007 H-loop/switch region; other site 1230587018008 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587018009 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587018010 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1230587018011 putative ligand binding site [chemical binding]; other site 1230587018012 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1230587018013 glutathione synthetase; Provisional; Region: PRK12458 1230587018014 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1230587018015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3930 1230587018016 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1230587018017 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 1230587018018 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1230587018019 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587018020 putative ADP-binding pocket [chemical binding]; other site 1230587018021 Predicted membrane protein [Function unknown]; Region: COG1238 1230587018022 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1230587018023 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1230587018024 DNA binding residues [nucleotide binding] 1230587018025 dimer interface [polypeptide binding]; other site 1230587018026 copper binding site [ion binding]; other site 1230587018027 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1230587018028 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 1230587018029 metal-binding site [ion binding] 1230587018030 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1230587018031 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 1230587018032 metal-binding site [ion binding] 1230587018033 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1230587018034 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 1230587018035 motif II; other site 1230587018036 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 1230587018037 metal-binding site [ion binding] 1230587018038 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 1230587018039 dimerization interface [polypeptide binding]; other site 1230587018040 putative DNA binding site [nucleotide binding]; other site 1230587018041 putative Zn2+ binding site [ion binding]; other site 1230587018042 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587018043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587018044 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 1230587018045 ATP binding site [chemical binding]; other site 1230587018046 Mg2+ binding site [ion binding]; other site 1230587018047 G-X-G motif; other site 1230587018048 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1230587018049 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1230587018050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1230587018051 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1230587018052 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1230587018053 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1230587018054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587018055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587018056 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1230587018057 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 1230587018058 putative active site [active] 1230587018059 putative FMN binding site [chemical binding]; other site 1230587018060 putative substrate binding site [chemical binding]; other site 1230587018061 putative catalytic residue [active] 1230587018062 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587018063 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 1230587018064 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 1230587018065 oligomerisation interface [polypeptide binding]; other site 1230587018066 mobile loop; other site 1230587018067 roof hairpin; other site 1230587018068 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1230587018069 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 1230587018070 ring oligomerisation interface [polypeptide binding]; other site 1230587018071 ATP/Mg binding site [chemical binding]; other site 1230587018072 stacking interactions; other site 1230587018073 hinge regions; other site 1230587018074 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1230587018075 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1230587018076 active site 1230587018077 catalytic site [active] 1230587018078 substrate binding site [chemical binding]; other site 1230587018079 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1230587018080 dimer interface [polypeptide binding]; other site 1230587018081 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587018082 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 1230587018083 active site 1230587018084 phosphorylation site [posttranslational modification] 1230587018085 intermolecular recognition site; other site 1230587018086 dimerization interface [polypeptide binding]; other site 1230587018087 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 1230587018088 DNA binding site [nucleotide binding] 1230587018089 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587018090 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 1230587018091 dimerization interface [polypeptide binding]; other site 1230587018092 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 1230587018093 dimer interface [polypeptide binding]; other site 1230587018094 phosphorylation site [posttranslational modification] 1230587018095 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 1230587018096 ATP binding site [chemical binding]; other site 1230587018097 G-X-G motif; other site 1230587018098 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587018099 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587018100 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587018101 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1230587018102 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 1230587018103 catalytic loop [active] 1230587018104 iron binding site [ion binding]; other site 1230587018105 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587018106 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1230587018107 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1230587018108 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587018109 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587018110 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587018111 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1230587018112 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1230587018113 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1230587018114 TrkA-N domain; Region: TrkA_N; pfam02254 1230587018115 Sulphur transport; Region: Sulf_transp; pfam04143 1230587018116 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1230587018117 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 1230587018118 active site residue [active] 1230587018119 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1230587018120 active site residue [active] 1230587018121 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1230587018122 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1230587018123 Histidine kinase; Region: His_kinase; pfam06580 1230587018124 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1230587018125 ATP binding site [chemical binding]; other site 1230587018126 Mg2+ binding site [ion binding]; other site 1230587018127 G-X-G motif; other site 1230587018128 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1230587018129 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 1230587018130 active site 1230587018131 phosphorylation site [posttranslational modification] 1230587018132 intermolecular recognition site; other site 1230587018133 dimerization interface [polypeptide binding]; other site 1230587018134 LytTr DNA-binding domain; Region: LytTR; pfam04397 1230587018135 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1230587018136 active site 1230587018137 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587018138 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1230587018139 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1230587018140 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1230587018141 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018142 dimer interface [polypeptide binding]; other site 1230587018143 conserved gate region; other site 1230587018144 putative PBP binding loops; other site 1230587018145 ABC-ATPase subunit interface; other site 1230587018146 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018147 dimer interface [polypeptide binding]; other site 1230587018148 conserved gate region; other site 1230587018149 putative PBP binding loops; other site 1230587018150 ABC-ATPase subunit interface; other site 1230587018151 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1230587018152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587018153 Walker A/P-loop; other site 1230587018154 ATP binding site [chemical binding]; other site 1230587018155 Q-loop/lid; other site 1230587018156 ABC transporter signature motif; other site 1230587018157 Walker B; other site 1230587018158 D-loop; other site 1230587018159 H-loop/switch region; other site 1230587018160 TOBE domain; Region: TOBE_2; pfam08402 1230587018161 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587018162 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587018163 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 1230587018164 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 1230587018165 NAD(P) binding site [chemical binding]; other site 1230587018166 catalytic residues [active] 1230587018167 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1230587018168 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1230587018169 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1230587018170 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1230587018171 catalytic residue [active] 1230587018172 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1230587018173 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1230587018174 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1230587018175 PhoU domain; Region: PhoU; pfam01895 1230587018176 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1230587018177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587018178 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 1230587018179 dimerization interface [polypeptide binding]; other site 1230587018180 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587018181 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587018182 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1230587018183 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1230587018184 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1230587018185 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1230587018186 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1230587018187 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587018188 DNA-binding site [nucleotide binding]; DNA binding site 1230587018189 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1230587018190 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1230587018191 Predicted membrane protein [Function unknown]; Region: COG2855 1230587018192 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 1230587018193 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1230587018194 PYR/PP interface [polypeptide binding]; other site 1230587018195 dimer interface [polypeptide binding]; other site 1230587018196 TPP binding site [chemical binding]; other site 1230587018197 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587018198 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 1230587018199 TPP-binding site; other site 1230587018200 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1230587018201 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587018202 SnoaL-like domain; Region: SnoaL_2; pfam12680 1230587018203 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1230587018204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018205 dimer interface [polypeptide binding]; other site 1230587018206 conserved gate region; other site 1230587018207 putative PBP binding loops; other site 1230587018208 ABC-ATPase subunit interface; other site 1230587018209 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 1230587018210 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1230587018211 Walker A/P-loop; other site 1230587018212 ATP binding site [chemical binding]; other site 1230587018213 Q-loop/lid; other site 1230587018214 ABC transporter signature motif; other site 1230587018215 Walker B; other site 1230587018216 D-loop; other site 1230587018217 H-loop/switch region; other site 1230587018218 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1230587018219 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 1230587018220 substrate binding pocket [chemical binding]; other site 1230587018221 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 1230587018222 membrane-bound complex binding site; other site 1230587018223 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 1230587018224 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587018225 DNA-binding site [nucleotide binding]; DNA binding site 1230587018226 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 1230587018227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587018228 homodimer interface [polypeptide binding]; other site 1230587018229 catalytic residue [active] 1230587018230 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1230587018231 NmrA-like family; Region: NmrA; pfam05368 1230587018232 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 1230587018233 NADP binding site [chemical binding]; other site 1230587018234 active site 1230587018235 regulatory binding site [polypeptide binding]; other site 1230587018236 Predicted transcriptional regulators [Transcription]; Region: COG1733 1230587018237 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1230587018238 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 1230587018239 AAA domain; Region: AAA_17; pfam13207 1230587018240 AAA domain; Region: AAA_18; pfam13238 1230587018241 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1230587018242 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1230587018243 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1230587018244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 1230587018245 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1230587018246 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_12; cd06322 1230587018247 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587018248 putative ligand binding site [chemical binding]; other site 1230587018249 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587018250 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587018251 Walker A/P-loop; other site 1230587018252 ATP binding site [chemical binding]; other site 1230587018253 Q-loop/lid; other site 1230587018254 ABC transporter signature motif; other site 1230587018255 Walker B; other site 1230587018256 D-loop; other site 1230587018257 H-loop/switch region; other site 1230587018258 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587018259 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587018260 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 1230587018261 TM-ABC transporter signature motif; other site 1230587018262 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587018263 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 1230587018264 substrate binding site [chemical binding]; other site 1230587018265 ATP binding site [chemical binding]; other site 1230587018266 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 1230587018267 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587018268 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587018269 DNA binding site [nucleotide binding] 1230587018270 domain linker motif; other site 1230587018271 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587018272 dimerization interface [polypeptide binding]; other site 1230587018273 ligand binding site [chemical binding]; other site 1230587018274 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1230587018275 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1230587018276 D-pathway; other site 1230587018277 Putative ubiquinol binding site [chemical binding]; other site 1230587018278 Low-spin heme (heme b) binding site [chemical binding]; other site 1230587018279 Putative water exit pathway; other site 1230587018280 Binuclear center (heme o3/CuB) [ion binding]; other site 1230587018281 K-pathway; other site 1230587018282 Putative proton exit pathway; other site 1230587018283 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1230587018284 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1230587018285 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1230587018286 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1230587018287 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1230587018288 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1230587018289 Cytochrome c; Region: Cytochrom_C; pfam00034 1230587018290 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1230587018291 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1230587018292 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1230587018293 Cytochrome c; Region: Cytochrom_C; cl11414 1230587018294 Predicted membrane protein [Function unknown]; Region: COG3336 1230587018295 Predicted membrane protein [Function unknown]; Region: COG4244 1230587018296 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1230587018297 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1230587018298 Predicted membrane protein [Function unknown]; Region: COG2323 1230587018299 LysR family transcriptional regulator; Provisional; Region: PRK14997 1230587018300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587018301 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_4; cd08473 1230587018302 putative effector binding pocket; other site 1230587018303 putative dimerization interface [polypeptide binding]; other site 1230587018304 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587018305 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1230587018306 catalytic triad [active] 1230587018307 dimer interface [polypeptide binding]; other site 1230587018308 conserved cis-peptide bond; other site 1230587018309 Predicted membrane protein [Function unknown]; Region: COG4244 1230587018310 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1230587018311 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587018312 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587018313 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587018314 glucuronate isomerase; Reviewed; Region: PRK02925 1230587018315 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1230587018316 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587018317 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1230587018318 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587018319 DctM-like transporters; Region: DctM; pfam06808 1230587018320 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1230587018321 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587018322 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587018323 DNA-binding site [nucleotide binding]; DNA binding site 1230587018324 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587018325 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1230587018326 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 1230587018327 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1230587018328 NADP binding site [chemical binding]; other site 1230587018329 homodimer interface [polypeptide binding]; other site 1230587018330 active site 1230587018331 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1230587018332 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587018333 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587018334 DNA binding site [nucleotide binding] 1230587018335 domain linker motif; other site 1230587018336 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 1230587018337 putative dimerization interface [polypeptide binding]; other site 1230587018338 putative ligand binding site [chemical binding]; other site 1230587018339 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587018340 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1230587018341 putative ligand binding site [chemical binding]; other site 1230587018342 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587018343 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587018344 Walker A/P-loop; other site 1230587018345 ATP binding site [chemical binding]; other site 1230587018346 Q-loop/lid; other site 1230587018347 ABC transporter signature motif; other site 1230587018348 Walker B; other site 1230587018349 D-loop; other site 1230587018350 H-loop/switch region; other site 1230587018351 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587018352 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587018353 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 1230587018354 TM-ABC transporter signature motif; other site 1230587018355 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587018356 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 1230587018357 TM-ABC transporter signature motif; other site 1230587018358 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1230587018359 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587018360 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587018361 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587018362 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1230587018363 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1230587018364 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1230587018365 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1230587018366 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587018367 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587018368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587018369 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1230587018370 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1230587018371 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1230587018372 BON domain; Region: BON; cl02771 1230587018373 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1230587018374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1230587018375 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 1230587018376 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1230587018377 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1230587018378 NADP binding site [chemical binding]; other site 1230587018379 active site 1230587018380 putative substrate binding site [chemical binding]; other site 1230587018381 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1230587018382 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1230587018383 NAD binding site [chemical binding]; other site 1230587018384 substrate binding site [chemical binding]; other site 1230587018385 homodimer interface [polypeptide binding]; other site 1230587018386 active site 1230587018387 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1230587018388 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1230587018389 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1230587018390 substrate binding site; other site 1230587018391 tetramer interface; other site 1230587018392 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1230587018393 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1230587018394 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1230587018395 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1230587018396 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 