data_8XOM # _model_server_result.job_id ZgSLCvlGBjBFYzb1Xz6Pew _model_server_result.datetime_utc '2025-01-03 04:47:07' _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 8xom # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":1414}' # _entry.id 8XOM # _exptl.entry_id 8XOM _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 516.752 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2-[2-[(1~{S},2~{S},4~{S},5'~{R},6~{R},7~{S},8~{R},9~{S},12~{S},13~{R},16~{S})-5',7,9,13-tetramethylspiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]-16-yl]oxyethyl]propane-1,3-diol" _entity.pdbx_number_of_molecules 14 _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 8XOM _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8XOM _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 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,K,L,M,N,O,P,Q,R,S _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 D N N ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K N N ? 4 L N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N ? 4 Q N 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 B O2B ANP . A ANP 1401 1_555 S MG MG . A MG 1418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.967 ? metalc ? metalc2 B O1A ANP . A ANP 1401 1_555 S MG MG . A MG 1418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc3 B O2A ANP . A ANP 1401 1_555 S MG MG . A MG 1418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc4 B O3A ANP . A ANP 1401 1_555 S MG MG . A MG 1418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.901 ? # _chem_comp.formula 'C32 H52 O5' _chem_comp.formula_weight 516.752 _chem_comp.id DU0 _chem_comp.mon_nstd_flag . _chem_comp.name "2-[2-[(1~{S},2~{S},4~{S},5'~{R},6~{R},7~{S},8~{R},9~{S},12~{S},13~{R},16~{S})-5',7,9,13-tetramethylspiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]-16-yl]oxyethyl]propane-1,3-diol" _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 C13 C12 DU0 sing 133 n n C12 C11 DU0 sing 134 n n C12 C14 DU0 sing 135 n n C11 O10 DU0 sing 136 n n C14 C15 DU0 sing 137 n n O10 C09 DU0 sing 138 n n C15 C09 DU0 sing 139 n n C09 O16 DU0 sing 140 n n C09 C07 DU0 sing 141 n n C08 C07 DU0 sing 142 n n O16 C05 DU0 sing 143 n n C07 C06 DU0 sing 144 n n C05 C06 DU0 sing 145 n n C05 C04 DU0 sing 146 n n C06 C02 DU0 sing 147 n n C04 C03 DU0 sing 148 n n C02 C01 DU0 sing 149 n n C02 C03 DU0 sing 150 n n C02 C81 DU0 sing 151 n n C03 C17 DU0 sing 152 n n C81 C80 DU0 sing 153 n n C17 C18 DU0 sing 154 n n C17 C79 DU0 sing 155 n n C80 C79 DU0 sing 156 n n C18 C19 DU0 sing 157 n n C79 C77 DU0 sing 158 n n C19 C20 DU0 doub 159 n n C77 C20 DU0 sing 160 n n C77 C78 DU0 sing 161 n n C77 C76 DU0 sing 162 n n