data_9P4Z # _model_server_result.job_id YZ-iOHNyHFLbMInlAiO1Zw _model_server_result.datetime_utc '2025-09-09 04:53:55' _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 9p4z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":603}' # _entry.id 9P4Z # _exptl.entry_id 9P4Z _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 544.805 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3beta,14beta,17beta,25R)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _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 _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 3 _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 O TYR 100 A TYR 98 1_555 C NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.096 ? metalc ? metalc2 A OG1 THR 103 A THR 101 1_555 C NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc3 A OG1 THR 104 A THR 102 1_555 C NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc4 A O GLY 364 A GLY 362 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.084 ? metalc ? metalc5 A O ASN 368 A ASN 366 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc6 A OD1 ASN 368 A ASN 366 1_555 C NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.438 ? metalc ? metalc7 A OD1 ASP 370 A ASP 368 1_555 C NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc8 A OD2 ASP 370 A ASP 368 1_555 C NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.129 ? metalc ? metalc9 A O ASN 453 A ASN 451 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc10 A OD1 ASP 457 A ASP 455 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc11 A OD2 ASP 457 A ASP 455 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? # _chem_comp.formula 'C34 H56 O5' _chem_comp.formula_weight 544.805 _chem_comp.id 9Z9 _chem_comp.mon_nstd_flag . _chem_comp.name (3beta,14beta,17beta,25R)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O25 C26 9Z9 sing 1 n n O25 C24 9Z9 sing 2 n n C50 O49 9Z9 sing 3 n n O49 C48 9Z9 sing 4 n n C24 C23 9Z9 sing 5 n n C48 C23 9Z9 sing 6 n n C23 C22 9Z9 sing 7 n n C22 C21 9Z9 sing 8 n n C21 O20 9Z9 sing 9 n n O20 C17 9Z9 sing 10 n n C17 C18 9Z9 sing 11 n n C17 C16 9Z9 sing 12 n n C18 C19 9Z9 sing 13 n n C16 C13 9Z9 sing 14 n n C19 C11 9Z9 sing 15 n n C13 C11 9Z9 sing 16 n n C13 C14 9Z9 doub 17 n n C11 C12 9Z9 sing 18 n n C11 C08 9Z9 sing 19 n n C14 C15 9Z9 sing 20 n n C08 C09 9Z9 sing 21 n n C08 C07 9Z9 sing 22 n n C15 C07 9Z9 sing 23 n n C09 C10 9Z9 sing 24 n n C07 C06 9Z9 sing 25 n n C10 C02 9Z9 sing 26 n n C06 C02 9Z9 sing 27 n n C06 C05 9Z9 sing 28 n n C02 C01 9Z9 sing 29 n n C02 C03 9Z9 