1230587018397 active site 1230587018398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587018399 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 1230587018400 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587018401 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 1230587018402 putative ADP-binding pocket [chemical binding]; other site 1230587018403 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1230587018404 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1230587018405 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1230587018406 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587018407 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1230587018408 Walker A/P-loop; other site 1230587018409 ATP binding site [chemical binding]; other site 1230587018410 Q-loop/lid; other site 1230587018411 ABC transporter signature motif; other site 1230587018412 Walker B; other site 1230587018413 D-loop; other site 1230587018414 H-loop/switch region; other site 1230587018415 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1230587018416 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1230587018417 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1230587018418 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587018419 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587018420 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1230587018421 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1230587018422 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 1230587018423 active site 1230587018424 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 1230587018425 S-adenosylmethionine binding site [chemical binding]; other site 1230587018426 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587018427 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1230587018428 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587018429 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1230587018430 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587018431 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1230587018432 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 1230587018433 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1230587018434 motif I; other site 1230587018435 active site 1230587018436 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 1230587018437 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1230587018438 active site 1230587018439 metal binding site [ion binding]; metal-binding site 1230587018440 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1230587018441 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1230587018442 Sulfatase; Region: Sulfatase; pfam00884 1230587018443 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1230587018444 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 1230587018445 active site 1230587018446 phosphorylation site [posttranslational modification] 1230587018447 intermolecular recognition site; other site 1230587018448 dimerization interface [polypeptide binding]; other site 1230587018449 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 1230587018450 DNA binding site [nucleotide binding] 1230587018451 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587018452 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 1230587018453 dimer interface [polypeptide binding]; other site 1230587018454 phosphorylation site [posttranslational modification] 1230587018455 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 1230587018456 ATP binding site [chemical binding]; other site 1230587018457 Mg2+ binding site [ion binding]; other site 1230587018458 G-X-G motif; other site 1230587018459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587018460 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1230587018461 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1230587018462 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587018463 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587018464 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1230587018465 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1230587018466 Walker A/P-loop; other site 1230587018467 ATP binding site [chemical binding]; other site 1230587018468 Q-loop/lid; other site 1230587018469 ABC transporter signature motif; other site 1230587018470 Walker B; other site 1230587018471 D-loop; other site 1230587018472 H-loop/switch region; other site 1230587018473 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1230587018474 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1230587018475 Walker A/P-loop; other site 1230587018476 ATP binding site [chemical binding]; other site 1230587018477 Q-loop/lid; other site 1230587018478 ABC transporter signature motif; other site 1230587018479 Walker B; other site 1230587018480 D-loop; other site 1230587018481 H-loop/switch region; other site 1230587018482 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1230587018483 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1230587018484 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1230587018485 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1230587018486 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1230587018487 Predicted esterase [General function prediction only]; Region: COG0400 1230587018488 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1230587018489 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587018490 Zn binding site [ion binding]; other site 1230587018491 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1230587018492 Zn binding site [ion binding]; other site 1230587018493 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1230587018494 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 1230587018495 dimer interface [polypeptide binding]; other site 1230587018496 phosphorylation site [posttranslational modification] 1230587018497 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 1230587018498 ATP binding site [chemical binding]; other site 1230587018499 Mg2+ binding site [ion binding]; other site 1230587018500 G-X-G motif; other site 1230587018501 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1230587018502 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 1230587018503 active site 1230587018504 phosphorylation site [posttranslational modification] 1230587018505 intermolecular recognition site; other site 1230587018506 dimerization interface [polypeptide binding]; other site 1230587018507 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 1230587018508 Walker A motif; other site 1230587018509 ATP binding site [chemical binding]; other site 1230587018510 Walker B motif; other site 1230587018511 arginine finger; other site 1230587018512 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1230587018513 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1230587018514 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587018515 Walker A/P-loop; other site 1230587018516 ATP binding site [chemical binding]; other site 1230587018517 Q-loop/lid; other site 1230587018518 ABC transporter signature motif; other site 1230587018519 Walker B; other site 1230587018520 D-loop; other site 1230587018521 H-loop/switch region; other site 1230587018522 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1230587018523 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587018524 Walker A/P-loop; other site 1230587018525 ATP binding site [chemical binding]; other site 1230587018526 Q-loop/lid; other site 1230587018527 ABC transporter signature motif; other site 1230587018528 Walker B; other site 1230587018529 D-loop; other site 1230587018530 H-loop/switch region; other site 1230587018531 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587018532 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1230587018533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018534 dimer interface [polypeptide binding]; other site 1230587018535 conserved gate region; other site 1230587018536 ABC-ATPase subunit interface; other site 1230587018537 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1230587018538 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018539 dimer interface [polypeptide binding]; other site 1230587018540 conserved gate region; other site 1230587018541 putative PBP binding loops; other site 1230587018542 ABC-ATPase subunit interface; other site 1230587018543 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1230587018544 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1230587018545 peptide binding site [polypeptide binding]; other site 1230587018546 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1230587018547 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 1230587018548 intersubunit interface [polypeptide binding]; other site 1230587018549 active site 1230587018550 zinc binding site [ion binding]; other site 1230587018551 Na+ binding site [ion binding]; other site 1230587018552 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587018553 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1230587018554 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587018555 Walker A/P-loop; other site 1230587018556 ATP binding site [chemical binding]; other site 1230587018557 Q-loop/lid; other site 1230587018558 ABC transporter signature motif; other site 1230587018559 Walker B; other site 1230587018560 D-loop; other site 1230587018561 H-loop/switch region; other site 1230587018562 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1230587018563 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1230587018564 active site 1230587018565 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1230587018566 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 1230587018567 active site 1230587018568 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1230587018569 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1230587018570 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1230587018571 DNA binding residues [nucleotide binding] 1230587018572 dimer interface [polypeptide binding]; other site 1230587018573 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1230587018574 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 1230587018575 non-specific DNA binding site [nucleotide binding]; other site 1230587018576 salt bridge; other site 1230587018577 sequence-specific DNA binding site [nucleotide binding]; other site 1230587018578 Cupin domain; Region: Cupin_2; pfam07883 1230587018579 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 1230587018580 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 1230587018581 inhibitor-cofactor binding pocket; inhibition site 1230587018582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587018583 catalytic residue [active] 1230587018584 succinic semialdehyde dehydrogenase; Region: PLN02278 1230587018585 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1230587018586 tetramerization interface [polypeptide binding]; other site 1230587018587 NAD(P) binding site [chemical binding]; other site 1230587018588 catalytic residues [active] 1230587018589 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1230587018590 propionate/acetate kinase; Provisional; Region: PRK12379 1230587018591 heat shock protein 90; Provisional; Region: PRK05218 1230587018592 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 1230587018593 ATP binding site [chemical binding]; other site 1230587018594 Mg2+ binding site [ion binding]; other site 1230587018595 G-X-G motif; other site 1230587018596 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1230587018597 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1230587018598 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1230587018599 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1230587018600 FAD binding site [chemical binding]; other site 1230587018601 substrate binding pocket [chemical binding]; other site 1230587018602 catalytic base [active] 1230587018603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587018604 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587018605 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 1230587018606 dimerization interface [polypeptide binding]; other site 1230587018607 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1230587018608 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587018609 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 1230587018610 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1230587018611 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1230587018612 Walker A/P-loop; other site 1230587018613 ATP binding site [chemical binding]; other site 1230587018614 Q-loop/lid; other site 1230587018615 ABC transporter signature motif; other site 1230587018616 Walker B; other site 1230587018617 D-loop; other site 1230587018618 H-loop/switch region; other site 1230587018619 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1230587018620 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1230587018621 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1230587018622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018623 dimer interface [polypeptide binding]; other site 1230587018624 conserved gate region; other site 1230587018625 ABC-ATPase subunit interface; other site 1230587018626 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1230587018627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018628 dimer interface [polypeptide binding]; other site 1230587018629 conserved gate region; other site 1230587018630 ABC-ATPase subunit interface; other site 1230587018631 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1230587018632 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 1230587018633 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 1230587018634 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 1230587018635 active site 1230587018636 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 1230587018637 active site 1230587018638 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 1230587018639 dimerization interface [polypeptide binding]; other site 1230587018640 putative DNA binding site [nucleotide binding]; other site 1230587018641 putative Zn2+ binding site [ion binding]; other site 1230587018642 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1230587018643 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1230587018644 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1230587018645 putative active site [active] 1230587018646 putative NTP binding site [chemical binding]; other site 1230587018647 putative nucleic acid binding site [nucleotide binding]; other site 1230587018648 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1230587018649 imidazolonepropionase; Validated; Region: PRK09356 1230587018650 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 1230587018651 active site 1230587018652 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1230587018653 active sites [active] 1230587018654 tetramer interface [polypeptide binding]; other site 1230587018655 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1230587018656 urocanate hydratase; Provisional; Region: PRK05414 1230587018657 sugar efflux transporter; Region: 2A0120; TIGR00899 1230587018658 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1230587018659 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1230587018660 MlrC C-terminus; Region: MlrC_C; pfam07171 1230587018661 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 1230587018662 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1230587018663 active site 1230587018664 short chain dehydrogenase; Provisional; Region: PRK07074 1230587018665 classical (c) SDRs; Region: SDR_c; cd05233 1230587018666 NAD(P) binding site [chemical binding]; other site 1230587018667 active site 1230587018668 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1230587018669 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587018670 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 1230587018671 putative active site [active] 1230587018672 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 1230587018673 homotrimer interaction site [polypeptide binding]; other site 1230587018674 putative active site [active] 1230587018675 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1230587018676 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1230587018677 MlrC C-terminus; Region: MlrC_C; pfam07171 1230587018678 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 1230587018679 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587018680 active site 1230587018681 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1230587018682 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587018683 Coenzyme A binding pocket [chemical binding]; other site 1230587018684 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1230587018685 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587018686 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587018687 Walker A/P-loop; other site 1230587018688 ATP binding site [chemical binding]; other site 1230587018689 Q-loop/lid; other site 1230587018690 ABC transporter signature motif; other site 1230587018691 Walker B; other site 1230587018692 D-loop; other site 1230587018693 H-loop/switch region; other site 1230587018694 TOBE domain; Region: TOBE_2; pfam08402 1230587018695 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587018696 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587018697 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587018698 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018699 dimer interface [polypeptide binding]; other site 1230587018700 conserved gate region; other site 1230587018701 putative PBP binding loops; other site 1230587018702 ABC-ATPase subunit interface; other site 1230587018703 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587018704 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018705 dimer interface [polypeptide binding]; other site 1230587018706 conserved gate region; other site 1230587018707 putative PBP binding loops; other site 1230587018708 ABC-ATPase subunit interface; other site 1230587018709 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587018710 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587018711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018712 dimer interface [polypeptide binding]; other site 1230587018713 conserved gate region; other site 1230587018714 putative PBP binding loops; other site 1230587018715 ABC-ATPase subunit interface; other site 1230587018716 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1230587018717 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587018718 Walker A/P-loop; other site 1230587018719 ATP binding site [chemical binding]; other site 1230587018720 Q-loop/lid; other site 1230587018721 ABC transporter signature motif; other site 1230587018722 Walker B; other site 1230587018723 D-loop; other site 1230587018724 H-loop/switch region; other site 1230587018725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018726 dimer interface [polypeptide binding]; other site 1230587018727 conserved gate region; other site 1230587018728 ABC-ATPase subunit interface; other site 1230587018729 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1230587018730 mercuric reductase; Validated; Region: PRK06370 1230587018731 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1230587018732 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587018733 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1230587018734 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1230587018735 Amidinotransferase; Region: Amidinotransf; cl12043 1230587018736 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1230587018737 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1230587018738 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587018739 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587018740 NAD(P) binding site [chemical binding]; other site 1230587018741 catalytic residues [active] 1230587018742 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1230587018743 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1230587018744 NAD(P) binding site [chemical binding]; other site 1230587018745 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1230587018746 intersubunit interface [polypeptide binding]; other site 1230587018747 active site 1230587018748 catalytic residue [active] 1230587018749 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 1230587018750 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1230587018751 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1230587018752 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 1230587018753 putative binding site; other site 1230587018754 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1230587018755 MG2 domain; Region: A2M_N; pfam01835 1230587018756 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1230587018757 surface patch; other site 1230587018758 thioester region; other site 1230587018759 specificity defining residues; other site 1230587018760 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 1230587018761 Transglycosylase; Region: Transgly; pfam00912 1230587018762 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1230587018763 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1230587018764 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1230587018765 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1230587018766 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 1230587018767 putative dimer interface [polypeptide binding]; other site 1230587018768 guanine deaminase; Provisional; Region: PRK09228 1230587018769 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 1230587018770 active site 1230587018771 Predicted membrane protein [Function unknown]; Region: COG3748 1230587018772 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1230587018773 Cytochrome c; Region: Cytochrom_C; pfam00034 1230587018774 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587018775 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587018776 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 1230587018777 putative effector binding pocket; other site 1230587018778 dimerization interface [polypeptide binding]; other site 1230587018779 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587018780 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1230587018781 NAD(P) binding site [chemical binding]; other site 1230587018782 Predicted transcriptional regulators [Transcription]; Region: COG1733 1230587018783 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1230587018784 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1230587018785 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1230587018786 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1230587018787 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 1230587018788 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587018789 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587018790 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 1230587018791 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 1230587018792 catalytic loop [active] 1230587018793 iron binding site [ion binding]; other site 1230587018794 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587018795 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1230587018796 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 1230587018797 active site 1230587018798 homotetramer interface [polypeptide binding]; other site 1230587018799 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1230587018800 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1230587018801 active site 1230587018802 catalytic site [active] 1230587018803 tetramer interface [polypeptide binding]; other site 1230587018804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1230587018805 