data_6YA5 # _model_server_result.job_id CZVM_gEfPHgOISHuQDNwbw _model_server_result.datetime_utc '2024-11-13 19:14:22' _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 6ya5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 6YA5 # _exptl.entry_id 6YA5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 286.236 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-(3,4-dihydroxyphenyl)-5,7-dihydroxy-4H-chromen-4-one _entity.pdbx_number_of_molecules 1 _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 6YA5 _cell.length_a 74.069 _cell.length_b 74.069 _cell.length_c 127.715 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YA5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64 2 2' # _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,I,J _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A NE2 HIS 43 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc2 A OE2 GLU 63 A GLU 80 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? metalc ? metalc3 A OD2 ASP 91 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc4 A OD1 ASP 91 A ASP 108 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? metalc ? metalc5 A OE2 GLU 102 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? metalc ? metalc6 A O ILE 103 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc7 B MN MN . A MN 201 1_555 D O5 LU2 . A LU2 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc8 B MN MN . A MN 201 1_555 D O6 LU2 . A LU2 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc9 C MG MG . A MG 202 1_555 D O5 LU2 . A LU2 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc10 C MG MG . A MG 202 1_555 J O HOH . A HOH 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? metalc ? metalc11 C MG MG . A MG 202 1_555 J O HOH . A HOH 325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? metalc ? metalc12 C MG MG . A MG 202 1_555 J O HOH . A HOH 328 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? # _chem_comp.formula 'C15 H10 O6' _chem_comp.formula_weight 286.236 _chem_comp.id LU2 _chem_comp.mon_nstd_flag . _chem_comp.name 2-(3,4-dihydroxyphenyl)-5,7-dihydroxy-4H-chromen-4-one _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Luteolin # 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 C1 C2 LU2 doub 203 n y C1 C6 LU2 sing 204 n y C1 H1 LU2 sing 205 n n O1 C2 LU2 sing 206 n n O1 HO1 LU2 sing 207 n n C2 C3 LU2 sing 208 n y C4 O2 LU2 sing 209 n n O2 HO2 LU2 sing 210 n n C3 C4 LU2 doub 211 n y C3 H3 LU2 sing 212 n n C7 O3 LU2 doub 213 n n C5 C4 LU2 sing 214 n y O4 C6 LU2 sing 215 n n O4 C9 LU2 sing 216 n n C6 C5 LU2 doub 217 n y C5 C7 LU2 sing 218 n n C12 O5 LU2 sing 219 n n O5 HO5 LU2 sing 220 n n O6 C13 LU2 sing 221 n n O6 HO6 LU2 sing 222 n n C8 C7 LU2 sing 223 n n C9 C8 LU2 doub 224 n n C8 H8 LU2 sing 225 n n C10 C9 LU2 sing 226 n n C15 C10 LU2 doub 227 n y C10 C11 LU2 sing 228 n y C12 C11 LU2 doub 229 n y C11 H11 LU2 sing 230 n n C13 C12 LU2 sing 231 n y C14 C13 LU2 doub 232 n y C14 C15 LU2 sing 233 n y C14 H14 LU2 sing 234 n n C15 H15 LU2 sing 235 n n # _atom_sites.entry_id 6YA5 _atom_sites.fract_transf_matrix[1][1] 0.013501 _atom_sites.fract_transf_matrix[1][2] 0.007795 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01559 _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] 0.00783 _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 MN A 1 201 1 MN MN . C 3 MG A 1 202 2 MG MG . D 4 LU2 A 1 203 1 LU2 LU2 . E 5 SO4 A 1 204 1 SO4 SO4 . F 5 SO4 A 1 205 2 SO4 SO4 . G 6 DMS A 1 206 1 DMS DMS . H 7 PGE A 1 207 1 PGE PG4 . I 8 PEG A 1 208 1 PEG PEG . J 9 HOH A 1 301 51 HOH HOH . J 9 HOH A 2 302 36 HOH HOH . J 9 HOH A 3 303 53 HOH HOH . J 9 HOH A 4 304 43 HOH HOH . J 9 HOH A 5 305 33 HOH HOH . J 9 HOH A 6 306 72 HOH HOH . J 9 HOH A 7 307 44 HOH HOH . J 9 HOH A 8 308 9 HOH HOH . J 9 HOH A 9 