data_3OOB # _model_server_result.job_id TYWuGtYhcX45MJoztXI7aw _model_server_result.datetime_utc '2024-12-01 18:06:47' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 3oob # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":402}' # _entry.id 3OOB # _exptl.entry_id 3OOB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 458.372 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R,3R)-5,7-dihydroxy-2-(3,4,5-trihydroxyphenyl)-3,4-dihydro-2H-chromen-3-yl 3,4,5-trihydroxybenzoate' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 3OOB _cell.length_a 69.409 _cell.length_b 69.409 _cell.length_c 79.268 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3OOB _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 F N N ? 4 G N N # _chem_comp.formula 'C22 H18 O11' _chem_comp.formula_weight 458.372 _chem_comp.id KDH _chem_comp.mon_nstd_flag . _chem_comp.name '(2R,3R)-5,7-dihydroxy-2-(3,4,5-trihydroxyphenyl)-3,4-dihydro-2H-chromen-3-yl 3,4,5-trihydroxybenzoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms (-)-Epigallocatechin-3-gallate;EGCG # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O1 C3 KDH sing 173 n n O1 HO1 KDH sing 174 n n C3 C6 KDH doub 175 n y C3 C4 KDH sing 176 n y C6 O7 KDH sing 177 n n C6 C9 KDH sing 178 n y O7 HO7 KDH sing 179 n n C9 O10 KDH sing 180 n n C9 C12 KDH doub 181 n y O10 HO10 KDH sing 182 n n C12 C14 KDH sing 183 n y C12 H12 KDH sing 184 n n C14 C15 KDH sing 185 n n C14 C4 KDH doub 186 n y C15 C33 KDH sing 187 n n C15 O01 KDH sing 188 n n C15 H15 KDH sing 189 n n C20 C21 KDH doub 190 n y C20 C31 KDH sing 191 n y C20 O01 KDH sing 192 n n C21 C24 KDH sing 193 n y C21 H21 KDH sing 194 n n C24 C26 KDH doub 195 n y C24 O02 KDH sing 196 n n C26 C29 KDH sing 197 n y C26 H26 KDH sing 198 n n C29 C31 KDH doub 199 n y C29 O03 KDH sing 200 n n C31 C01 KDH sing 201 n n C33 C01 KDH sing 202 n n C33 O35 KDH sing 203 n n C33 H33 KDH sing 204 n n C36 C38 KDH sing 205 n n C36 O35 KDH sing 206 n n C36 O37 KDH doub 207 n n C38 C39 KDH doub 208 n y C38 C41 KDH sing 209 n y C39 C49 KDH sing 210 n y C39 H39 KDH sing 211 n n C41 C43 KDH doub 212 n y C41 H41 KDH sing 213 n n C01 H01 KDH sing 214 n n C01 H01A KDH sing 215 n n O02 HO02 KDH sing 216 n n O03 HO03 KDH sing 217 n n C4 H4 KDH sing 218 n n C43 O44 KDH sing 219 n n C43 C46 KDH sing 220 n y O44 HO44 KDH sing 221 n n C46 O47 KDH sing 222 n n C46 C49 KDH doub 223 n y O47 HO47 KDH sing 224 n n C49 O50 KDH sing 225 n n O50 HO50 KDH sing 226 n n # _atom_sites.entry_id 3OOB _atom_sites.fract_transf_matrix[1][1] 0.014407 _atom_sites.fract_transf_matrix[1][2] 0.008318 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016636 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.012615 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 SO4 A 1 200 200 SO4 SO4 . C 3 PE4 A 1 300 300 PE4 PE4 . D 3 PE4 A 1 301 301 PE4 PE4 . E 3 PE4 A 1 302 302 PE4 PE4 . F 4 KDH A 1 402 402 KDH KDH . G 4 KDH A 1 403 403 KDH KDH . H 5 HOH A 1 164 164 HOH HOH . H 5 HOH A 2 165 165 HOH HOH . H 5 HOH A 3 166 166 HOH HOH . H 5 HOH A 4 167 167 HOH HOH . H 5 HOH A 5 168 168 HOH HOH . H 5 HOH A 6 169 169 HOH HOH . H 5 HOH A 7 170 170 HOH HOH . H 5 HOH A 8 171 171 HOH HOH . H 5 HOH A 9 172 172 HOH HOH . H 5 HOH A 10 173 173 HOH HOH . H 5 HOH A 11 174 174 HOH HOH . H 5 HOH A 12 175 175 HOH HOH . H 5 HOH A 13 176 176 HOH HOH . H 5 HOH A 14 177 177 HOH HOH . H 5 HOH A 15 178 178 HOH HOH . H 5 HOH A 16 179 179 HOH HOH . H 5 HOH A 17 180 180 HOH HOH . H 5 HOH A 18 181 181 HOH HOH . H 5 HOH A 19 182 182 HOH HOH . H 5 HOH A 20 183 183 HOH HOH . H 5 HOH A 21 184 184 HOH HOH . H 5 HOH A 22 185 185 HOH HOH . H 5 HOH A 23 186 186 HOH HOH . H 5 HOH A 24 187 187 HOH HOH . H 5 HOH A 25 188 188 HOH HOH . H 5 HOH A 26 189 189 HOH HOH . H 5 HOH A 27 190 190 HOH HOH . H 5 HOH A 28 191 191 HOH HOH . H 5 HOH A 29 192 192 HOH HOH . H 5 HOH A 30 193 193 HOH HOH . H 5 HOH A 31 194 194 HOH HOH . H 5 HOH A 32 195 195 HOH HOH . H 5 HOH A 33 196 196 HOH HOH . H 5 HOH A 34 197 197 HOH HOH . H 5 HOH A 35 198 198 HOH HOH . H 5 HOH A 36 199 199 HOH HOH . H 5 HOH A 37 201 201 HOH HOH . H 5 HOH A 38 202 202 HOH HOH . H 5 HOH A 39 203 203 HOH HOH . H 5 HOH A 40 204 204 HOH HOH . H 5 HOH A 41 205 205 HOH HOH . H 5 HOH A 42 206 206 HOH HOH . H 5 HOH A 43 207 207 HOH HOH . H 5 HOH A 44 208 208 HOH HOH . H 5 HOH A 45 209 209 HOH HOH . H 5 HOH A 46 210 210 HOH HOH . H 5 HOH A 47 211 211 HOH HOH . H 5 HOH A 48 212 212 HOH HOH . H 5 HOH A 49 213 213 HOH HOH . H 5 HOH A 50 214 214 HOH HOH . H 5 HOH A 51 215 215 HOH HOH . H 5 HOH A 52 216 216 HOH HOH . H 5 HOH A 53 217 217 HOH HOH . H 5 HOH A 54 218 218 HOH HOH . H 5 HOH A 55 219 219 HOH HOH . H 5 HOH A 56 220 220 HOH HOH . H 5 HOH A 57 221 221 HOH HOH . H 5 HOH A 58 222 222 HOH HOH . H 5 HOH A 59 223 223 HOH HOH . H 5 HOH A 60 224 224 HOH HOH . H 5 HOH A 61 225 225 HOH HOH . H 5 HOH A 62 226 226 HOH HOH . H 5 HOH A 63 227 227 HOH HOH . H 5 HOH A 64 228 228 HOH HOH . H 5 HOH A 65 229 229 HOH HOH . H 5 HOH A 66 230 230 HOH HOH . H 5 HOH A 67 231 231 HOH HOH . H 5 HOH A 68 232 232 HOH HOH . H 5 HOH A 69 233 233 HOH HOH . H 5 HOH A 70 234 234 HOH HOH . H 5 HOH A 71 235 235 HOH HOH . H 5 HOH A 72 236 236 HOH HOH . H 5 HOH A 73 237 237 HOH HOH . H 5 HOH A 74 238 238 HOH HOH . H 5 HOH A 75 239 239 HOH HOH . H 5 HOH A 76 240 240 HOH HOH . H 5 HOH A 77 241 241 HOH HOH . H 5 HOH A 78 242 242 HOH HOH . H 5 HOH A 79 243 243 HOH HOH . H 5 HOH A 80 244 244 HOH HOH . H 5 HOH A 81 245 245 HOH HOH . H 5 HOH A 82 246 246 HOH HOH . H 5 HOH A 83 247 247 HOH HOH . H 5 HOH A 84 248 248 HOH HOH . H 5 HOH A 85 249 249 HOH HOH . H 5 HOH A 86 250 250 HOH HOH . H 5 HOH A 87 251 251 HOH HOH . H 5 HOH A 88 252 252 HOH HOH . H 5 HOH A 89 253 253 HOH HOH . H 5 HOH A 90 254 254 HOH HOH . H 5 HOH A 91 255 255 HOH HOH . H 5 HOH A 92 256 256 HOH HOH . H 5 HOH A 93 257 257 HOH HOH . H 5 HOH A 94 258 258 HOH HOH . H 5 HOH A 95 259 259 HOH HOH . H 5 HOH A 96 260 260 HOH HOH . H 5 HOH A 97 261 261 HOH HOH . H 5 HOH A 98 262 262 HOH HOH . H 5 HOH A 99 263 263 HOH HOH . H 5 HOH A 100 264 264 HOH HOH . H 5 HOH A 101 265 265 HOH HOH . H 5 HOH A 102 266 266 HOH HOH . H 5 HOH A 103 267 