Allantoicase [Nucleotide transport and metabolism]; Region: Alc; COG4266 1230587018806 Allantoicase repeat; Region: Allantoicase; pfam03561 1230587018807 Allantoicase repeat; Region: Allantoicase; pfam03561 1230587018808 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1230587018809 phosphoribosyltransferase; Provisional; Region: PRK06031 1230587018810 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1230587018811 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1230587018812 metal binding site [ion binding]; metal-binding site 1230587018813 putative dimer interface [polypeptide binding]; other site 1230587018814 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1230587018815 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 1230587018816 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 1230587018817 active site 1230587018818 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1230587018819 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 1230587018820 active site 1230587018821 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587018822 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1230587018823 Walker A/P-loop; other site 1230587018824 ATP binding site [chemical binding]; other site 1230587018825 Q-loop/lid; other site 1230587018826 ABC transporter signature motif; other site 1230587018827 Walker B; other site 1230587018828 D-loop; other site 1230587018829 H-loop/switch region; other site 1230587018830 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587018831 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018832 dimer interface [polypeptide binding]; other site 1230587018833 conserved gate region; other site 1230587018834 putative PBP binding loops; other site 1230587018835 ABC-ATPase subunit interface; other site 1230587018836 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587018837 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018838 dimer interface [polypeptide binding]; other site 1230587018839 conserved gate region; other site 1230587018840 putative PBP binding loops; other site 1230587018841 ABC-ATPase subunit interface; other site 1230587018842 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587018843 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587018844 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587018845 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587018846 DNA binding site [nucleotide binding] 1230587018847 domain linker motif; other site 1230587018848 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587018849 dimerization interface [polypeptide binding]; other site 1230587018850 ligand binding site [chemical binding]; other site 1230587018851 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1230587018852 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1230587018853 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 1230587018854 ligand binding site [chemical binding]; other site 1230587018855 flexible hinge region; other site 1230587018856 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587018857 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1230587018858 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1230587018859 Walker A/P-loop; other site 1230587018860 ATP binding site [chemical binding]; other site 1230587018861 Q-loop/lid; other site 1230587018862 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1230587018863 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587018864 ABC transporter signature motif; other site 1230587018865 Walker B; other site 1230587018866 D-loop; other site 1230587018867 H-loop/switch region; other site 1230587018868 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 1230587018869 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 1230587018870 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 1230587018871 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 1230587018872 microcin C ABC transporter permease; Provisional; Region: PRK15021 1230587018873 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1230587018874 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018875 dimer interface [polypeptide binding]; other site 1230587018876 conserved gate region; other site 1230587018877 putative PBP binding loops; other site 1230587018878 ABC-ATPase subunit interface; other site 1230587018879 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587018880 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587018881 dimer interface [polypeptide binding]; other site 1230587018882 conserved gate region; other site 1230587018883 putative PBP binding loops; other site 1230587018884 ABC-ATPase subunit interface; other site 1230587018885 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 1230587018886 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1230587018887 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587018888 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587018889 Walker A/P-loop; other site 1230587018890 ATP binding site [chemical binding]; other site 1230587018891 Q-loop/lid; other site 1230587018892 ABC transporter signature motif; other site 1230587018893 Walker B; other site 1230587018894 D-loop; other site 1230587018895 H-loop/switch region; other site 1230587018896 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587018897 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587018898 Walker A/P-loop; other site 1230587018899 ATP binding site [chemical binding]; other site 1230587018900 Q-loop/lid; other site 1230587018901 ABC transporter signature motif; other site 1230587018902 Walker B; other site 1230587018903 D-loop; other site 1230587018904 H-loop/switch region; other site 1230587018905 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587018906 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 1230587018907 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587018908 cyclase homology domain; Region: CHD; cd07302 1230587018909 nucleotidyl binding site; other site 1230587018910 metal binding site [ion binding]; metal-binding site 1230587018911 dimer interface [polypeptide binding]; other site 1230587018912 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1230587018913 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1230587018914 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1230587018915 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1230587018916 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 1230587018917 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1230587018918 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 1230587018919 NodB motif; other site 1230587018920 putative active site [active] 1230587018921 putative catalytic site [active] 1230587018922 putative Zn binding site [ion binding]; other site 1230587018923 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587018924 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 1230587018925 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1230587018926 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1230587018927 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587018928 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1230587018929 putative ADP-binding pocket [chemical binding]; other site 1230587018930 sulfotransferase; Region: PLN02164 1230587018931 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1230587018932 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1230587018933 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 1230587018934 inhibitor-cofactor binding pocket; inhibition site 1230587018935 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587018936 catalytic residue [active] 1230587018937 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1230587018938 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1230587018939 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1230587018940 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1230587018941 SLBB domain; Region: SLBB; pfam10531 1230587018942 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1230587018943 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1230587018944 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1230587018945 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1230587018946 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 1230587018947 Chain length determinant protein; Region: Wzz; pfam02706 1230587018948 Chain length determinant protein; Region: Wzz; cl15801 1230587018949 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1230587018950 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1230587018951 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 1230587018952 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_4; cd08651 1230587018953 putative active site [active] 1230587018954 putative substrate binding site [chemical binding]; other site 1230587018955 putative cosubstrate binding site; other site 1230587018956 catalytic site [active] 1230587018957 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1230587018958 active site 1230587018959 hexamer interface [polypeptide binding]; other site 1230587018960 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1230587018961 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1230587018962 NAD(P) binding site [chemical binding]; other site 1230587018963 homodimer interface [polypeptide binding]; other site 1230587018964 substrate binding site [chemical binding]; other site 1230587018965 active site 1230587018966 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1230587018967 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587018968 putative ADP-binding pocket [chemical binding]; other site 1230587018969 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1230587018970 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1230587018971 putative ADP-binding pocket [chemical binding]; other site 1230587018972 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1230587018973 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587018974 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587018975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587018976 NAD(P) binding site [chemical binding]; other site 1230587018977 active site 1230587018978 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 1230587018979 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1230587018980 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 1230587018981 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1230587018982 active site 1230587018983 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587018984 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 1230587018985 active site 1230587018986 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1230587018987 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1230587018988 CysD dimerization site [polypeptide binding]; other site 1230587018989 G1 box; other site 1230587018990 putative GEF interaction site [polypeptide binding]; other site 1230587018991 GTP/Mg2+ binding site [chemical binding]; other site 1230587018992 Switch I region; other site 1230587018993 G2 box; other site 1230587018994 G3 box; other site 1230587018995 Switch II region; other site 1230587018996 G4 box; other site 1230587018997 G5 box; other site 1230587018998 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 1230587018999 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 1230587019000 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 1230587019001 ligand-binding site [chemical binding]; other site 1230587019002 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1230587019003 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 1230587019004 Active Sites [active] 1230587019005 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 1230587019006 non-specific DNA interactions [nucleotide binding]; other site 1230587019007 DNA binding site [nucleotide binding] 1230587019008 sequence specific DNA binding site [nucleotide binding]; other site 1230587019009 putative cAMP binding site [chemical binding]; other site 1230587019010 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1230587019011 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1230587019012 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587019013 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587019014 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019015 dimer interface [polypeptide binding]; other site 1230587019016 conserved gate region; other site 1230587019017 putative PBP binding loops; other site 1230587019018 ABC-ATPase subunit interface; other site 1230587019019 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587019020 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019021 dimer interface [polypeptide binding]; other site 1230587019022 conserved gate region; other site 1230587019023 putative PBP binding loops; other site 1230587019024 ABC-ATPase subunit interface; other site 1230587019025 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1230587019026 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1230587019027 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1230587019028 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1230587019029 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 1230587019030 substrate binding site [chemical binding]; other site 1230587019031 ATP binding site [chemical binding]; other site 1230587019032 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587019033 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587019034 Walker A/P-loop; other site 1230587019035 ATP binding site [chemical binding]; other site 1230587019036 Q-loop/lid; other site 1230587019037 ABC transporter signature motif; other site 1230587019038 Walker B; other site 1230587019039 D-loop; other site 1230587019040 H-loop/switch region; other site 1230587019041 TOBE domain; Region: TOBE_2; pfam08402 1230587019042 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587019043 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 1230587019044 putative DNA binding site [nucleotide binding]; other site 1230587019045 putative Zn2+ binding site [ion binding]; other site 1230587019046 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587019047 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 1230587019048 homotrimer interaction site [polypeptide binding]; other site 1230587019049 putative active site [active] 1230587019050 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587019051 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587019052 Walker A/P-loop; other site 1230587019053 ATP binding site [chemical binding]; other site 1230587019054 Q-loop/lid; other site 1230587019055 ABC transporter signature motif; other site 1230587019056 Walker B; other site 1230587019057 D-loop; other site 1230587019058 H-loop/switch region; other site 1230587019059 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019060 putative PBP binding loops; other site 1230587019061 dimer interface [polypeptide binding]; other site 1230587019062 ABC-ATPase subunit interface; other site 1230587019063 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019064 dimer interface [polypeptide binding]; other site 1230587019065 conserved gate region; other site 1230587019066 putative PBP binding loops; other site 1230587019067 ABC-ATPase subunit interface; other site 1230587019068 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587019069 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 1230587019070 substrate binding pocket [chemical binding]; other site 1230587019071 membrane-bound complex binding site; other site 1230587019072 hinge residues; other site 1230587019073 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1230587019074 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 1230587019075 dimer interface [polypeptide binding]; other site 1230587019076 active site 1230587019077 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587019078 substrate binding site [chemical binding]; other site 1230587019079 catalytic residue [active] 1230587019080 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1230587019081 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1230587019082 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1230587019083 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019084 dimer interface [polypeptide binding]; other site 1230587019085 conserved gate region; other site 1230587019086 putative PBP binding loops; other site 1230587019087 ABC-ATPase subunit interface; other site 1230587019088 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019089 dimer interface [polypeptide binding]; other site 1230587019090 conserved gate region; other site 1230587019091 putative PBP binding loops; other site 1230587019092 ABC-ATPase subunit interface; other site 1230587019093 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1230587019094 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1230587019095 Walker A/P-loop; other site 1230587019096 ATP binding site [chemical binding]; other site 1230587019097 Q-loop/lid; other site 1230587019098 ABC transporter signature motif; other site 1230587019099 Walker B; other site 1230587019100 D-loop; other site 1230587019101 H-loop/switch region; other site 1230587019102 TOBE-like domain; Region: TOBE_3; pfam12857 1230587019103 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1230587019104 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587019105 Uncharacterized conserved protein [Function unknown]; Region: COG5654 1230587019106 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1230587019107 enoyl-CoA hydratase; Provisional; Region: PRK07468 1230587019108 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 1230587019109 substrate binding site [chemical binding]; other site 1230587019110 oxyanion hole (OAH) forming residues; other site 1230587019111 trimer interface [polypeptide binding]; other site 1230587019112 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1230587019113 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1230587019114 active site 1230587019115 catalytic residues [active] 1230587019116 metal binding site [ion binding]; metal-binding site 1230587019117 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1230587019118 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1230587019119 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1230587019120 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1230587019121 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 1230587019122 carboxyltransferase (CT) interaction site; other site 1230587019123 biotinylation site [posttranslational modification]; other site 1230587019124 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 1230587019125 homotrimer interaction site [polypeptide binding]; other site 1230587019126 putative active site [active] 1230587019127 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1230587019128 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1230587019129 isovaleryl-CoA dehydrogenase; Region: PLN02519 1230587019130 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1230587019131 substrate binding site [chemical binding]; other site 1230587019132 FAD binding site [chemical binding]; other site 1230587019133 catalytic base [active] 1230587019134 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1230587019135 Shikimate kinase; Region: SKI; pfam01202 1230587019136 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1230587019137 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 1230587019138 non-specific DNA binding site [nucleotide binding]; other site 1230587019139 salt bridge; other site 1230587019140 sequence-specific DNA binding site [nucleotide binding]; other site 1230587019141 Uncharacterized conserved protein [Function unknown]; Region: COG3482 1230587019142 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1230587019143 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 1230587019144 active site 1230587019145 phosphorylation site [posttranslational modification] 1230587019146 intermolecular recognition site; other site 1230587019147 ANTAR domain; Region: ANTAR; pfam03861 1230587019148 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1230587019149 NMT1-like family; Region: NMT1_2; pfam13379 1230587019150 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1230587019151 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 1230587019152 putative active site pocket [active] 1230587019153 metal binding site [ion binding]; metal-binding site 1230587019154 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 1230587019155 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1230587019156 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1230587019157 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1230587019158 NAD binding site [chemical binding]; other site 1230587019159 homotetramer interface [polypeptide binding]; other site 1230587019160 homodimer interface [polypeptide binding]; other site 1230587019161 active site 1230587019162 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 1230587019163 active site 2 [active] 1230587019164 active site 1 [active] 1230587019165 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587019166 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587019167 Uncharacterized conserved protein [Function unknown]; Region: COG3254 1230587019168 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1230587019169 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 1230587019170 active site pocket [active] 1230587019171 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587019172 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587019173 Walker A/P-loop; other site 1230587019174 ATP binding site [chemical binding]; other site 1230587019175 Q-loop/lid; other site 1230587019176 ABC transporter signature motif; other site 1230587019177 Walker B; other site 1230587019178 D-loop; other site 1230587019179 H-loop/switch region; other site 1230587019180 TOBE domain; Region: TOBE_2; pfam08402 1230587019181 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587019182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019183 dimer interface [polypeptide binding]; other site 1230587019184 conserved gate region; other site 1230587019185 putative PBP binding loops; other site 1230587019186 ABC-ATPase subunit interface; other site 1230587019187 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587019188 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019189 dimer interface [polypeptide binding]; other site 1230587019190 conserved gate region; other site 1230587019191 putative PBP binding loops; other site 1230587019192 ABC-ATPase subunit interface; other site 1230587019193 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587019194 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587019195 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587019196 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 1230587019197 putative DNA binding site [nucleotide binding]; other site 1230587019198 putative Zn2+ binding site [ion binding]; other site 1230587019199 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587019200 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1230587019201 Amidohydrolase; Region: Amidohydro_2; pfam04909 1230587019202 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1230587019203 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 1230587019204 active site 1230587019205 catalytic site [active] 1230587019206 Zn binding site [ion binding]; other site 1230587019207 tetramer interface [polypeptide binding]; other site 1230587019208 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1230587019209 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587019210 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 1230587019211 