sing 30 n n C05 C04 9Z9 sing 31 n n C03 C04 9Z9 sing 32 n n C03 C74 9Z9 sing 33 n n C04 O72 9Z9 sing 34 n n C74 C75 9Z9 sing 35 n n C74 C73 9Z9 sing 36 n n O72 C73 9Z9 sing 37 n n C73 O80 9Z9 sing 38 n n C73 C76 9Z9 sing 39 n n O80 C79 9Z9 sing 40 n n C76 C77 9Z9 sing 41 n n C79 C78 9Z9 sing 42 n n C77 C78 9Z9 sing 43 n n C78 C81 9Z9 sing 44 n n C01 H1 9Z9 sing 45 n n C01 H2 9Z9 sing 46 n n C01 H3 9Z9 sing 47 n n C03 H4 9Z9 sing 48 n n C04 H5 9Z9 sing 49 n n C05 H6 9Z9 sing 50 n n C05 H7 9Z9 sing 51 n n C06 H8 9Z9 sing 52 n n C07 H9 9Z9 sing 53 n n C08 H10 9Z9 sing 54 n n C09 H11 9Z9 sing 55 n n C09 H12 9Z9 sing 56 n n C10 H13 9Z9 sing 57 n n C10 H14 9Z9 sing 58 n n C12 H15 9Z9 sing 59 n n C12 H16 9Z9 sing 60 n n C12 H17 9Z9 sing 61 n n C14 H18 9Z9 sing 62 n n C15 H19 9Z9 sing 63 n n C15 H20 9Z9 sing 64 n n C16 H21 9Z9 sing 65 n n C16 H22 9Z9 sing 66 n n C17 H23 9Z9 sing 67 n n C18 H24 9Z9 sing 68 n n C18 H25 9Z9 sing 69 n n C19 H26 9Z9 sing 70 n n C19 H27 9Z9 sing 71 n n C21 H28 9Z9 sing 72 n n C21 H29 9Z9 sing 73 n n C22 H30 9Z9 sing 74 n n C22 H31 9Z9 sing 75 n n C23 H32 9Z9 sing 76 n n C24 H33 9Z9 sing 77 n n C24 H34 9Z9 sing 78 n n C26 H35 9Z9 sing 79 n n C26 H36 9Z9 sing 80 n n C26 H37 9Z9 sing 81 n n C48 H38 9Z9 sing 82 n n C48 H39 9Z9 sing 83 n n C50 H40 9Z9 sing 84 n n C50 H41 9Z9 sing 85 n n C50 H42 9Z9 sing 86 n n C74 H43 9Z9 sing 87 n n C75 H44 9Z9 sing 88 n n C75 H45 9Z9 sing 89 n n C75 H46 9Z9 sing 90 n n C76 H47 9Z9 sing 91 n n C76 H48 9Z9 sing 92 n n C77 H49 9Z9 sing 93 n n C77 H50 9Z9 sing 94 n n C78 H51 9Z9 sing 95 n n C79 H52 9Z9 sing 96 n n C79 H53 9Z9 sing 97 n n C81 H54 9Z9 sing 98 n n C81 H55 9Z9 sing 99 n n C81 H56 9Z9 sing 100 n n # _atom_sites.entry_id 9P4Z _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 B 2 NA A 1 601 601 NA NA . C 2 NA A 1 602 603 NA NA . D 3 9Z9 A 1 603 604 9Z9 9Z9 . E 4 CLR A 1 604 605 CLR CLR . # 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 C01 9Z9 . . . D 3 159.765 115.963 120.4 1 56.94 ? C01 9Z9 603 A 1 HETATM 2 C C02 9Z9 . . . D 3 159.987 114.841 121.42 1 57.81 ? C02 9Z9 603 A 1 HETATM 3 C C03 9Z9 . . . D 3 159.707 115.274 122.887 1 55.05 ? C03 9Z9 603 A 1 HETATM 4 C C04 9Z9 . . . D 3 158.216 114.903 123.124 1 54.75 ? C04 9Z9 603 A 1 HETATM 5 C C05 9Z9 . . . D 3 157.69 114.259 121.847 1 54.6 ? C05 9Z9 603 A 1 HETATM 6 C C06 9Z9 . . . D 3 158.985 113.681 121.283 1 56.06 ? C06 9Z9 603 A 1 HETATM 7 C C07 9Z9 . . . D 3 158.974 113.053 119.902 1 54.49 ? C07 9Z9 603 A 1 HETATM 8 C C08 9Z9 . . . D 3 160.376 112.52 119.58 1 54.37 ? C08 9Z9 603 A 1 HETATM 9 C C09 9Z9 . . . D 3 161.453 113.599 119.828 1 56.95 ? C09 9Z9 603 A 1 HETATM 10 C C10 9Z9 . . . D 3 161.363 114.236 121.22 1 57.24 ? C10 9Z9 603 A 1 HETATM 11 C C11 9Z9 . . . D 3 160.411 111.934 118.135 1 57.25 ? C11 9Z9 603 A 1 HETATM 12 C C12 9Z9 . . . D 3 160.456 113.054 117.091 1 53.32 ? C12 9Z9 603 A 1 HETATM 13 C C13 9Z9 . . . D 3 159.201 111.103 117.844 1 57.22 ? C13 9Z9 603 A 1 HETATM 14 C C14 9Z9 . . . D 3 158.122 111.079 118.644 1 55.42 ? C14 9Z9 603 A 1 HETATM 15 C C15 9Z9 . . . D 3 158.015 111.868 119.887 1 56.28 ? C15 9Z9 603 A 1 HETATM 16 C C16 9Z9 . . . D 3 159.212 110.273 116.612 1 55.03 ? C16 9Z9 603 A 1 HETATM 17 C C17 9Z9 . . . D 3 160.487 109.41 116.591 1 56.53 ? C17 9Z9 603 A 1 HETATM 18 C C18 9Z9 . . . D 3 161.734 110.311 116.667 1 58.96 ? C18 9Z9 603 A 1 HETATM 19 C C19 9Z9 . . . D 3 161.669 111.064 117.992 1 57.44 ? C19 9Z9 603 A 1 HETATM 20 O O20 9Z9 . . . D 3 160.554 108.618 115.384 1 56.19 ? O20 9Z9 603 A 1 HETATM 21 C C21 9Z9 . . . D 3 160.586 109.32 114.142 1 55.5 ? C21 9Z9 603 A 1 HETATM 22 C C22 9Z9 . . . D 3 159.395 108.899 113.265 1 56.77 ? C22 9Z9 603 A 1 HETATM 23 C C23 9Z9 . . . D 3 158.993 109.954 112.198 1 59 ? C23 9Z9 603 A 1 HETATM 24 C C24 9Z9 . . . D 3 160.207 110.506 111.381 1 57.57 ? C24 9Z9 603 A 1 HETATM 25 O O25 9Z9 . . . D 3 159.873 111.787 110.885 1 58.81 ? O25 9Z9 603 A 1 HETATM 26 C C26 9Z9 . . . D 3 160.573 112.128 109.721 1 57.14 ? C26 9Z9 603 A 1 HETATM 27 C C48 9Z9 . . . D 3 158.261 111.124 112.907 1 58.88 ? C48 9Z9 603 A 1 HETATM 28 O O49 9Z9 . . . D 3 157.019 110.61 113.34 1 58.99 ? O49 9Z9 603 A 1 HETATM 29 C C50 9Z9 . . . D 3 156.008 110.808 112.391 1 53.52 ? C50 9Z9 603 A 1 HETATM 30 O O72 9Z9 . . . D 3 157.53 116.105 123.407 1 53.75 ? O72 9Z9 603 A 1 HETATM 31 C C73 9Z9 . . . D 3 158.445 116.95 124.057 1 55.81 ? C73 9Z9 603 A 1 HETATM 32 C C74 9Z9 . . . D 3 159.798 116.749 123.304 1 56.89 ? C74 9Z9 603 A 1 HETATM 33 C C75 9Z9 . . . D 3 161.029 117.061 124.126 1 58.3 ? C75 9Z9 603 A 1 HETATM 34 C C76 9Z9 . . . D 3 157.924 118.37 123.951 1 57.42 ? C76 9Z9 603 A 1 HETATM 35 C C77 9Z9 . . . D 3 156.97 118.657 125.086 1 55.89 ? C77 9Z9 603 A 1 HETATM 36 C C78 9Z9 . . . D 3 157.689 118.514 126.414 1 55.14 ? C78 9Z9 603 A 1 HETATM 37 C C79 9Z9 . . . D 3 158.653 117.32 126.4 1 54.81 ? C79 9Z9 603 A 1 HETATM 38 O O80 9Z9 . . . D 3 158.459 116.426 125.353 1 55.06 ? O80 9Z9 603 A 1 HETATM 39 C C81 9Z9 . . . D 3 156.694 118.382 127.555 1 56.22 ? C81 9Z9 603 A 1 # _model_server_stats.io_time_ms 127 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 39 #