309 6 HOH HOH . J 9 HOH A 10 310 52 HOH HOH . J 9 HOH A 11 311 69 HOH HOH . J 9 HOH A 12 312 18 HOH HOH . J 9 HOH A 13 313 13 HOH HOH . J 9 HOH A 14 314 42 HOH HOH . J 9 HOH A 15 315 1 HOH HOH . J 9 HOH A 16 316 7 HOH HOH . J 9 HOH A 17 317 24 HOH HOH . J 9 HOH A 18 318 56 HOH HOH . J 9 HOH A 19 319 27 HOH HOH . J 9 HOH A 20 320 20 HOH HOH . J 9 HOH A 21 321 31 HOH HOH . J 9 HOH A 22 322 23 HOH HOH . J 9 HOH A 23 323 78 HOH HOH . J 9 HOH A 24 324 19 HOH HOH . J 9 HOH A 25 325 2 HOH HOH . J 9 HOH A 26 326 66 HOH HOH . J 9 HOH A 27 327 22 HOH HOH . J 9 HOH A 28 328 3 HOH HOH . J 9 HOH A 29 329 48 HOH HOH . J 9 HOH A 30 330 65 HOH HOH . J 9 HOH A 31 331 14 HOH HOH . J 9 HOH A 32 332 30 HOH HOH . J 9 HOH A 33 333 16 HOH HOH . J 9 HOH A 34 334 80 HOH HOH . J 9 HOH A 35 335 10 HOH HOH . J 9 HOH A 36 336 4 HOH HOH . J 9 HOH A 37 337 40 HOH HOH . J 9 HOH A 38 338 57 HOH HOH . J 9 HOH A 39 339 77 HOH HOH . J 9 HOH A 40 340 49 HOH HOH . J 9 HOH A 41 341 21 HOH HOH . J 9 HOH A 42 342 37 HOH HOH . J 9 HOH A 43 343 41 HOH HOH . J 9 HOH A 44 344 8 HOH HOH . J 9 HOH A 45 345 39 HOH HOH . J 9 HOH A 46 346 35 HOH HOH . J 9 HOH A 47 347 58 HOH HOH . J 9 HOH A 48 348 64 HOH HOH . J 9 HOH A 49 349 63 HOH HOH . J 9 HOH A 50 350 46 HOH HOH . J 9 HOH A 51 351 28 HOH HOH . J 9 HOH A 52 352 54 HOH HOH . J 9 HOH A 53 353 47 HOH HOH . J 9 HOH A 54 354 55 HOH HOH . J 9 HOH A 55 355 61 HOH HOH . J 9 HOH A 56 356 17 HOH HOH . J 9 HOH A 57 357 59 HOH HOH . J 9 HOH A 58 358 68 HOH HOH . J 9 HOH A 59 359 50 HOH HOH . J 9 HOH A 60 360 75 HOH HOH . J 9 HOH A 61 361 71 HOH HOH . J 9 HOH A 62 362 12 HOH HOH . J 9 HOH A 63 363 5 HOH HOH . J 9 HOH A 64 364 38 HOH HOH . J 9 HOH A 65 365 29 HOH HOH . J 9 HOH A 66 366 26 HOH HOH . J 9 HOH A 67 367 62 HOH HOH . J 9 HOH A 68 368 70 HOH HOH . J 9 HOH A 69 369 15 HOH HOH . J 9 HOH A 70 370 76 HOH HOH . J 9 HOH A 71 371 79 HOH HOH . J 9 HOH A 72 372 32 HOH HOH . J 9 HOH A 73 373 25 HOH HOH . J 9 HOH A 74 374 67 HOH HOH . J 9 HOH A 75 375 74 HOH HOH . J 9 HOH A 76 376 34 HOH HOH . J 9 HOH A 77 377 45 HOH HOH . J 9 HOH A 78 378 73 HOH HOH . J 9 HOH A 79 379 60 HOH HOH . J 9 HOH A 80 380 11 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 C C1 LU2 . . . D 4 32.064 15.348 9.094 1 40.7 ? C1 LU2 203 A 1 HETATM 2 O O1 LU2 . . . D 4 34 15.511 10.379 1 38.85 ? O1 LU2 203 A 1 HETATM 3 C C2 LU2 . . . D 4 33.164 14.726 9.674 1 39.39 ? C2 LU2 203 A 1 HETATM 4 O O2 LU2 . . . D 4 32.61 11.271 8.701 1 36.34 ? O2 LU2 203 A 1 HETATM 5 C C3 LU2 . . . D 4 33.355 13.344 9.514 1 39.59 ? C3 LU2 203 A 1 HETATM 6 O O3 LU2 . . . D 4 30.395 11.286 7.166 1 38.73 ? O3 LU2 203 A 1 HETATM 7 C C4 LU2 . . . D 4 32.433 12.601 8.783 1 38.77 ? C4 LU2 203 A 1 HETATM 8 O O4 LU2 . . . D 4 30.099 15.257 7.797 1 35.52 ? O4 LU2 203 A 1 HETATM 9 C C5 LU2 . . . D 4 31.32 13.222 8.192 1 39.59 ? C5 LU2 203 A 1 HETATM 10 O O5 LU2 . . . D 4 25.312 15.293 4.321 1 30.82 ? O5 LU2 203 A 1 HETATM 11 C C6 LU2 . . . D 4 31.151 14.6 8.383 1 38.33 ? C6 LU2 203 A 1 HETATM 12 O O6 LU2 . . . D 4 24.564 17.434 5.937 1 28.7 ? O6 LU2 203 A 1 HETATM 13 C C7 LU2 . . . D 4 30.264 12.49 7.374 1 38.77 ? C7 LU2 203 A 1 HETATM 14 C C8 LU2 . . . D 4 29.25 13.158 6.897 1 38.26 ? C8 LU2 203 A 1 HETATM 15 C C9 LU2 . . . D 4 29.167 14.559 7.095 1 34.78 ? C9 LU2 203 A 1 HETATM 16 C C10 LU2 . . . D 4 27.988 15.346 6.737 1 35.38 ? C10 LU2 203 A 1 HETATM 17 C C11 LU2 . . . D 4 27.197 14.955 5.671 1 33.31 ? C11 LU2 203 A 1 HETATM 18 C C12 LU2 . . . D 4 26.075 15.677 5.369 1 32.72 ? C12 LU2 203 A 1 HETATM 19 C C13 LU2 . . . D 4 25.721 16.769 6.176 1 32.79 ? C13 LU2 203 A 1 HETATM 20 C C14 LU2 . . . D 4 26.535 17.17 7.217 1 31.81 ? C14 LU2 203 A 1 HETATM 21 C C15 LU2 . . . D 4 27.678 16.467 7.509 1 31.85 ? C15 LU2 203 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 21 #