substrate binding pocket [chemical binding]; other site 1230587019212 membrane-bound complex binding site; other site 1230587019213 hinge residues; other site 1230587019214 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587019215 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587019216 Walker A/P-loop; other site 1230587019217 ATP binding site [chemical binding]; other site 1230587019218 Q-loop/lid; other site 1230587019219 ABC transporter signature motif; other site 1230587019220 Walker B; other site 1230587019221 D-loop; other site 1230587019222 H-loop/switch region; other site 1230587019223 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587019224 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019225 dimer interface [polypeptide binding]; other site 1230587019226 conserved gate region; other site 1230587019227 putative PBP binding loops; other site 1230587019228 ABC-ATPase subunit interface; other site 1230587019229 argininosuccinate lyase; Provisional; Region: PRK00855 1230587019230 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1230587019231 active sites [active] 1230587019232 tetramer interface [polypeptide binding]; other site 1230587019233 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1230587019234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587019235 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1230587019236 dimerization interface [polypeptide binding]; other site 1230587019237 substrate binding pocket [chemical binding]; other site 1230587019238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587019239 Coenzyme A binding pocket [chemical binding]; other site 1230587019240 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1230587019241 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 1230587019242 active site 1230587019243 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587019244 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1230587019245 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1230587019246 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 1230587019247 MobA/MobL family; Region: MobA_MobL; pfam03389 1230587019248 AAA domain; Region: AAA_30; pfam13604 1230587019249 Family description; Region: UvrD_C_2; pfam13538 1230587019250 Conjugal transfer protein TraD; Region: TraD; pfam06412 1230587019251 acyl carrier protein; Provisional; Region: acpP; PRK00982 1230587019252 Staphylococcal nuclease homologues; Region: SNc; smart00318 1230587019253 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1230587019254 Catalytic site; other site 1230587019255 Hint domain; Region: Hint_2; pfam13403 1230587019256 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1230587019257 active site 1230587019258 DNA binding site [nucleotide binding] 1230587019259 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 1230587019260 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1230587019261 DNA binding site [nucleotide binding] 1230587019262 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1230587019263 nucleotide binding site [chemical binding]; other site 1230587019264 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1230587019265 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1230587019266 metal binding site [ion binding]; metal-binding site 1230587019267 dimer interface [polypeptide binding]; other site 1230587019268 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1230587019269 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 1230587019270 putative active site [active] 1230587019271 putative metal binding site [ion binding]; other site 1230587019272 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1230587019273 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587019274 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587019275 Walker A/P-loop; other site 1230587019276 ATP binding site [chemical binding]; other site 1230587019277 Q-loop/lid; other site 1230587019278 ABC transporter signature motif; other site 1230587019279 Walker B; other site 1230587019280 D-loop; other site 1230587019281 H-loop/switch region; other site 1230587019282 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587019283 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587019284 Walker A/P-loop; other site 1230587019285 ATP binding site [chemical binding]; other site 1230587019286 Q-loop/lid; other site 1230587019287 ABC transporter signature motif; other site 1230587019288 Walker B; other site 1230587019289 D-loop; other site 1230587019290 H-loop/switch region; other site 1230587019291 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587019292 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587019293 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019294 dimer interface [polypeptide binding]; other site 1230587019295 conserved gate region; other site 1230587019296 putative PBP binding loops; other site 1230587019297 ABC-ATPase subunit interface; other site 1230587019298 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587019299 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019300 dimer interface [polypeptide binding]; other site 1230587019301 conserved gate region; other site 1230587019302 putative PBP binding loops; other site 1230587019303 ABC-ATPase subunit interface; other site 1230587019304 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587019305 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1230587019306 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1230587019307 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 1230587019308 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 1230587019309 putative N- and C-terminal domain interface [polypeptide binding]; other site 1230587019310 putative active site [active] 1230587019311 putative MgATP binding site [chemical binding]; other site 1230587019312 catalytic site [active] 1230587019313 metal binding site [ion binding]; metal-binding site 1230587019314 putative carbohydrate binding site [chemical binding]; other site 1230587019315 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1230587019316 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587019317 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1230587019318 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587019319 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 1230587019320 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587019321 Walker A/P-loop; other site 1230587019322 ATP binding site [chemical binding]; other site 1230587019323 Q-loop/lid; other site 1230587019324 ABC transporter signature motif; other site 1230587019325 Walker B; other site 1230587019326 D-loop; other site 1230587019327 H-loop/switch region; other site 1230587019328 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587019329 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 1230587019330 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587019331 TM-ABC transporter signature motif; other site 1230587019332 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587019333 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 1230587019334 TM-ABC transporter signature motif; other site 1230587019335 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 1230587019336 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1230587019337 Uncharacterized conserved protein [Function unknown]; Region: COG3347 1230587019338 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 1230587019339 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1230587019340 dimer interface [polypeptide binding]; other site 1230587019341 substrate binding site [chemical binding]; other site 1230587019342 metal binding site [ion binding]; metal-binding site 1230587019343 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1230587019344 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1230587019345 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1230587019346 Acid Phosphatase; Region: Acid_PPase; cl17256 1230587019347 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1230587019348 active site 1230587019349 NTP binding site [chemical binding]; other site 1230587019350 metal binding triad [ion binding]; metal-binding site 1230587019351 antibiotic binding site [chemical binding]; other site 1230587019352 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1230587019353 GSCFA family; Region: GSCFA; pfam08885 1230587019354 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1230587019355 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1230587019356 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1230587019357 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1230587019358 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587019359 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587019360 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587019361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587019362 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587019363 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587019364 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587019365 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1230587019366 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1230587019367 Right handed beta helix region; Region: Beta_helix; pfam13229 1230587019368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587019369 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587019370 Transposase; Region: HTH_Tnp_1; pfam01527 1230587019371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1230587019372 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1230587019373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587019374 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1230587019375 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1230587019376 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1230587019377 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1230587019378 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1230587019379 Transposase; Region: HTH_Tnp_1; cl17663 1230587019380 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1230587019381 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1230587019382 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1230587019383 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1230587019384 Walker A/P-loop; other site 1230587019385 ATP binding site [chemical binding]; other site 1230587019386 Q-loop/lid; other site 1230587019387 ABC transporter signature motif; other site 1230587019388 Walker B; other site 1230587019389 D-loop; other site 1230587019390 H-loop/switch region; other site 1230587019391 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 1230587019392 pseudaminic acid synthase; Region: PseI; TIGR03586 1230587019393 NeuB family; Region: NeuB; pfam03102 1230587019394 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1230587019395 NeuB binding interface [polypeptide binding]; other site 1230587019396 putative substrate binding site [chemical binding]; other site 1230587019397 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 1230587019398 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1230587019399 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1230587019400 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 1230587019401 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1230587019402 ligand binding site; other site 1230587019403 tetramer interface; other site 1230587019404 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1230587019405 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 1230587019406 inhibitor-cofactor binding pocket; inhibition site 1230587019407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587019408 catalytic residue [active] 1230587019409 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1230587019410 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1230587019411 NAD(P) binding site [chemical binding]; other site 1230587019412 homodimer interface [polypeptide binding]; other site 1230587019413 substrate binding site [chemical binding]; other site 1230587019414 active site 1230587019415 Ketopantoate hydroxymethyltransferase [Coenzyme metabolism]; Region: PanB; COG0413 1230587019416 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1230587019417 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587019418 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1230587019419 [2Fe-2S] cluster binding site [ion binding]; other site 1230587019420 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1230587019421 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 1230587019422 putative di-iron ligands [ion binding]; other site 1230587019423 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587019424 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587019425 DNA binding site [nucleotide binding] 1230587019426 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1230587019427 putative ligand binding site [chemical binding]; other site 1230587019428 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1230587019429 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1230587019430 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1230587019431 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1230587019432 Transposase domain (DUF772); Region: DUF772; pfam05598 1230587019433 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1230587019434 Hint domain; Region: Hint_2; pfam13403 1230587019435 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587019436 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 1230587019437 DNA binding residues [nucleotide binding] 1230587019438 dimerization interface [polypeptide binding]; other site 1230587019439 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587019440 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 1230587019441 active site 1230587019442 phosphorylation site [posttranslational modification] 1230587019443 intermolecular recognition site; other site 1230587019444 dimerization interface [polypeptide binding]; other site 1230587019445 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 1230587019446 DNA binding residues [nucleotide binding] 1230587019447 dimerization interface [polypeptide binding]; other site 1230587019448 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587019449 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 1230587019450 DNA binding residues [nucleotide binding] 1230587019451 dimerization interface [polypeptide binding]; other site 1230587019452 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1230587019453 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1230587019454 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1230587019455 substrate binding site; other site 1230587019456 tetramer interface; other site 1230587019457 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1230587019458 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1230587019459 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1230587019460 NAD binding site [chemical binding]; other site 1230587019461 substrate binding site [chemical binding]; other site 1230587019462 homodimer interface [polypeptide binding]; other site 1230587019463 active site 1230587019464 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1230587019465 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1230587019466 NADP binding site [chemical binding]; other site 1230587019467 active site 1230587019468 putative substrate binding site [chemical binding]; other site 1230587019469 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1230587019470 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 1230587019471 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1230587019472 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 1230587019473 inhibitor-cofactor binding pocket; inhibition site 1230587019474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587019475 catalytic residue [active] 1230587019476 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587019477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587019478 NAD(P) binding site [chemical binding]; other site 1230587019479 active site 1230587019480 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1230587019481 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1230587019482 putative CoA binding site [chemical binding]; other site 1230587019483 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1230587019484 putative trimer interface [polypeptide binding]; other site 1230587019485 putative CoA binding site [chemical binding]; other site 1230587019486 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1230587019487 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 1230587019488 inhibitor-cofactor binding pocket; inhibition site 1230587019489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587019490 catalytic residue [active] 1230587019491 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587019492 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587019493 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587019494 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1230587019495 putative trimer interface [polypeptide binding]; other site 1230587019496 putative active site [active] 1230587019497 putative substrate binding site [chemical binding]; other site 1230587019498 putative CoA binding site [chemical binding]; other site 1230587019499 Bacterial Ig-like domain; Region: Big_5; pfam13205 1230587019500 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1230587019501 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1230587019502 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1230587019503 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 1230587019504 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1230587019505 Right handed beta helix region; Region: Beta_helix; pfam13229 1230587019506 Right handed beta helix region; Region: Beta_helix; pfam13229 1230587019507 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1230587019508 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1230587019509 putative active site [active] 1230587019510 putative NTP binding site [chemical binding]; other site 1230587019511 putative nucleic acid binding site [nucleotide binding]; other site 1230587019512 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1230587019513 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1230587019514 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1230587019515 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1230587019516 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587019517 UDP-galactopyranose mutase; Region: GLF; pfam03275 1230587019518 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1230587019519 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 1230587019520 Probable Catalytic site; other site 1230587019521 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1230587019522 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1230587019523 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1230587019524 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1230587019525 putative active site [active] 1230587019526 putative NTP binding site [chemical binding]; other site 1230587019527 putative nucleic acid binding site [nucleotide binding]; other site 1230587019528 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1230587019529 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587019530 Homeodomain-like domain; Region: HTH_32; pfam13565 1230587019531 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1230587019532 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1230587019533 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 1230587019534 S-adenosylmethionine binding site [chemical binding]; other site 1230587019535 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1230587019536 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 1230587019537 putative active site [active] 1230587019538 putative metal binding site [ion binding]; other site 1230587019539 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1230587019540 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 1230587019541 active site 1230587019542 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 1230587019543 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1230587019544 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 1230587019545 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 1230587019546 dimer interface [polypeptide binding]; other site 1230587019547 active site 1230587019548 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1230587019549 catalytic residues [active] 1230587019550 substrate binding site [chemical binding]; other site 1230587019551 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 1230587019552 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1230587019553 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 1230587019554 acyl-activating enzyme (AAE) consensus motif; other site 1230587019555 putative AMP binding site [chemical binding]; other site 1230587019556 putative active site [active] 1230587019557 putative CoA binding site [chemical binding]; other site 1230587019558 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1230587019559 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587019560 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 1230587019561 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 1230587019562 active site 1230587019563 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1230587019564 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587019565 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1230587019566 Walker A/P-loop; other site 1230587019567 ATP binding site [chemical binding]; other site 1230587019568 Q-loop/lid; other site 1230587019569 ABC transporter signature motif; other site 1230587019570 Walker B; other site 1230587019571 D-loop; other site 1230587019572 H-loop/switch region; other site 1230587019573 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1230587019574 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587019575 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587019576 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 1230587019577 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1230587019578 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1230587019579 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1230587019580 Walker A/P-loop; other site 1230587019581 ATP binding site [chemical binding]; other site 1230587019582 Q-loop/lid; other site 1230587019583 ABC transporter signature motif; other site 1230587019584 Walker B; other site 1230587019585 D-loop; other site 1230587019586 H-loop/switch region; other site 1230587019587 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1230587019588 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1230587019589 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1230587019590 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 1230587019591 putative active site [active] 1230587019592 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 1230587019593 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1230587019594 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1230587019595 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 1230587019596 active site 1230587019597 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1230587019598 Glycosyltransferase family 92; Region: Glyco_transf_92; pfam01697 1230587019599 active site 1230587019600 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1230587019601 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1230587019602 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; cl00207 1230587019603 metal-binding site [ion binding] 