data_8Z37 # _model_server_result.job_id hbYHcn9RJfKVDBw7bbj76Q _model_server_result.datetime_utc '2025-07-07 22:25:03' _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 8z37 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":403}' # _entry.id 8Z37 # _exptl.entry_id 8Z37 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 266.334 _entity.id 4 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description "(1P)-3',5-di(prop-2-en-1-yl)[1,1'-biphenyl]-2,4'-diol" _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 90 _cell.entry_id 8Z37 _cell.length_a 80.714 _cell.length_b 89.477 _cell.length_c 72.955 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Z37 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_566 x,-y+1,-z+1 1 0 0 0 -1 0 0 0 -1 0 89.477 72.955 # _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 OD2 ASP 54 A ASP 205 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.595 ? metalc ? metalc2 A OE1 GLU 165 A GLU 316 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc3 A OE2 GLU 165 A GLU 316 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.218 ? metalc ? metalc4 A O VAL 190 A VAL 341 1_555 C CA CA . A CA 402 6_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? # _chem_comp.formula 'C18 H18 O2' _chem_comp.formula_weight 266.334 _chem_comp.id Y4T _chem_comp.mon_nstd_flag . _chem_comp.name "(1P)-3',5-di(prop-2-en-1-yl)[1,1'-biphenyl]-2,4'-diol" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Honokiol # 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 C16 C15 Y4T doub 376 n n C15 C14 Y4T sing 377 n n C14 C13 Y4T sing 378 n n C3 C4 Y4T sing 379 n n C3 C2 Y4T sing 380 n n C13 C17 Y4T doub 381 n y C13 C12 Y4T sing 382 n y C17 C9 Y4T sing 383 n y C1 C2 Y4T doub 384 n n C4 C18 Y4T doub 385 n y C4 C5 Y4T sing 386 n y C18 C8 Y4T sing 387 n y O2 C12 Y4T sing 388 n n C12 C11 Y4T doub 389 n y C5 C6 Y4T doub 390 n y C9 C8 Y4T sing 391 n n C9 C10 Y4T doub 392 n y C8 C7 Y4T doub 393 n y C6 C7 Y4T sing 394 n y C7 O1 Y4T sing 395 n n C11 C10 Y4T sing 396 n y C1 H1 Y4T sing 397 n n C1 H2 Y4T sing 398 n n O1 H3 Y4T sing 399 n n C2 H4 Y4T sing 400 n n C3 H5 Y4T sing 401 n n C3 H6 Y4T sing 402 n n C5 H7 Y4T sing 403 n n C6 H8 Y4T sing 404 n n C10 H9 Y4T sing 405 n n C11 H10 Y4T sing 406 n n C14 H11 Y4T sing 407 n n C14 H12 Y4T sing 408 n n C15 H13 Y4T sing 409 n n C16 H14 Y4T sing 410 n n C16 H15 Y4T sing 411 n n C17 H16 Y4T sing 412 n n C18 H17 Y4T sing 413 n n O2 H18 Y4T sing 414 n n # _atom_sites.entry_id 8Z37 _atom_sites.fract_transf_matrix[1][1] 0.012389 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011176 _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] 