267 HOH HOH . H 5 HOH A 104 268 268 HOH HOH . H 5 HOH A 105 269 269 HOH HOH . H 5 HOH A 106 270 270 HOH HOH . H 5 HOH A 107 271 271 HOH HOH . H 5 HOH A 108 272 272 HOH HOH . H 5 HOH A 109 273 273 HOH HOH . H 5 HOH A 110 274 274 HOH HOH . H 5 HOH A 111 275 275 HOH HOH . H 5 HOH A 112 276 276 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 O O1 KDH . . . F 4 35.1 2.592 43.399 0.7 37.95 ? O1 KDH 402 A 1 HETATM 2 C C3 KDH . . . F 4 33.92 2.005 43.053 0.7 37.2 ? C3 KDH 402 A 1 HETATM 3 C C6 KDH . . . F 4 33.905 0.727 42.509 0.7 37.39 ? C6 KDH 402 A 1 HETATM 4 O O7 KDH . . . F 4 35.073 0.07 42.324 0.7 37.59 ? O7 KDH 402 A 1 HETATM 5 C C9 KDH . . . F 4 32.711 0.116 42.172 0.7 37.84 ? C9 KDH 402 A 1 HETATM 6 O O10 KDH . . . F 4 32.697 -1.145 41.654 0.7 38.89 ? O10 KDH 402 A 1 HETATM 7 C C12 KDH . . . F 4 31.514 0.794 42.37 0.7 37.94 ? C12 KDH 402 A 1 HETATM 8 C C14 KDH . . . F 4 31.527 2.079 42.92 0.7 37.29 ? C14 KDH 402 A 1 HETATM 9 C C15 KDH . . . F 4 30.259 2.809 43.129 0.7 37.91 ? C15 KDH 402 A 1 HETATM 10 C C20 KDH . . . F 4 27.993 2.568 42.288 0.7 39.37 ? C20 KDH 402 A 1 HETATM 11 C C21 KDH . . . F 4 27.17 2.273 41.215 0.7 39.76 ? C21 KDH 402 A 1 HETATM 12 C C24 KDH . . . F 4 25.802 2.485 41.331 0.7 40.09 ? C24 KDH 402 A 1 HETATM 13 C C26 KDH . . . F 4 25.263 2.988 42.509 0.7 40.69 ? C26 KDH 402 A 1 HETATM 14 C C29 KDH . . . F 4 26.099 3.274 43.587 0.7 40.6 ? C29 KDH 402 A 1 HETATM 15 C C31 KDH . . . F 4 27.466 3.059 43.48 0.7 40.31 ? C31 KDH 402 A 1 HETATM 16 C C33 KDH . . . F 4 29.668 2.593 44.52 0.7 38.77 ? C33 KDH 402 A 1 HETATM 17 C C36 KDH . . . F 4 29.847 0.535 45.824 0.7 36.38 ? C36 KDH 402 A 1 HETATM 18 C C38 KDH . . . F 4 29.749 -0.964 45.829 0.7 35.94 ? C38 KDH 402 A 1 HETATM 19 C C39 KDH . . . F 4 30.24 -1.674 46.909 0.7 35.65 ? C39 KDH 402 A 1 HETATM 20 C C41 KDH . . . F 4 29.162 -1.647 44.763 0.7 35.87 ? C41 KDH 402 A 1 HETATM 21 C C01 KDH . . . F 4 28.376 3.381 44.65 0.7 39.45 ? C01 KDH 402 A 1 HETATM 22 O O01 KDH . . . F 4 29.334 2.347 42.154 0.7 39.77 ? O01 KDH 402 A 1 HETATM 23 O O02 KDH . . . F 4 24.999 2.194 40.274 0.7 41.36 ? O02 KDH 402 A 1 HETATM 24 O O03 KDH . . . F 4 25.577 3.773 44.741 0.7 41.21 ? O03 KDH 402 A 1 HETATM 25 C C4 KDH . . . F 4 32.73 2.685 43.258 0.7 37.05 ? C4 KDH 402 A 1 HETATM 26 O O35 KDH . . . F 4 29.329 1.216 44.663 0.7 37.97 ? O35 KDH 402 A 1 HETATM 27 O O37 KDH . . . F 4 30.331 1.143 46.772 0.7 35.88 ? O37 KDH 402 A 1 HETATM 28 C C43 KDH . . . F 4 29.083 -3.047 44.777 0.7 35.4 ? C43 KDH 402 A 1 HETATM 29 O O44 KDH . . . F 4 28.515 -3.703 43.722 0.7 35.36 ? O44 KDH 402 A 1 HETATM 30 C C46 KDH . . . F 4 29.575 -3.756 45.864 0.7 36.2 ? C46 KDH 402 A 1 HETATM 31 O O47 KDH . . . F 4 29.513 -5.132 45.926 0.7 36.01 ? O47 KDH 402 A 1 HETATM 32 C C49 KDH . . . F 4 30.154 -3.065 46.923 0.7 34.52 ? C49 KDH 402 A 1 HETATM 33 O O50 KDH . . . F 4 30.663 -3.726 47.993 0.7 35.47 ? O50 KDH 402 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 212 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 862 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 33 #