1230587019604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1230587019605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4333 1230587019606 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1230587019607 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1230587019608 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1230587019609 MT-A70; Region: MT-A70; cl01947 1230587019610 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1230587019611 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 1230587019612 binding surface 1230587019613 TPR motif; other site 1230587019614 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587019615 cyclase homology domain; Region: CHD; cd07302 1230587019616 nucleotidyl binding site; other site 1230587019617 metal binding site [ion binding]; metal-binding site 1230587019618 dimer interface [polypeptide binding]; other site 1230587019619 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587019620 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 1230587019621 TPR motif; other site 1230587019622 binding surface 1230587019623 Ribosomal_L32_L32e: L32 is a protein from the large subunit that contains a surface-exposed globular domain and a finger-like projection that extends into the RNA core to stabilize the tertiary structure. L32 does not appear to play a role in forming the...; Region: Ribosomal_L32_L32e; cl00748 1230587019624 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587019625 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587019626 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587019627 DNA binding site [nucleotide binding] 1230587019628 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587019629 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587019630 ligand binding site [chemical binding]; other site 1230587019631 dimerization interface [polypeptide binding]; other site 1230587019632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4289 1230587019633 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 1230587019634 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1230587019635 putative ligand binding site [chemical binding]; other site 1230587019636 putative NAD binding site [chemical binding]; other site 1230587019637 catalytic site [active] 1230587019638 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1230587019639 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1230587019640 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1230587019641 PRC-barrel domain; Region: PRC; pfam05239 1230587019642 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1230587019643 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1230587019644 response regulator; Provisional; Region: PRK13435 1230587019645 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1230587019646 CheB methylesterase; Region: CheB_methylest; pfam01339 1230587019647 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1230587019648 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1230587019649 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1230587019650 PAS domain; Region: PAS_10; pfam13596 1230587019651 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 1230587019652 putative active site [active] 1230587019653 heme pocket [chemical binding]; other site 1230587019654 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 1230587019655 PAS domain; Region: PAS_9; pfam13426 1230587019656 putative active site [active] 1230587019657 heme pocket [chemical binding]; other site 1230587019658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1230587019659 HWE histidine kinase; Region: HWE_HK; pfam07536 1230587019660 CheB methylesterase; Region: CheB_methylest; pfam01339 1230587019661 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 1230587019662 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1230587019663 putative active site [active] 1230587019664 short chain dehydrogenase; Provisional; Region: PRK07063 1230587019665 classical (c) SDRs; Region: SDR_c; cd05233 1230587019666 NAD(P) binding site [chemical binding]; other site 1230587019667 active site 1230587019668 galactonate dehydratase; Provisional; Region: PRK14017 1230587019669 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 1230587019670 putative active site pocket [active] 1230587019671 putative metal binding site [ion binding]; other site 1230587019672 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587019673 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587019674 DNA-binding site [nucleotide binding]; DNA binding site 1230587019675 FCD domain; Region: FCD; pfam07729 1230587019676 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 1230587019677 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1230587019678 ligand binding site [chemical binding]; other site 1230587019679 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 1230587019680 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587019681 Walker A/P-loop; other site 1230587019682 ATP binding site [chemical binding]; other site 1230587019683 Q-loop/lid; other site 1230587019684 ABC transporter signature motif; other site 1230587019685 Walker B; other site 1230587019686 D-loop; other site 1230587019687 H-loop/switch region; other site 1230587019688 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587019689 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587019690 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 1230587019691 TM-ABC transporter signature motif; other site 1230587019692 Phosphotransferase enzyme family; Region: APH; pfam01636 1230587019693 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 1230587019694 active site 1230587019695 ATP binding site [chemical binding]; other site 1230587019696 substrate binding site [chemical binding]; other site 1230587019697 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587019698 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1230587019699 ligand binding site [chemical binding]; other site 1230587019700 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587019701 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587019702 Walker A/P-loop; other site 1230587019703 ATP binding site [chemical binding]; other site 1230587019704 Q-loop/lid; other site 1230587019705 ABC transporter signature motif; other site 1230587019706 Walker B; other site 1230587019707 D-loop; other site 1230587019708 H-loop/switch region; other site 1230587019709 Methyl-coenzyme M reductase (MCR) gamma subunit. MCR catalyzes the terminal step of methane formation in the energy metabolism of all methanogenic archaea, in which methyl-coenzyme M and coenzyme B are converted to methane and the heterodisulfide of...; Region: MCR_gamma; cl00247 1230587019710 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587019711 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587019712 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 1230587019713 TM-ABC transporter signature motif; other site 1230587019714 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587019715 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 1230587019716 DNA binding residues [nucleotide binding] 1230587019717 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587019718 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 1230587019719 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1230587019720 active site 1230587019721 catalytic tetrad [active] 1230587019722 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1230587019723 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1230587019724 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1230587019725 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1230587019726 putative active site; other site 1230587019727 catalytic residue [active] 1230587019728 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1230587019729 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1230587019730 putative N- and C-terminal domain interface [polypeptide binding]; other site 1230587019731 putative active site [active] 1230587019732 MgATP binding site [chemical binding]; other site 1230587019733 catalytic site [active] 1230587019734 metal binding site [ion binding]; metal-binding site 1230587019735 putative xylulose binding site [chemical binding]; other site 1230587019736 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1230587019737 choline dehydrogenase; Validated; Region: PRK02106 1230587019738 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1230587019739 TPR repeat; Region: TPR_11; pfam13414 1230587019740 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 1230587019741 TPR motif; other site 1230587019742 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 1230587019743 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587019744 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587019745 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1230587019746 putative effector binding pocket; other site 1230587019747 putative dimerization interface [polypeptide binding]; other site 1230587019748 short chain dehydrogenase; Provisional; Region: PRK12937 1230587019749 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1230587019750 NADP binding site [chemical binding]; other site 1230587019751 homodimer interface [polypeptide binding]; other site 1230587019752 active site 1230587019753 substrate binding site [chemical binding]; other site 1230587019754 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1230587019755 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1230587019756 NADP binding site [chemical binding]; other site 1230587019757 active site 1230587019758 steroid binding site; other site 1230587019759 Isochorismatase family; Region: Isochorismatase; pfam00857 1230587019760 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1230587019761 catalytic triad [active] 1230587019762 conserved cis-peptide bond; other site 1230587019763 Bacterial protein of unknown function (DUF899); Region: DUF899; cl17828 1230587019764 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1230587019765 intersubunit interface [polypeptide binding]; other site 1230587019766 active site 1230587019767 Zn2+ binding site [ion binding]; other site 1230587019768 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 1230587019769 N- and C-terminal domain interface [polypeptide binding]; other site 1230587019770 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1230587019771 putative active site [active] 1230587019772 putative MgATP binding site [chemical binding]; other site 1230587019773 putative catalytic site [active] 1230587019774 metal binding site [ion binding]; metal-binding site 1230587019775 putative carbohydrate binding site [chemical binding]; other site 1230587019776 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1230587019777 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 1230587019778 DNA interaction; other site 1230587019779 Metal-binding active site; metal-binding site 1230587019780 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 1230587019781 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587019782 TM-ABC transporter signature motif; other site 1230587019783 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587019784 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 1230587019785 TM-ABC transporter signature motif; other site 1230587019786 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587019787 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587019788 Walker A/P-loop; other site 1230587019789 ATP binding site [chemical binding]; other site 1230587019790 Q-loop/lid; other site 1230587019791 ABC transporter signature motif; other site 1230587019792 Walker B; other site 1230587019793 D-loop; other site 1230587019794 H-loop/switch region; other site 1230587019795 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587019796 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1230587019797 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587019798 ligand binding site [chemical binding]; other site 1230587019799 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587019800 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1230587019801 dimerization interface [polypeptide binding]; other site 1230587019802 ligand binding site [chemical binding]; other site 1230587019803 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1230587019804 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1230587019805 Coenzyme A binding pocket [chemical binding]; other site 1230587019806 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1230587019807 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1230587019808 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1230587019809 active site 1230587019810 dimer interface [polypeptide binding]; other site 1230587019811 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1230587019812 Ligand Binding Site [chemical binding]; other site 1230587019813 Molecular Tunnel; other site 1230587019814 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587019815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587019816 DNA-binding site [nucleotide binding]; DNA binding site 1230587019817 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587019818 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1230587019819 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587019820 Walker A/P-loop; other site 1230587019821 ATP binding site [chemical binding]; other site 1230587019822 Q-loop/lid; other site 1230587019823 ABC transporter signature motif; other site 1230587019824 Walker B; other site 1230587019825 D-loop; other site 1230587019826 H-loop/switch region; other site 1230587019827 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587019828 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1230587019829 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019830 dimer interface [polypeptide binding]; other site 1230587019831 conserved gate region; other site 1230587019832 putative PBP binding loops; other site 1230587019833 ABC-ATPase subunit interface; other site 1230587019834 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1230587019835 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587019836 Walker A/P-loop; other site 1230587019837 ATP binding site [chemical binding]; other site 1230587019838 Q-loop/lid; other site 1230587019839 ABC transporter signature motif; other site 1230587019840 Walker B; other site 1230587019841 D-loop; other site 1230587019842 H-loop/switch region; other site 1230587019843 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587019844 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587019845 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019846 dimer interface [polypeptide binding]; other site 1230587019847 conserved gate region; other site 1230587019848 putative PBP binding loops; other site 1230587019849 ABC-ATPase subunit interface; other site 1230587019850 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587019851 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1230587019852 peptide binding site [polypeptide binding]; other site 1230587019853 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1230587019854 dimer interface [polypeptide binding]; other site 1230587019855 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 1230587019856 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1230587019857 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1230587019858 putative oligomer interface [polypeptide binding]; other site 1230587019859 putative active site [active] 1230587019860 metal binding site [ion binding]; metal-binding site 1230587019861 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1230587019862 nucleotide binding site [chemical binding]; other site 1230587019863 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1230587019864 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 1230587019865 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1230587019866 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1230587019867 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 1230587019868 active site 1230587019869 Cellulose synthase-like protein; Region: PLN02893 1230587019870 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1230587019871 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1230587019872 NAD binding site [chemical binding]; other site 1230587019873 homodimer interface [polypeptide binding]; other site 1230587019874 active site 1230587019875 substrate binding site [chemical binding]; other site 1230587019876 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587019877 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1230587019878 NAD binding site [chemical binding]; other site 1230587019879 putative substrate binding site 2 [chemical binding]; other site 1230587019880 putative substrate binding site 1 [chemical binding]; other site 1230587019881 active site 1230587019882 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1230587019883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587019884 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1230587019885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587019886 NAD(P) binding site [chemical binding]; other site 1230587019887 active site 1230587019888 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587019889 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587019890 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1230587019891 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1230587019892 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1230587019893 anti sigma factor interaction site; other site 1230587019894 regulatory phosphorylation site [posttranslational modification]; other site 1230587019895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 1230587019896 Cache domain; Region: Cache_1; pfam02743 1230587019897 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 1230587019898 dimerization interface [polypeptide binding]; other site 1230587019899 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1230587019900 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1230587019901 Uncharacterized conserved protein [Function unknown]; Region: COG5439 1230587019902 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1230587019903 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 1230587019904 S-adenosylmethionine binding site [chemical binding]; other site 1230587019905 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587019906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587019907 metal binding site [ion binding]; metal-binding site 1230587019908 active site 1230587019909 I-site; other site 1230587019910 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 1230587019911 mannonate dehydratase; Provisional; Region: PRK03906 1230587019912 mannonate dehydratase; Region: uxuA; TIGR00695 1230587019913 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 1230587019914 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 1230587019915 putative NAD(P) binding site [chemical binding]; other site 1230587019916 catalytic Zn binding site [ion binding]; other site 1230587019917 DctM-like transporters; Region: DctM; pfam06808 1230587019918 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1230587019919 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587019920 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587019921 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1230587019922 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587019923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587019924 DNA-binding site [nucleotide binding]; DNA binding site 1230587019925 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1230587019926 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 1230587019927 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 1230587019928 putative active site [active] 1230587019929 Zn binding site [ion binding]; other site 1230587019930 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 1230587019931 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1230587019932 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 1230587019933 active site 1230587019934 ectoine utilization protein EutC; Validated; Region: PRK08291 1230587019935 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1230587019936 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1230587019937 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 1230587019938 tetramer interface [polypeptide binding]; other site 1230587019939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587019940 catalytic residue [active] 1230587019941 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1230587019942 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587019943 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019944 dimer interface [polypeptide binding]; other site 1230587019945 conserved gate region; other site 1230587019946 putative PBP binding loops; other site 1230587019947 ABC-ATPase subunit interface; other site 1230587019948 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587019949 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587019950 dimer interface [polypeptide binding]; other site 1230587019951 conserved gate region; other site 1230587019952 putative PBP binding loops; other site 1230587019953 ABC-ATPase subunit interface; other site 1230587019954 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1230587019955 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 1230587019956 substrate binding pocket [chemical binding]; other site 1230587019957 membrane-bound complex binding site; other site 1230587019958 hinge residues; other site 1230587019959 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 1230587019960 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587019961 Walker A/P-loop; other site 1230587019962 ATP binding site [chemical binding]; other site 1230587019963 Q-loop/lid; other site 1230587019964 ABC transporter signature motif; other site 1230587019965 Walker B; other site 1230587019966 D-loop; other site 1230587019967 H-loop/switch region; other site 1230587019968 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 1230587019969 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587019970 DNA-binding site [nucleotide binding]; DNA binding site 1230587019971 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 1230587019972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587019973 homodimer interface [polypeptide binding]; other site 1230587019974 catalytic residue [active] 1230587019975 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1230587019976 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 1230587019977 putative DNA binding site [nucleotide binding]; other site 1230587019978 putative Zn2+ binding site [ion binding]; other site 1230587019979 AsnC family; Region: AsnC_trans_reg; pfam01037 1230587019980 succinic semialdehyde dehydrogenase; Region: PLN02278 1230587019981 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1230587019982 tetramerization interface [polypeptide binding]; other site 1230587019983 NAD(P) binding site [chemical binding]; other site 1230587019984 catalytic residues [active] 1230587019985 hypothetical protein; Provisional; Region: PRK07482 1230587019986 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 1230587019987 inhibitor-cofactor binding pocket; inhibition site 1230587019988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587019989 catalytic residue [active] 1230587019990 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 1230587019991 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587019992 putative NAD(P) binding site [chemical binding]; other site 1230587019993 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1230587019994 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1230587019995 putative C-terminal domain interface [polypeptide binding]; other site 1230587019996 putative GSH binding site (G-site) [chemical binding]; other site 1230587019997 putative dimer interface [polypeptide binding]; other site 1230587019998 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1230587019999 dimer interface [polypeptide binding]; other site 1230587020000 N-terminal domain interface [polypeptide binding]; other site 1230587020001 putative substrate binding pocket (H-site) [chemical binding]; other site 1230587020002 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587020003 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587020004 Walker A/P-loop; other site 1230587020005 ATP binding site [chemical binding]; other site 1230587020006 Q-loop/lid; other site 1230587020007 ABC transporter signature motif; other site 1230587020008 Walker B; other site 1230587020009 D-loop; other site 1230587020010 H-loop/switch region; other site 1230587020011 TOBE domain; Region: TOBE_2; pfam08402 1230587020012 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587020013 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020014 dimer interface [polypeptide binding]; other site 1230587020015 conserved gate region; other site 1230587020016 ABC-ATPase subunit interface; other site 1230587020017 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1230587020018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020019 dimer interface [polypeptide binding]; other site 1230587020020 conserved gate region; other site 1230587020021 putative PBP binding loops; other site 1230587020022 ABC-ATPase subunit interface; other site 1230587020023 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1230587020024 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587020025 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1230587020026 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587020027 putative NAD(P) binding site [chemical binding]; other site 1230587020028 active site 1230587020029 DoxX-like family; Region: DoxX_3; pfam13781 1230587020030 Predicted integral membrane protein [Function unknown]; Region: COG5528 1230587020031 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1230587020032 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1230587020033 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1230587020034 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1230587020035 classical (c) SDRs; Region: SDR_c; cd05233 1230587020036 NAD(P) binding site [chemical binding]; other site 1230587020037 active site 1230587020038 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 1230587020039 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 1230587020040 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1230587020041 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1230587020042 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1230587020043 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1230587020044 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1230587020045 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587020046 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 1230587020047 DNA binding residues [nucleotide binding] 1230587020048 dimerization interface [polypeptide binding]; other site 1230587020049 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587020050 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587020051 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587020052 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587020053 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587020054 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1230587020055 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 1230587020056 catalytic loop [active] 1230587020057 iron binding site [ion binding]; other site 1230587020058 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587020059 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1230587020060 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1230587020061 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1230587020062 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 1230587020063 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 1230587020064 putative active site [active] 1230587020065 putative metal binding site [ion binding]; other site 1230587020066 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1230587020067 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 1230587020068 catalytic loop [active] 1230587020069 iron binding site [ion binding]; other site 1230587020070 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587020071 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1230587020072 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1230587020073 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587020074 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587020075 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587020076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1230587020077 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 1230587020078 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 1230587020079 dimer interface [polypeptide binding]; other site 1230587020080 active site 1230587020081 catalytic residue [active] 1230587020082 metal binding site [ion binding]; metal-binding site 1230587020083 transcriptional regulator NanR; Provisional; Region: PRK03837 1230587020084 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587020085 DNA-binding site [nucleotide binding]; DNA binding site 1230587020086 Ribosomal protein S19e; Region: Ribosomal_S19e; cl00969 1230587020087 FCD domain; Region: FCD; pfam07729 1230587020088 Cellulose synthase-like protein; Region: PLN02893 1230587020089 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1230587020090 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1230587020091 DXD motif; other site 1230587020092 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1230587020093 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587020094 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1230587020095 GAF domain; Region: GAF; pfam01590 1230587020096 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1230587020097 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1230587020098 metal binding site [ion binding]; metal-binding site 1230587020099 active site 1230587020100 I-site; other site 1230587020101 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 1230587020102 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1230587020103 NAD(P) binding site [chemical binding]; other site 1230587020104 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1230587020105 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1230587020106 Bacterial transcriptional regulator; Region: IclR; pfam01614 1230587020107 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1230587020108 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1230587020109 active site 1230587020110 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587020111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587020112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020113 dimer interface [polypeptide binding]; other site 1230587020114 putative PBP binding loops; other site 1230587020115 ABC-ATPase subunit interface; other site 1230587020116 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587020117 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020118 dimer interface [polypeptide binding]; other site 1230587020119 conserved gate region; other site 1230587020120 putative PBP binding loops; other site 1230587020121 ABC-ATPase subunit interface; other site 1230587020122 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587020123 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1230587020124 Walker A/P-loop; other site 1230587020125 ATP binding site [chemical binding]; other site 1230587020126 Q-loop/lid; other site 1230587020127 ABC transporter signature motif; other site 1230587020128 Walker B; other site 1230587020129 D-loop; other site 1230587020130 H-loop/switch region; other site 1230587020131 aminotransferase; Provisional; Region: PRK06105 1230587020132 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 1230587020133 inhibitor-cofactor binding pocket; inhibition site 1230587020134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587020135 catalytic residue [active] 1230587020136 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1230587020137 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1230587020138 tetramerization interface [polypeptide binding]; other site 1230587020139 NAD(P) binding site [chemical binding]; other site 1230587020140 catalytic residues [active] 1230587020141 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 1230587020142 homotrimer interaction site [polypeptide binding]; other site 1230587020143 putative active site [active] 1230587020144 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 1230587020145 homotrimer interaction site [polypeptide binding]; other site 1230587020146 putative active site [active] 1230587020147 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587020148 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587020149 DNA-binding site [nucleotide binding]; DNA binding site 1230587020150 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587020151 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587020152 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1230587020153 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587020154 DctM-like transporters; Region: DctM; pfam06808 1230587020155 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1230587020156 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1230587020157 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1230587020158 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1230587020159 Walker A/P-loop; other site 1230587020160 ATP binding site [chemical binding]; other site 1230587020161 Q-loop/lid; other site 1230587020162 ABC transporter signature motif; other site 1230587020163 Walker B; other site 1230587020164 D-loop; other site 1230587020165 H-loop/switch region; other site 1230587020166 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1230587020167 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1230587020168 FtsX-like permease family; Region: FtsX; pfam02687 1230587020169 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1230587020170 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587020171 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587020172 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587020173 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587020174 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587020175 DNA binding site [nucleotide binding] 1230587020176 domain linker motif; other site 1230587020177 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 1230587020178 putative dimerization interface [polypeptide binding]; other site 1230587020179 putative ligand binding site [chemical binding]; other site 1230587020180 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587020181 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587020182 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587020183 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020184 dimer interface [polypeptide binding]; other site 1230587020185 conserved gate region; other site 1230587020186 putative PBP binding loops; other site 1230587020187 ABC-ATPase subunit interface; other site 1230587020188 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020189 dimer interface [polypeptide binding]; other site 1230587020190 conserved gate region; other site 1230587020191 putative PBP binding loops; other site 1230587020192 ABC-ATPase subunit interface; other site 1230587020193 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587020194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587020195 Walker A/P-loop; other site 1230587020196 ATP binding site [chemical binding]; other site 1230587020197 Q-loop/lid; other site 1230587020198 ABC transporter signature motif; other site 1230587020199 Walker B; other site 1230587020200 D-loop; other site 1230587020201 H-loop/switch region; other site 1230587020202 TOBE domain; Region: TOBE_2; pfam08402 1230587020203 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587020204 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 1230587020205 active site 1230587020206 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1230587020207 Ion channel; Region: Ion_trans_2; pfam07885 1230587020208 Predicted periplasmic protein [Function unknown]; Region: COG3904 1230587020209 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1230587020210 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 1230587020211 phosphorylation site [posttranslational modification] 1230587020212 dimer interface [polypeptide binding]; other site 1230587020213 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587020214 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 1230587020215 active site 1230587020216 phosphorylation site [posttranslational modification] 1230587020217 intermolecular recognition site; other site 1230587020218 dimerization interface [polypeptide binding]; other site 1230587020219 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1230587020220 cyclase homology domain; Region: CHD; cd07302 1230587020221 nucleotidyl binding site; other site 1230587020222 metal binding site [ion binding]; metal-binding site 1230587020223 dimer interface [polypeptide binding]; other site 1230587020224 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587020225 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 1230587020226 active site 1230587020227 phosphorylation site [posttranslational modification] 1230587020228 intermolecular recognition site; other site 1230587020229 dimerization interface [polypeptide binding]; other site 1230587020230 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 1230587020231 dimerization interface [polypeptide binding]; other site 1230587020232 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1230587020233 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 1230587020234 dimer interface [polypeptide binding]; other site 1230587020235 phosphorylation site [posttranslational modification] 1230587020236 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 1230587020237 ATP binding site [chemical binding]; other site 1230587020238 Mg2+ binding site [ion binding]; other site 1230587020239 G-X-G motif; other site 1230587020240 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 1230587020241 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587020242 active site 1230587020243 phosphorylation site [posttranslational modification] 1230587020244 intermolecular recognition site; other site 1230587020245 dimerization interface [polypeptide binding]; other site 1230587020246 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1230587020247 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 1230587020248 active site 1230587020249 phosphorylation site [posttranslational modification] 1230587020250 intermolecular recognition site; other site 1230587020251 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1230587020252 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587020253 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587020254 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587020255 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 1230587020256 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587020257 TM-ABC transporter signature motif; other site 1230587020258 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587020259 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587020260 Walker A/P-loop; other site 1230587020261 ATP binding site [chemical binding]; other site 1230587020262 Q-loop/lid; other site 1230587020263 ABC transporter signature motif; other site 1230587020264 Walker B; other site 1230587020265 D-loop; other site 1230587020266 H-loop/switch region; other site 1230587020267 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587020268 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5618 1230587020269 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1230587020270 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587020271 ligand binding site [chemical binding]; other site 1230587020272 dimerization interface [polypeptide binding]; other site 1230587020273 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1230587020274 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587020275 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587020276 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1230587020277 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1230587020278 HlyD family secretion protein; Region: HlyD_3; pfam13437 1230587020279 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1230587020280 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1230587020281 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1230587020282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587020283 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1230587020284 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 1230587020285 catalytic loop [active] 1230587020286 iron binding site [ion binding]; other site 1230587020287 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587020288 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587020289 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587020290 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587020291 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587020292 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 1230587020293 putative substrate translocation pore; other site 1230587020294 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1230587020295 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1230587020296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1230587020297 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1230587020298 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1230587020299 SPW repeat; Region: SPW; pfam03779 1230587020300 SPW repeat; Region: SPW; pfam03779 1230587020301 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587020302 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587020303 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587020304 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 1230587020305 conserved cys residue [active] 1230587020306 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587020307 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587020308 Walker A/P-loop; other site 1230587020309 ATP binding site [chemical binding]; other site 1230587020310 Q-loop/lid; other site 1230587020311 ABC transporter signature motif; other site 1230587020312 Walker B; other site 1230587020313 D-loop; other site 1230587020314 H-loop/switch region; other site 1230587020315 TOBE domain; Region: TOBE_2; pfam08402 1230587020316 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587020317 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020318 dimer interface [polypeptide binding]; other site 1230587020319 conserved gate region; other site 1230587020320 putative PBP binding loops; other site 1230587020321 ABC-ATPase subunit interface; other site 1230587020322 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587020323 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020324 dimer interface [polypeptide binding]; other site 1230587020325 conserved gate region; other site 1230587020326 putative PBP binding loops; other site 1230587020327 ABC-ATPase subunit interface; other site 1230587020328 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587020329 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587020330 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587020331 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587020332 DNA binding site [nucleotide binding] 1230587020333 domain linker motif; other site 1230587020334 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 1230587020335 ligand binding site [chemical binding]; other site 1230587020336 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587020337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587020338 DNA-binding site [nucleotide binding]; DNA binding site 1230587020339 FCD domain; Region: FCD; pfam07729 1230587020340 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587020341 DctM-like transporters; Region: DctM; pfam06808 1230587020342 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1230587020343 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587020344 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1230587020345 Predicted flavoproteins [General function prediction only]; Region: COG2081 1230587020346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1230587020347 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 1230587020348 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587020349 TM-ABC transporter signature motif; other site 1230587020350 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1230587020351 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587020352 Walker A/P-loop; other site 1230587020353 ATP binding site [chemical binding]; other site 1230587020354 Q-loop/lid; other site 1230587020355 ABC transporter signature motif; other site 1230587020356 Walker B; other site 1230587020357 D-loop; other site 1230587020358 H-loop/switch region; other site 1230587020359 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587020360 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1230587020361 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1230587020362 ligand binding site [chemical binding]; other site 1230587020363 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 1230587020364 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587020365 TM-ABC transporter signature motif; other site 1230587020366 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1230587020367 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1230587020368 DAK2 domain; Region: Dak2; pfam02734 1230587020369 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1230587020370 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 1230587020371 DNA binding residues [nucleotide binding] 1230587020372 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1230587020373 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1230587020374 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1230587020375 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1230587020376 DAK2 domain; Region: Dak2; cl03685 1230587020377 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1230587020378 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1230587020379 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587020380 cyclase homology domain; Region: CHD; cd07302 1230587020381 nucleotidyl binding site; other site 1230587020382 metal binding site [ion binding]; metal-binding site 1230587020383 dimer interface [polypeptide binding]; other site 1230587020384 Predicted integral membrane protein [Function unknown]; Region: COG5616 1230587020385 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 1230587020386 binding surface 1230587020387 TPR motif; other site 1230587020388 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 1230587020389 TPR motif; other site 1230587020390 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1230587020391 binding surface 1230587020392 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1230587020393 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1230587020394 inhibitor site; inhibition site 1230587020395 active site 1230587020396 dimer interface [polypeptide binding]; other site 1230587020397 catalytic residue [active] 1230587020398 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587020399 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1230587020400 inhibitor site; inhibition site 1230587020401 active site 1230587020402 dimer interface [polypeptide binding]; other site 1230587020403 catalytic residue [active] 1230587020404 DctM-like transporters; Region: DctM; pfam06808 1230587020405 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1230587020406 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1230587020407 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1230587020408 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1230587020409 transcriptional regulator NanR; Provisional; Region: PRK03837 1230587020410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587020411 DNA-binding site [nucleotide binding]; DNA binding site 1230587020412 FCD domain; Region: FCD; pfam07729 1230587020413 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1230587020414 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1230587020415 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1230587020416 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1230587020417 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1230587020418 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587020419 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587020420 DNA binding site [nucleotide binding] 1230587020421 domain linker motif; other site 1230587020422 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_8; cd06287 1230587020423 putative dimerization interface [polypeptide binding]; other site 1230587020424 putative ligand binding site [chemical binding]; other site 1230587020425 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1230587020426 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1230587020427 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 1230587020428 active site 1230587020429 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1230587020430 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 1230587020431 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587020432 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587020433 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 1230587020434 dimerization interface [polypeptide binding]; other site 1230587020435 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1230587020436 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587020437 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587020438 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020439 ABC-ATPase subunit interface; other site 1230587020440 putative PBP binding loops; other site 1230587020441 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1230587020442 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020443 dimer interface [polypeptide binding]; other site 1230587020444 conserved gate region; other site 1230587020445 putative PBP binding loops; other site 1230587020446 ABC-ATPase subunit interface; other site 1230587020447 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1230587020448 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1230587020449 Walker A/P-loop; other site 1230587020450 ATP binding site [chemical binding]; other site 1230587020451 Q-loop/lid; other site 1230587020452 ABC transporter signature motif; other site 1230587020453 Walker B; other site 1230587020454 D-loop; other site 1230587020455 H-loop/switch region; other site 1230587020456 TOBE domain; Region: TOBE_2; pfam08402 1230587020457 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1230587020458 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1230587020459 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1230587020460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 1230587020461 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1230587020462 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1230587020463 hypothetical protein; Provisional; Region: PRK07483 1230587020464 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 1230587020465 inhibitor-cofactor binding pocket; inhibition site 1230587020466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1230587020467 catalytic residue [active] 1230587020468 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1230587020469 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587020470 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 1230587020471 putative active site [active] 1230587020472 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1230587020473 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 1230587020474 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1230587020475 putative substrate translocation pore; other site 1230587020476 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1230587020477 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1230587020478 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1230587020479 OsmC-like protein; Region: OsmC; cl00767 1230587020480 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1230587020481 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1230587020482 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 1230587020483 substrate binding site [chemical binding]; other site 1230587020484 Protein of unknown function (DUF521); Region: DUF521; pfam04412 1230587020485 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 1230587020486 substrate binding site [chemical binding]; other site 1230587020487 ligand binding site [chemical binding]; other site 1230587020488 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1230587020489 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1230587020490 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1230587020491 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1230587020492 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587020493 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1230587020494 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1230587020495 Walker A/P-loop; other site 1230587020496 ATP binding site [chemical binding]; other site 1230587020497 Q-loop/lid; other site 1230587020498 ABC transporter signature motif; other site 1230587020499 Walker B; other site 1230587020500 D-loop; other site 1230587020501 H-loop/switch region; other site 1230587020502 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020503 dimer interface [polypeptide binding]; other site 1230587020504 conserved gate region; other site 1230587020505 putative PBP binding loops; other site 1230587020506 ABC-ATPase subunit interface; other site 1230587020507 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1230587020508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020509 dimer interface [polypeptide binding]; other site 1230587020510 conserved gate region; other site 1230587020511 putative PBP binding loops; other site 1230587020512 ABC-ATPase subunit interface; other site 1230587020513 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1230587020514 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 1230587020515 substrate binding pocket [chemical binding]; other site 1230587020516 membrane-bound complex binding site; other site 1230587020517 hinge residues; other site 1230587020518 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1230587020519 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1230587020520 dimer interface [polypeptide binding]; other site 1230587020521 NADP binding site [chemical binding]; other site 1230587020522 catalytic residues [active] 1230587020523 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1230587020524 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587020525 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1230587020526 inhibitor site; inhibition site 1230587020527 active site 1230587020528 dimer interface [polypeptide binding]; other site 1230587020529 catalytic residue [active] 1230587020530 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587020531 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587020532 DNA-binding site [nucleotide binding]; DNA binding site 1230587020533 FCD domain; Region: FCD; pfam07729 1230587020534 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1230587020535 cyclase homology domain; Region: CHD; cd07302 1230587020536 nucleotidyl binding site; other site 1230587020537 metal binding site [ion binding]; metal-binding site 1230587020538 dimer interface [polypeptide binding]; other site 1230587020539 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1230587020540 putative hydrophobic ligand binding site [chemical binding]; other site 1230587020541 Predicted membrane protein [Function unknown]; Region: COG4420 1230587020542 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1230587020543 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 1230587020544 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 1230587020545 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 1230587020546 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 1230587020547 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 1230587020548 catalytic core [active] 1230587020549 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 1230587020550 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 1230587020551 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1230587020552 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1230587020553 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1230587020554 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587020555 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 1230587020556 putative NAD(P) binding site [chemical binding]; other site 1230587020557 catalytic Zn binding site [ion binding]; other site 1230587020558 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587020559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1230587020560 NAD(P) binding site [chemical binding]; other site 1230587020561 active site 1230587020562 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 1230587020563 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587020564 NAD binding site [chemical binding]; other site 1230587020565 homotetramer interface [polypeptide binding]; other site 1230587020566 homodimer interface [polypeptide binding]; other site 1230587020567 active site 1230587020568 substrate binding site [chemical binding]; other site 1230587020569 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 1230587020570 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587020571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1230587020572 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1230587020573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1230587020574 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1230587020575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1230587020576 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1230587020577 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1230587020578 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1230587020579 NAD binding site [chemical binding]; other site 1230587020580 putative substrate binding site 2 [chemical binding]; other site 1230587020581 putative substrate binding site 1 [chemical binding]; other site 1230587020582 active site 1230587020583 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1230587020584 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 1230587020585 S-adenosylmethionine binding site [chemical binding]; other site 1230587020586 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1230587020587 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1230587020588 Walker A/P-loop; other site 1230587020589 ATP binding site [chemical binding]; other site 1230587020590 Q-loop/lid; other site 1230587020591 ABC transporter signature motif; other site 1230587020592 Walker B; other site 1230587020593 D-loop; other site 1230587020594 H-loop/switch region; other site 1230587020595 TOBE domain; Region: TOBE_2; pfam08402 1230587020596 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 1230587020597 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1230587020598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020599 dimer interface [polypeptide binding]; other site 1230587020600 conserved gate region; other site 1230587020601 putative PBP binding loops; other site 1230587020602 ABC-ATPase subunit interface; other site 1230587020603 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1230587020604 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020605 ABC-ATPase subunit interface; other site 1230587020606 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1230587020607 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1230587020608 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587020609 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587020610 DNA binding site [nucleotide binding] 1230587020611 domain linker motif; other site 1230587020612 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1230587020613 dimerization interface [polypeptide binding]; other site 1230587020614 ligand binding site [chemical binding]; other site 1230587020615 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1230587020616 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 1230587020617 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1230587020618 BON domain; Region: BON; pfam04972 1230587020619 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1230587020620 Cupin domain; Region: Cupin_2; pfam07883 1230587020621 Epoxide hydrolase N terminus; Region: EHN; pfam06441 1230587020622 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587020623 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1230587020624 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 1230587020625 active site 1230587020626 phosphorylation site [posttranslational modification] 1230587020627 intermolecular recognition site; other site 1230587020628 dimerization interface [polypeptide binding]; other site 1230587020629 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 1230587020630 DNA binding site [nucleotide binding] 1230587020631 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1230587020632 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 1230587020633 dimer interface [polypeptide binding]; other site 1230587020634 phosphorylation site [posttranslational modification] 1230587020635 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 1230587020636 ATP binding site [chemical binding]; other site 1230587020637 Mg2+ binding site [ion binding]; other site 1230587020638 G-X-G motif; other site 1230587020639 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1230587020640 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1230587020641 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587020642 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1230587020643 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1230587020644 conserved cys residue [active] 1230587020645 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587020646 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1230587020647 classical (c) SDRs; Region: SDR_c; cd05233 1230587020648 NAD(P) binding site [chemical binding]; other site 1230587020649 active site 1230587020650 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1230587020651 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1230587020652 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1230587020653 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1230587020654 catalytic residues [active] 1230587020655 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1230587020656 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1230587020657 potential catalytic triad [active] 1230587020658 conserved cys residue [active] 1230587020659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587020660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587020661 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1230587020662 putative effector binding pocket; other site 1230587020663 putative dimerization interface [polypeptide binding]; other site 1230587020664 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1230587020665 classical (c) SDRs; Region: SDR_c; cd05233 1230587020666 NAD(P) binding site [chemical binding]; other site 1230587020667 active site 1230587020668 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1230587020669 active site 1 [active] 1230587020670 dimer interface [polypeptide binding]; other site 1230587020671 hexamer interface [polypeptide binding]; other site 1230587020672 active site 2 [active] 1230587020673 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1230587020674 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 1230587020675 FeS/SAM binding site; other site 1230587020676 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1230587020677 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 1230587020678 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1230587020679 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1230587020680 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1230587020681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587020682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587020683 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 1230587020684 putative dimerization interface [polypeptide binding]; other site 1230587020685 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1230587020686 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 1230587020687 AMP binding site [chemical binding]; other site 1230587020688 metal binding site [ion binding]; metal-binding site 1230587020689 active site 1230587020690 phosphoribulokinase; Provisional; Region: PRK15453 1230587020691 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1230587020692 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 1230587020693 TPP-binding site [chemical binding]; other site 1230587020694 dimer interface [polypeptide binding]; other site 1230587020695 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 1230587020696 PYR/PP interface [polypeptide binding]; other site 1230587020697 dimer interface [polypeptide binding]; other site 1230587020698 TPP binding site [chemical binding]; other site 1230587020699 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1230587020700 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1230587020701 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 1230587020702 intersubunit interface [polypeptide binding]; other site 1230587020703 active site 1230587020704 zinc binding site [ion binding]; other site 1230587020705 Na+ binding site [ion binding]; other site 1230587020706 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 1230587020707 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 1230587020708 homodimer interface [polypeptide binding]; other site 1230587020709 active site 1230587020710 heterodimer interface [polypeptide binding]; other site 1230587020711 catalytic residue [active] 1230587020712 metal binding site [ion binding]; metal-binding site 1230587020713 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 1230587020714 multimerization interface [polypeptide binding]; other site 1230587020715 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 1230587020716 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 1230587020717 Walker A motif; other site 1230587020718 ATP binding site [chemical binding]; other site 1230587020719 Walker B motif; other site 1230587020720 arginine finger; other site 1230587020721 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1230587020722 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 1230587020723 substrate binding site [chemical binding]; other site 1230587020724 hexamer interface [polypeptide binding]; other site 1230587020725 metal binding site [ion binding]; metal-binding site 1230587020726 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1230587020727 putative catalytic residue [active] 1230587020728 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 1230587020729 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1230587020730 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 1230587020731 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1230587020732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587020733 Walker A/P-loop; other site 1230587020734 ATP binding site [chemical binding]; other site 1230587020735 Q-loop/lid; other site 1230587020736 ABC transporter signature motif; other site 1230587020737 Walker B; other site 1230587020738 D-loop; other site 1230587020739 H-loop/switch region; other site 1230587020740 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1230587020741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587020742 Walker A/P-loop; other site 1230587020743 ATP binding site [chemical binding]; other site 1230587020744 Q-loop/lid; other site 1230587020745 ABC transporter signature motif; other site 1230587020746 Walker B; other site 1230587020747 D-loop; other site 1230587020748 H-loop/switch region; other site 1230587020749 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1230587020750 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020751 dimer interface [polypeptide binding]; other site 1230587020752 conserved gate region; other site 1230587020753 putative PBP binding loops; other site 1230587020754 ABC-ATPase subunit interface; other site 1230587020755 NMT1/THI5 like; Region: NMT1; pfam09084 1230587020756 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 1230587020757 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1230587020758 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 1230587020759 structural tetrad; other site 1230587020760 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1230587020761 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 1230587020762 ligand binding site [chemical binding]; other site 1230587020763 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 1230587020764 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1230587020765 active site residue [active] 1230587020766 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 1230587020767 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 1230587020768 substrate binding pocket [chemical binding]; other site 1230587020769 membrane-bound complex binding site; other site 1230587020770 hinge residues; other site 1230587020771 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1230587020772 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 1230587020773 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1230587020774 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 1230587020775 Trp docking motif [polypeptide binding]; other site 1230587020776 dimer interface [polypeptide binding]; other site 1230587020777 active site 1230587020778 small subunit binding site [polypeptide binding]; other site 1230587020779 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1230587020780 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1230587020781 S-formylglutathione hydrolase; Region: PLN02442 1230587020782 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1230587020783 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1230587020784 substrate binding site [chemical binding]; other site 1230587020785 catalytic Zn binding site [ion binding]; other site 1230587020786 NAD binding site [chemical binding]; other site 1230587020787 structural Zn binding site [ion binding]; other site 1230587020788 dimer interface [polypeptide binding]; other site 1230587020789 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1230587020790 Predicted secreted protein [Function unknown]; Region: COG5501 1230587020791 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1230587020792 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1230587020793 