0.013707 _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 CL A 1 401 1 CL CL . C 3 CA A 1 402 1 CA CA . D 4 Y4T A 1 403 401 Y4T LIG . E 5 HOH A 1 501 26 HOH HOH . E 5 HOH A 2 502 29 HOH HOH . E 5 HOH A 3 503 5 HOH HOH . E 5 HOH A 4 504 30 HOH HOH . E 5 HOH A 5 505 17 HOH HOH . E 5 HOH A 6 506 9 HOH HOH . E 5 HOH A 7 507 18 HOH HOH . E 5 HOH A 8 508 6 HOH HOH . E 5 HOH A 9 509 1 HOH HOH . E 5 HOH A 10 510 25 HOH HOH . E 5 HOH A 11 511 8 HOH HOH . E 5 HOH A 12 512 16 HOH HOH . E 5 HOH A 13 513 2 HOH HOH . E 5 HOH A 14 514 20 HOH HOH . E 5 HOH A 15 515 4 HOH HOH . E 5 HOH A 16 516 19 HOH HOH . E 5 HOH A 17 517 22 HOH HOH . E 5 HOH A 18 518 14 HOH HOH . E 5 HOH A 19 519 3 HOH HOH . E 5 HOH A 20 520 10 HOH HOH . E 5 HOH A 21 521 7 HOH HOH . E 5 HOH A 22 522 15 HOH HOH . E 5 HOH A 23 523 27 HOH HOH . E 5 HOH A 24 524 24 HOH HOH . E 5 HOH A 25 525 28 HOH HOH . E 5 HOH A 26 526 21 HOH HOH . E 5 HOH A 27 527 23 HOH HOH . E 5 HOH A 28 528 11 HOH HOH . E 5 HOH A 29 529 12 HOH HOH . E 5 HOH A 30 530 13 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 Y4T . . . D 4 39.897 20.732 18.55 0.9 62.31 ? C1 Y4T 403 A 1 HETATM 2 O O1 Y4T . . . D 4 39.844 27.079 22.153 0.9 72.12 ? O1 Y4T 403 A 1 HETATM 3 C C2 Y4T . . . D 4 39.054 21.667 18.948 0.9 68.09 ? C2 Y4T 403 A 1 HETATM 4 C C7 Y4T . . . D 4 39.5 25.802 21.727 0.9 67.41 ? C7 Y4T 403 A 1 HETATM 5 C C8 Y4T . . . D 4 38.202 25.478 21.374 0.9 66.87 ? C8 Y4T 403 A 1 HETATM 6 C C3 Y4T . . . D 4 38.644 21.831 20.418 0.9 60.63 ? C3 Y4T 403 A 1 HETATM 7 C C4 Y4T . . . D 4 38.92 23.247 20.893 0.9 66.85 ? C4 Y4T 403 A 1 HETATM 8 C C5 Y4T . . . D 4 40.205 23.583 21.239 0.9 62.52 ? C5 Y4T 403 A 1 HETATM 9 C C6 Y4T . . . D 4 40.491 24.858 21.656 0.9 63.41 ? C6 Y4T 403 A 1 HETATM 10 C C9 Y4T . . . D 4 37.086 26.508 21.462 0.9 66.08 ? C9 Y4T 403 A 1 HETATM 11 C C10 Y4T . . . D 4 35.899 26.122 22.01 0.9 66.35 ? C10 Y4T 403 A 1 HETATM 12 C C11 Y4T . . . D 4 34.87 27.024 22.132 0.9 72.8 ? C11 Y4T 403 A 1 HETATM 13 C C12 Y4T . . . D 4 35.015 28.315 21.698 0.9 76.23 ? C12 Y4T 403 A 1 HETATM 14 C C13 Y4T . . . D 4 36.196 28.713 21.146 0.9 79.68 ? C13 Y4T 403 A 1 HETATM 15 C C14 Y4T . . . D 4 36.314 30.161 20.683 0.9 83.48 ? C14 Y4T 403 A 1 HETATM 16 C C15 Y4T . . . D 4 35.139 30.586 19.801 0.9 85.28 ? C15 Y4T 403 A 1 HETATM 17 C C16 Y4T . . . D 4 34.462 31.688 20.063 0.9 83.78 ? C16 Y4T 403 A 1 HETATM 18 C C17 Y4T . . . D 4 37.238 27.811 21.03 0.9 73.17 ? C17 Y4T 403 A 1 HETATM 19 C C18 Y4T . . . D 4 37.916 24.192 20.961 0.9 63.7 ? C18 Y4T 403 A 1 HETATM 20 O O2 Y4T . . . D 4 33.966 29.221 21.812 0.9 80.92 ? O2 Y4T 403 A 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #