data_9IYB # _model_server_result.job_id 3Yk_yiyrNY9YUYKeXGjKkA _model_server_result.datetime_utc '2025-03-05 02:27:20' _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 9iyb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":402}' # _entry.id 9IYB # _exptl.entry_id 9IYB _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 352.465 _entity.id 7 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description 'PROSTAGLANDIN D2' _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 9IYB _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 9IYB _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _pdbx_struct_assembly.details author_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 ? _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 7 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 104 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 104 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 182 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 182 _struct_conn.ptnr2_symmetry 1_555 _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 2.019 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C20 H32 O5' _chem_comp.formula_weight 352.465 _chem_comp.id PG2 _chem_comp.mon_nstd_flag . _chem_comp.name 'PROSTAGLANDIN D2' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(5E,13E)-9,15-DIHYDROXY-11-OXOPROSTA-5,13-DIEN-1-OIC ACID' # 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 PG2 sing 375 n n C1 O1 PG2 sing 376 n n C1 O2 PG2 doub 377 n n C2 C3 PG2 sing 378 n n C2 H21 PG2 sing 379 n n C2 H22 PG2 sing 380 n n C3 C4 PG2 sing 381 n n C3 H31 PG2 sing 382 n n C3 H32 PG2 sing 383 n n C4 C5 PG2 sing 384 n n C4 H41 PG2 sing 385 n n C4 H42 PG2 sing 386 n n C5 C6 PG2 doub 387 z n C5 H5 PG2 sing 388 n n C6 C7 PG2 sing 389 n n C6 H6 PG2 sing 390 n n C7 C8 PG2 sing 391 n n C7 H71 PG2 sing 392 n n C7 H72 PG2 sing 393 n n C8 C9 PG2 sing 394 n n C8 C12 PG2 sing 395 n n C8 H8 PG2 sing 396 n n C9 C10 PG2 sing 397 n n C9 O3 PG2 sing 398 n n C9 H9 PG2 sing 399 n n C10 C11 PG2 sing 400 n n C10 H101 PG2 sing 401 n n C10 H102 PG2 sing 402 n n C11 C12 PG2 sing 403 n n C11 O4 PG2 doub 404 n n C12 C13 PG2 sing 405 n n C12 H12 PG2 sing 406 n n C13 C14 PG2 doub 407 e n C13 H13 PG2 sing 408 n n C14 C15 PG2 sing 409 n n C14 H14 PG2 sing 410 n n C15 C16 PG2 sing 411 n n C15 O5 PG2 sing 412 n n C15 H15 PG2 sing 413 n n C16 C17 PG2 sing 414 n n C16 H161 PG2 sing 415 n n C16 H162 PG2 sing 416 n n C17 C18 PG2 sing 417 n n C17 H171 PG2 sing 418 n n C17 H172 PG2 sing 419 n n C18 C19 PG2 sing 420 n n C18 H181 PG2 sing 421 n n C18 H182 PG2 sing 422 n n C19 C20 PG2 sing 423 n n C19 H191 PG2 sing 424 n n C19 H192 PG2 sing 425 n n C20 H201 PG2 sing 426 n n C20 H202 PG2 sing 427 n n C20 H203 PG2 sing 428 n n O1 HO1 PG2 sing 429 n n O3 HO3 PG2 sing 430 n n O5 HO5 PG2 sing 431 n n # _atom_sites.entry_id 9IYB _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 F 6 A1D5Q A 1 401 401 A1D5Q NEW . G 7 PG2 A 1 402 401 PG2 LIG . H 8 HOH A 1 501 1 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 PG2 . . . G 7 99.695 104.934 129.093 1 20 ? C1 PG2 402 A 1 HETATM 2 C C2 PG2 . . . G 7 100.765 104.99 130.178 1 20 ? C2 PG2 402 A 1 HETATM 3 C C3 PG2 . . . G 7 101.96 104.792 129.283 1 20 ? C3 PG2 402 A 1 HETATM 4 C C4 PG2 . . . G 7 102.92 103.667 129.714 1 20 ? C4 PG2 402 A 1 HETATM 5 C C5 PG2 . . . G 7 104.307 104.35 129.423 1 20 ? C5 PG2 402 A 1 HETATM 6 C C6 PG2 . . . G 7 105.636 104.165 129.441 1 20 ? C6 PG2 402 A 1 HETATM 7 C C7 PG2 . . . G 7 106.514 105.35 128.993 1 20 ? C7 PG2 402 A 1 HETATM 8 C C8 PG2 . . . G 7 106.193 106.477 129.792 1 20 ? C8 PG2 402 A 1 HETATM 9 C C9 PG2 . . . G 7 106.473 106.24 131.399 1 20 ? C9 PG2 402 A 1 HETATM 10 C C10 PG2 . . . G 7 107.001 107.416 131.859 1 20 ? C10 PG2 402 A 1 HETATM 11 C C11 PG2 . . . G 7 107.097 108.382 130.574 1 20 ? C11 PG2 402 A 1 HETATM 12 C C12 PG2 . . . G 7 107.164 107.619 129.453 1 20 ? C12 PG2 402 A 1 HETATM 13 C C13 PG2 . . . G 7 106.652 108.432 128.19 1 20 ? C13 PG2 402 A 1 HETATM 14 C C14 PG2 . . . G 7 105.564 108.16 127.463 1 20 ? C14 PG2 402 A 1 HETATM 15 C C15 PG2 . . . G 7 105.124 108.992 126.259 1 20 ? C15 PG2 402 A 1 HETATM 16 C C16 PG2 . . . G 7 105.842 108.442 125.027 1 20 ? C16 PG2 402 A 1 HETATM 17 C C17 PG2 . . . G 7 104.885 107.566 124.189 1 20 ? C17 PG2 402 A 1 HETATM 18 C C18 PG2 . . . G 7 104.384 106.361 125.013 1 20 ? C18 PG2 402 A 1 HETATM 19 C C19 PG2 . . . G 7 104.025 105.184 124.085 1 20 ? C19 PG2 402 A 1 HETATM 20 C C20 PG2 . . . G 7 103.58 103.961 124.909 1 20 ? C20 PG2 402 A 1 HETATM 21 O O1 PG2 . . . G 7 99.196 103.821 128.77 1 20 ? O1 PG2 402 A 1 HETATM 22 O O2 PG2 . . . G 7 99.313 106.008 128.558 1 20 -1 O2 PG2 402 A 1 HETATM 23 O O3 PG2 . . . G 7 107.398 105.202 131.597 1 20 ? O3 PG2 402 A 1 HETATM 24 O O4 PG2 . . . G 7 107.099 109.569 130.601 1 20 ? O4 PG2 402 A 1 HETATM 25 O O5 PG2 . . . G 7 105.479 110.318 126.46 1 20 ? O5 PG2 402 A 1 HETATM 26 H H21 PG2 . . . G 7 100.656 104.172 130.887 1 20 ? H21 PG2 402 A 1 HETATM 27 H H22 PG2 . . . G 7 100.791 105.96 130.666 1 20 ? H22 PG2 402 A 1 HETATM 28 H H31 PG2 . . . G 7 102.503 105.726 129.156 1 20 ? H31 PG2 402 A 1 HETATM 29 H H32 PG2 . . . G 7 101.432 104.533 128.376 1 20 ? H32 PG2 402 A 1 HETATM 30 H H41 PG2 . . . G 7 102.673 102.797 129.082 1 20 ? H41 PG2 402 A 1 HETATM 31 H H42 PG2 . . . G 7 102.718 103.467 130.778 1 20 ? H42 PG2 402 A 1 HETATM 32 H H5 PG2 . . . G 7 104.245 103.339 129.791 1 20 ? H5 PG2 402 A 1 HETATM 33 H H6 PG2 . . . G 7 106.133 103.248 129.762 1 20 ? H6 PG2 402 A 1 HETATM 34 H H71 PG2 . . . G 7 106.304 105.579 127.949 1 20 ? H71 PG2 402 A 1 HETATM 35 H H72 PG2 . . . G 7 107.565 105.101 129.107 1 20 ? H72 PG2 402 A 1 HETATM 36 H H8 PG2 . . . G 7 105.162 106.796 129.649 1 20 ? H8 PG2 402 A 1 HETATM 37 H H9 PG2 . . . G 7 105.532 106.02 131.904 1 20 ? H9 PG2 402 A 1 HETATM 38 H H101 PG2 . . . G 7 107.994 107.24 132.269 1 20 ? H101 PG2 402 A 1 HETATM 39 H H102 PG2 . . . G 7 106.346 107.858 132.611 1 20 ? H102 PG2 402 A 1 HETATM 40 H H12 PG2 . . . G 7 108.173 107.237 129.303 1 20 ? H12 PG2 402 A 1 HETATM 41 H H13 PG2 . . . G 7 107.326 109.263 128.007 1 20 ? H13 PG2 402 A 1 HETATM 42 H H14 PG2 . . . G 7 104.867 107.338 127.616 1 20 ? H14 PG2 402 A 1 HETATM 43 H H15 PG2 . . . G 7 104.047 108.907 126.124 1 20 ? H15 PG2 402 A 1 HETATM 44 H H161 PG2 . . . G 7 106.684 107.837 125.353 1 20 ? H161 PG2 402 A 1 HETATM 45 H H162 PG2 . . . G 7 106.199 109.269 124.416 1 20 ? H162 PG2 402 A 1 HETATM 46 H H171 PG2 . . . G 7 105.41 107.2 123.308 1 20 ? H171 PG2 402 A 1 HETATM 47 H H172 PG2 . . . G 7 104.03 108.166 123.882 1 20 ? H172 PG2 402 A 1 HETATM 48 H H181 PG2 . . . G 7 103.505 106.655 125.585 1 20 ? H181 PG2 402 A 1 HETATM 49 H H182 PG2 . . . G 7 105.169 106.047 125.699 1 20 ? H182 PG2 402 A 1 HETATM 50 H H191 PG2 . . . G 7 103.216 105.488 123.423 1 20 ? H191 PG2 402 A 1 HETATM 51 H H192 PG2 . . . G 7 104.899 104.921 123.493 1 20 ? H192 PG2 402 A 1 HETATM 52 H H201 PG2 . . . G 7 102.679 103.535 124.471 1 20 ? H201 PG2 402 A 1 HETATM 53 H H202 PG2 . . . G 7 103.377 104.279 125.93 1 20 ? H202 PG2 402 A 1 HETATM 54 H H203 PG2 . . . G 7 104.376 103.217 124.911 1 20 ? H203 PG2 402 A 1 HETATM 55 H HO3 PG2 . . . G 7 106.936 104.397 131.787 1 20 ? HO3 PG2 402 A 1 HETATM 56 H HO5 PG2 . . . G 7 106.398 110.423 126.278 1 20 ? HO5 PG2 402 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 56 #