C20 C21 DU0 sing 163 n n C76 C75 DU0 sing 164 n n C21 C22 DU0 sing 165 n n C75 C22 DU0 sing 166 n n C22 O23 DU0 sing 167 n n O23 C24 DU0 sing 168 n n C24 C25 DU0 sing 169 n n C25 C26 DU0 sing 170 n n C26 C27 DU0 sing 171 n n C26 C51 DU0 sing 172 n n C27 O28 DU0 sing 173 n n C51 O52 DU0 sing 174 n n C13 H1 DU0 sing 175 n n C13 H2 DU0 sing 176 n n C13 H3 DU0 sing 177 n n C15 H4 DU0 sing 178 n n C15 H5 DU0 sing 179 n n C17 H6 DU0 sing 180 n n C21 H7 DU0 sing 181 n n C21 H8 DU0 sing 182 n n C22 H9 DU0 sing 183 n n C24 H10 DU0 sing 184 n n C24 H11 DU0 sing 185 n n C26 H12 DU0 sing 186 n n C01 H13 DU0 sing 187 n n C01 H14 DU0 sing 188 n n C01 H15 DU0 sing 189 n n C03 H16 DU0 sing 190 n n C04 H17 DU0 sing 191 n n C04 H18 DU0 sing 192 n n C05 H19 DU0 sing 193 n n C06 H20 DU0 sing 194 n n C07 H21 DU0 sing 195 n n C08 H22 DU0 sing 196 n n C08 H23 DU0 sing 197 n n C08 H24 DU0 sing 198 n n C11 H25 DU0 sing 199 n n C11 H26 DU0 sing 200 n n C12 H27 DU0 sing 201 n n C14 H28 DU0 sing 202 n n C14 H29 DU0 sing 203 n n C18 H30 DU0 sing 204 n n C18 H31 DU0 sing 205 n n C19 H32 DU0 sing 206 n n C25 H33 DU0 sing 207 n n C25 H34 DU0 sing 208 n n C27 H35 DU0 sing 209 n n C27 H36 DU0 sing 210 n n C51 H37 DU0 sing 211 n n C51 H38 DU0 sing 212 n n C75 H39 DU0 sing 213 n n C75 H40 DU0 sing 214 n n C76 H41 DU0 sing 215 n n C76 H42 DU0 sing 216 n n C78 H43 DU0 sing 217 n n C78 H44 DU0 sing 218 n n C78 H45 DU0 sing 219 n n C79 H46 DU0 sing 220 n n C80 H47 DU0 sing 221 n n C80 H48 DU0 sing 222 n n C81 H49 DU0 sing 223 n n C81 H50 DU0 sing 224 n n O28 H51 DU0 sing 225 n n O52 H52 DU0 sing 226 n n # _atom_sites.entry_id 8XOM _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 ANP A 1 1401 1401 ANP ANP . C 3 MTX A 1 1402 1501 MTX MTX . D 4 DU0 A 1 1403 1 DU0 DU0 . E 4 DU0 A 1 1404 2 DU0 DU0 . F 4 DU0 A 1 1405 3 DU0 DU0 . G 4 DU0 A 1 1406 4 DU0 DU0 . H 4 DU0 A 1 1407 5 DU0 DU0 . I 4 DU0 A 1 1408 6 DU0 DU0 . J 4 DU0 A 1 1409 7 DU0 DU0 . K 4 DU0 A 1 1410 8 DU0 DU0 . L 4 DU0 A 1 1411 9 DU0 DU0 . M 4 DU0 A 1 1412 10 DU0 DU0 . N 4 DU0 A 1 1413 11 DU0 DU0 . O 4 DU0 A 1 1414 12 DU0 DU0 . P 4 DU0 A 1 1415 13 DU0 DU0 . Q 4 DU0 A 1 1416 14 DU0 DU0 . R 5 PLM A 1 1417 16 PLM PLM . S 6 MG A 1 1418 1 MG MG . # 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 C13 DU0 . . . O 4 90.662 91.673 113.378 1 179.32 ? C13 DU0 1414 A 1 HETATM 2 C C15 DU0 . . . O 4 92.228 89.557 111.498 1 191.91 ? C15 DU0 1414 A 1 HETATM 3 C C17 DU0 . . . O 4 91.871 91.275 104.763 1 181.06 ? C17 DU0 1414 A 1 HETATM 4 C C20 DU0 . . . O 4 91.578 92.195 102.046 1 179.9 ? C20 DU0 1414 A 1 HETATM 5 C C21 DU0 . . . O 4 91.763 92.63 100.617 1 173.16 ? C21 DU0 1414 A 1 HETATM 6 C C22 DU0 . . . O 4 90.705 92.056 99.673 1 180.42 ? C22 DU0 1414 A 1 HETATM 7 C C24 DU0 . . . O 4 90.722 93.342 97.641 1 173.9 ? C24 DU0 1414 A 1 HETATM 8 C C26 DU0 . . . O 4 88.599 94.328 96.552 1 196.36 ? C26 DU0 1414 A 1 HETATM 9 C C01 DU0 . . . O 4 93.006 89.08 106.532 1 182.07 ? C01 DU0 1414 A 1 HETATM 10 C C02 DU0 . . . O 4 91.525 89.47 106.543 1 194.91 ? C02 DU0 1414 A 1 HETATM 11 C C03 DU0 . . . O 4 91.323 90.936 106.132 1 186.68 ? C03 DU0 1414 A 1 HETATM 12 C C04 DU0 . . . O 4 91.771 91.714 107.362 1 182.38 ? C04 DU0 1414 A 1 HETATM 13 C C05 DU0 . . . O 4 90.952 90.969 108.414 1 195.17 ? C05 DU0 1414 A 1 HETATM 14 C C06 DU0 . . . O 4 90.938 89.483 107.973 1 199.7 ? C06 DU0 1414 A 1 HETATM 15 C C07 DU0 . . . O 4 91.682 88.78 109.11 1 198.09 ? C07 DU0 1414 A 1 HETATM 16 C C08 DU0 . . . O 4 91.313 87.323 109.321 1 194.53 ? C08 DU0 1414 A 1 HETATM 17 C C09 DU0 . . . O 4 91.345 89.724 110.273 1 200.18 ? C09 DU0 1414 A 1 HETATM 18 C C11 DU0 . . . O 4 89.475 90.381 111.601 1 198.9 ? C11 DU0 1414 A 1 HETATM 19 C C12 DU0 . . . O 4 90.241 90.287 112.912 1 192.38 ? C12 DU0 1414 A 1 HETATM 20 C C14 DU0 . . . O 4 91.426 89.33 112.776 1 192.89 ? C14 DU0 1414 A 1 HETATM 21 C C18 DU0 . . . O 4 91.678 92.757 104.48 1 176.7 ? C18 DU0 1414 A 1 HETATM 22 C C19 DU0 . . . O 4 91.639 93.087 103.028 1 178.76 ? C19 DU0 1414 A 1 HETATM 23 C C25 DU0 . . . O 4 89.363 93.082 97.016 1 185.36 ? C25 DU0 1414 A 1 HETATM 24 C C27 DU0 . . . O 4 87.314 93.884 95.861 1 192.85 ? C27 DU0 1414 A 1 HETATM 25 C C51 DU0 . . . O 4 89.55 95.076 95.622 1 194.86 ? C51 DU0 1414 A 1 HETATM 26 C C75 DU0 . . . O 4 90.506 90.571 99.92 1 181.31 ? C75 DU0 1414 A 1 HETATM 27 C C76 DU0 . . . O 4 90.276 90.257 101.391 1 177.94 ? C76 DU0 1414 A 1 HETATM 28 C C77 DU0 . . . O 4 91.442 90.707 102.286 1 179.95 ? C77 DU0 1414 A 1 HETATM 29 C C78 DU0 . . . O 4 92.736 89.999 101.858 1 177.31 ? C78 DU0 1414 A 1 HETATM 30 C C79 DU0 . . . O 4 91.089 90.411 103.762 1 183.85 ? C79 DU0 1414 A 1 HETATM 31 C C80 DU0 . . . O 4 91.208 88.922 104.112 1 188.13 ? C80 DU0 1414 A 1 HETATM 32 C C81 DU0 . . . O 4 90.755 88.617 105.541 1 193.7 ? C81 DU0 1414 A 1 HETATM 33 O O10 DU0 . . . O 4 89.99 89.528 110.595 1 203.92 ? O10 DU0 1414 A 1 HETATM 34 O O16 DU0 . . . O 4 91.538 90.994 109.71 1 195.81 ? O16 DU0 1414 A 1 HETATM 35 O O23 DU0 . . . O 4 91.114 92.18 98.332 1 176.24 ? O23 DU0 1414 A 1 HETATM 36 O O28 DU0 . . . O 4 87.609 93.304 94.613 1 194.24 ? O28 DU0 1414 A 1 HETATM 37 O O52 DU0 . . . O 4 88.887 96.046 94.844 1 194.45 ? O52 DU0 1414 A 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 37 _model_server_stats.create_model_time_ms 133 _model_server_stats.query_time_ms 992 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 37 #