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1230587020794 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 1230587020795 dimer interface [polypeptide binding]; other site 1230587020796 phosphorylation site [posttranslational modification] 1230587020797 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 1230587020798 ATP binding site [chemical binding]; other site 1230587020799 Mg2+ binding site [ion binding]; other site 1230587020800 G-X-G motif; other site 1230587020801 Response regulator receiver domain; Region: Response_reg; pfam00072 1230587020802 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 1230587020803 active site 1230587020804 phosphorylation site [posttranslational modification] 1230587020805 intermolecular recognition site; other site 1230587020806 dimerization interface [polypeptide binding]; other site 1230587020807 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1230587020808 FIST N domain; Region: FIST; pfam08495 1230587020809 FIST C domain; Region: FIST_C; pfam10442 1230587020810 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587020811 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 1230587020812 active site 1230587020813 phosphorylation site [posttranslational modification] 1230587020814 intermolecular recognition site; other site 1230587020815 dimerization interface [polypeptide binding]; other site 1230587020816 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 1230587020817 DNA binding residues [nucleotide binding] 1230587020818 dimerization interface [polypeptide binding]; other site 1230587020819 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1230587020820 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1230587020821 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1230587020822 active site 1230587020823 catalytic residues [active] 1230587020824 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587020825 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1230587020826 active site 1230587020827 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1230587020828 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587020829 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1230587020830 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1230587020831 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1230587020832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1230587020833 Walker A/P-loop; other site 1230587020834 ATP binding site [chemical binding]; other site 1230587020835 Q-loop/lid; other site 1230587020836 ABC transporter signature motif; other site 1230587020837 Walker B; other site 1230587020838 D-loop; other site 1230587020839 H-loop/switch region; other site 1230587020840 TOBE domain; Region: TOBE_2; pfam08402 1230587020841 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1230587020842 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020843 dimer interface [polypeptide binding]; other site 1230587020844 conserved gate region; other site 1230587020845 putative PBP binding loops; other site 1230587020846 ABC-ATPase subunit interface; other site 1230587020847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020848 dimer interface [polypeptide binding]; other site 1230587020849 conserved gate region; other site 1230587020850 putative PBP binding loops; other site 1230587020851 ABC-ATPase subunit interface; other site 1230587020852 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1230587020853 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1230587020854 DNA binding site [nucleotide binding] 1230587020855 domain linker motif; other site 1230587020856 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 1230587020857 putative dimerization interface [polypeptide binding]; other site 1230587020858 putative ligand binding site [chemical binding]; other site 1230587020859 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1230587020860 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1230587020861 PhoU domain; Region: PhoU; pfam01895 1230587020862 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1230587020863 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1230587020864 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1230587020865 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1230587020866 active site 1230587020867 catalytic residues [active] 1230587020868 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1230587020869 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 1230587020870 dimerization interface [polypeptide binding]; other site 1230587020871 active site 1230587020872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1230587020873 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587020874 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587020875 DNA-binding site [nucleotide binding]; DNA binding site 1230587020876 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587020877 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1230587020878 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1230587020879 putative active site [active] 1230587020880 metal binding site [ion binding]; metal-binding site 1230587020881 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 1230587020882 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1230587020883 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1230587020884 BNR repeat-like domain; Region: BNR_2; pfam13088 1230587020885 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587020886 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_12; cd08491 1230587020887 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587020888 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020889 dimer interface [polypeptide binding]; other site 1230587020890 conserved gate region; other site 1230587020891 putative PBP binding loops; other site 1230587020892 ABC-ATPase subunit interface; other site 1230587020893 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587020894 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1230587020895 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587020896 dimer interface [polypeptide binding]; other site 1230587020897 conserved gate region; other site 1230587020898 putative PBP binding loops; other site 1230587020899 ABC-ATPase subunit interface; other site 1230587020900 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587020901 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587020902 Walker A/P-loop; other site 1230587020903 ATP binding site [chemical binding]; other site 1230587020904 Q-loop/lid; other site 1230587020905 ABC transporter signature motif; other site 1230587020906 Walker B; other site 1230587020907 D-loop; other site 1230587020908 H-loop/switch region; other site 1230587020909 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587020910 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587020911 Walker A/P-loop; other site 1230587020912 ATP binding site [chemical binding]; other site 1230587020913 Q-loop/lid; other site 1230587020914 ABC transporter signature motif; other site 1230587020915 Walker B; other site 1230587020916 D-loop; other site 1230587020917 H-loop/switch region; other site 1230587020918 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587020919 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587020920 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1230587020921 inhibitor site; inhibition site 1230587020922 active site 1230587020923 dimer interface [polypeptide binding]; other site 1230587020924 catalytic residue [active] 1230587020925 Predicted membrane protein [Function unknown]; Region: COG4329 1230587020926 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1230587020927 active site 1230587020928 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; cd01292 1230587020929 active site 1230587020930 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1230587020931 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1230587020932 Flavoprotein; Region: Flavoprotein; pfam02441 1230587020933 xanthine permease; Region: pbuX; TIGR03173 1230587020934 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1230587020935 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 1230587020936 P-loop, Walker A motif; other site 1230587020937 Base recognition motif; other site 1230587020938 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1230587020939 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1230587020940 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1230587020941 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1230587020942 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1230587020943 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 1230587020944 catalytic loop [active] 1230587020945 iron binding site [ion binding]; other site 1230587020946 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1230587020947 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1230587020948 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1230587020949 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587020950 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1230587020951 DNA-binding site [nucleotide binding]; DNA binding site 1230587020952 FCD domain; Region: FCD; pfam07729 1230587020953 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1230587020954 cytosine deaminase; Provisional; Region: PRK05985 1230587020955 active site 1230587020956 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1230587020957 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 1230587020958 putative ligand binding site [chemical binding]; other site 1230587020959 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587020960 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 1230587020961 TM-ABC transporter signature motif; other site 1230587020962 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1230587020963 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 1230587020964 TM-ABC transporter signature motif; other site 1230587020965 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1230587020966 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1230587020967 Walker A/P-loop; other site 1230587020968 ATP binding site [chemical binding]; other site 1230587020969 Q-loop/lid; other site 1230587020970 ABC transporter signature motif; other site 1230587020971 Walker B; other site 1230587020972 D-loop; other site 1230587020973 H-loop/switch region; other site 1230587020974 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1230587020975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1230587020976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1230587020977 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1230587020978 putative dimerization interface [polypeptide binding]; other site 1230587020979 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1230587020980 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1230587020981 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 1230587020982 homotrimer interaction site [polypeptide binding]; other site 1230587020983 putative active site [active] 1230587020984 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1230587020985 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1230587020986 putative ADP-binding pocket [chemical binding]; other site 1230587020987 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1230587020988 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1230587020989 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 1230587020990 hypothetical protein; Validated; Region: PRK08245 1230587020991 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1230587020992 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1230587020993 putative ligand binding site [chemical binding]; other site 1230587020994 NAD binding site [chemical binding]; other site 1230587020995 catalytic site [active] 1230587020996 EamA-like transporter family; Region: EamA; pfam00892 1230587020997 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1230587020998 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587020999 Walker A/P-loop; other site 1230587021000 ATP binding site [chemical binding]; other site 1230587021001 Q-loop/lid; other site 1230587021002 ABC transporter signature motif; other site 1230587021003 Walker B; other site 1230587021004 D-loop; other site 1230587021005 H-loop/switch region; other site 1230587021006 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587021007 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1230587021008 Walker A/P-loop; other site 1230587021009 ATP binding site [chemical binding]; other site 1230587021010 Q-loop/lid; other site 1230587021011 ABC transporter signature motif; other site 1230587021012 Walker B; other site 1230587021013 D-loop; other site 1230587021014 H-loop/switch region; other site 1230587021015 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1230587021016 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1230587021017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587021018 dimer interface [polypeptide binding]; other site 1230587021019 conserved gate region; other site 1230587021020 putative PBP binding loops; other site 1230587021021 ABC-ATPase subunit interface; other site 1230587021022 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1230587021023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1230587021024 dimer interface [polypeptide binding]; other site 1230587021025 conserved gate region; other site 1230587021026 putative PBP binding loops; other site 1230587021027 ABC-ATPase subunit interface; other site 1230587021028 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1230587021029 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_12; cd08491 1230587021030 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1230587021031 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1230587021032 inhibitor site; inhibition site 1230587021033 active site 1230587021034 dimer interface [polypeptide binding]; other site 1230587021035 catalytic residue [active] 1230587021036 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1230587021037 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587021038 DNA-binding site [nucleotide binding]; DNA binding site 1230587021039 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1230587021040 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1230587021041 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587021042 DNA-binding site [nucleotide binding]; DNA binding site 1230587021043 FCD domain; Region: FCD; pfam07729 1230587021044 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1230587021045 SnoaL-like domain; Region: SnoaL_2; pfam12680 1230587021046 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1230587021047 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1230587021048 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1230587021049 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 1230587021050 Walker A motif; other site 1230587021051 ATP binding site [chemical binding]; other site 1230587021052 Walker B motif; other site 1230587021053 arginine finger; other site 1230587021054 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1230587021055 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1230587021056 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1230587021057 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1230587021058 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 1230587021059 trehalose synthase; Region: treS_nterm; TIGR02456 1230587021060 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1230587021061 active site 1230587021062 catalytic site [active] 1230587021063 Anabaena sensory rhodopsin transducer; Region: ASRT; cl01751 1230587021064 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1230587021065 FAD binding domain; Region: FAD_binding_4; pfam01565 1230587021066 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1230587021067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4288 1230587021068 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1230587021069 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1230587021070 PYR/PP interface [polypeptide binding]; other site 1230587021071 dimer interface [polypeptide binding]; other site 1230587021072 tetramer interface [polypeptide binding]; other site 1230587021073 TPP binding site [chemical binding]; other site 1230587021074 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1230587021075 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1230587021076 TPP-binding site [chemical binding]; other site 1230587021077 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1230587021078 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 1230587021079 putative active site [active] 1230587021080 catalytic site [active] 1230587021081 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 1230587021082 putative active site [active] 1230587021083 catalytic site [active] 1230587021084 Predicted integral membrane protein [Function unknown]; Region: COG0392 1230587021085 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1230587021086 putative catalytic site [active] 1230587021087 putative metal binding site [ion binding]; other site 1230587021088 putative phosphate binding site [ion binding]; other site 1230587021089 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1230587021090 dinuclear metal binding motif [ion binding]; other site 1230587021091 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1230587021092 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 1230587021093 S-adenosylmethionine binding site [chemical binding]; other site 1230587021094 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1230587021095 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 1230587021096 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 1230587021097 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1230587021098 active site 1230587021099 metal binding site [ion binding]; metal-binding site 1230587021100 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1230587021101 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1230587021102 NAD binding site [chemical binding]; other site 1230587021103 catalytic Zn binding site [ion binding]; other site 1230587021104 structural Zn binding site [ion binding]; other site 1230587021105 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587021106 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587021107 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587021108 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587021109 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1230587021110 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1230587021111 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 1230587021112 active site 1230587021113 phosphorylation site [posttranslational modification] 1230587021114 intermolecular recognition site; other site 1230587021115 dimerization interface [polypeptide binding]; other site 1230587021116 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 1230587021117 DNA binding residues [nucleotide binding] 1230587021118 dimerization interface [polypeptide binding]; other site 1230587021119 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1230587021120 Histidine kinase; Region: HisKA_3; pfam07730 1230587021121 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 1230587021122 ATP binding site [chemical binding]; other site 1230587021123 Mg2+ binding site [ion binding]; other site 1230587021124 G-X-G motif; other site 1230587021125 short chain dehydrogenase; Provisional; Region: PRK06139 1230587021126 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1230587021127 putative NAD(P) binding site [chemical binding]; other site 1230587021128 active site 1230587021129 short chain dehydrogenase; Provisional; Region: PRK06701 1230587021130 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1230587021131 NAD binding site [chemical binding]; other site 1230587021132 metal binding site [ion binding]; metal-binding site 1230587021133 active site 1230587021134 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1230587021135 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1230587021136 putative ligand binding site [chemical binding]; other site 1230587021137 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1230587021138 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 1230587021139 putative substrate translocation pore; other site 1230587021140 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1230587021141 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1230587021142 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1230587021143 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 1230587021144 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1230587021145 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1230587021146 Uncharacterized conserved protein [Function unknown]; Region: COG3360 1230587021147 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1230587021148 trimer interface [polypeptide binding]; other site 1230587021149 putative Zn binding site [ion binding]; other site 1230587021150 Transposase; Region: HTH_Tnp_1; cl17663 1230587021151 Winged helix-turn helix; Region: HTH_29; pfam13551 1230587021152 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1230587021153 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 1230587021154 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1230587021155 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 1230587021156 S-adenosylmethionine binding site [chemical binding]; other site 1230587021157 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1230587021158 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1230587021159 Walker A/P-loop; other site 1230587021160 ATP binding site [chemical binding]; other site 1230587021161 Q-loop/lid; other site 1230587021162 ABC transporter signature motif; other site 1230587021163 Walker B; other site 1230587021164 D-loop; other site 1230587021165 H-loop/switch region; other site 1230587021166 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1230587021167 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 1230587021168 ABC-ATPase subunit interface; other site 1230587021169 dimer interface [polypeptide binding]; other site 1230587021170 putative PBP binding regions; other site 1230587021171 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 1230587021172 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1230587021173 putative ligand binding residues [chemical binding]; other site 1230587021174 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1230587021175 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1230587021176 conserved cys residue [active] 1230587021177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587021178 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1230587021179 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1230587021180 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1230587021181 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1230587021182 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1230587021183 elongation factor G; Reviewed; Region: PRK12740 1230587021184 G1 box; other site 1230587021185 GTP/Mg2+ binding site [chemical binding]; other site 1230587021186 G2 box; other site 1230587021187 G3 box; other site 1230587021188 Switch II region; other site 1230587021189 G4 box; other site 1230587021190 G5 box; other site 1230587021191 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 1230587021192 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 1230587021193 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1230587021194 DNA-binding site [nucleotide binding]; DNA binding site 1230587021195 UTRA domain; Region: UTRA; pfam07702