data_9FMF # _model_server_result.job_id fet_oRiD5BKK9jFv35D8lQ _model_server_result.datetime_utc '2025-07-27 22:00:26' _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 9fmf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":903}' # _entry.id 9FMF # _exptl.entry_id 9FMF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 6 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 9FMF _cell.length_a 110.04 _cell.length_b 110.04 _cell.length_c 91.327 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9FMF _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 6 _struct_asym.id F _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 covale ? covale1 B O3' DA 11 B DA 111 1_555 B P DOC 12 B DOC 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.591 ? metalc ? metalc1 A OD1 ASP 318 A ASP 610 1_555 D MG MG . A MG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc2 A O TYR 319 A TYR 611 1_555 D MG MG . A MG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc3 A OD2 ASP 493 A ASP 785 1_555 D MG MG . A MG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc4 D MG MG . A MG 901 1_555 E O19 A1IDW . A A1IDW 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc5 D MG MG . A MG 901 1_555 E O25 A1IDW . A A1IDW 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc6 D MG MG . A MG 901 1_555 E O15 A1IDW . A A1IDW 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? hydrog WATSON-CRICK hydrog1 B N1 DG 1 B DG 101 1_555 C N3 DC 16 C DC 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N2 DG 1 B DG 101 1_555 C O2 DC 16 C DC 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O6 DG 1 B DG 101 1_555 C N4 DC 16 C DC 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N1 DA 2 B DA 102 1_555 C N3 DT 15 C DT 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N6 DA 2 B DA 102 1_555 C O4 DT 15 C DT 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B N3 DC 3 B DC 103 1_555 C N1 DG 14 C DG 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N4 DC 3 B DC 103 1_555 C O6 DG 14 C DG 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B O2 DC 3 B DC 103 1_555 C N2 DG 14 C DG 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B N3 DC 4 B DC 104 1_555 C N1 DG 13 C DG 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B N4 DC 4 B DC 104 1_555 C O6 DG 13 C DG 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B O2 DC 4 B DC 104 1_555 C N2 DG 13 C DG 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B N1 DA 5 B DA 105 1_555 C N3 DT 12 C DT 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B N6 DA 5 B DA 105 1_555 C O4 DT 12 C DT 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B N3 DC 6 B DC 106 1_555 C N1 DG 11 C DG 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B N4 DC 6 B DC 106 1_555 C O6 DG 11 C DG 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 B O2 DC 6 B DC 106 1_555 C N2 DG 11 C DG 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B N1 DG 7 B DG 107 1_555 C N3 DC 10 C DC 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B N2 DG 7 B DG 107 1_555 C O2 DC 10 C DC 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 B O6 DG 7 B DG 107 1_555 C N4 DC 10 C DC 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 B N1 DG 8 B DG 108 1_555 C N3 DC 9 C DC 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 B N2 DG 8 B DG 108 1_555 C O2 DC 9 C DC 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 B O6 DG 8 B DG 108 1_555 C N4 DC 9 C DC 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 B N3 DC 9 B DC 109 1_555 C N1 DG 8 C DG 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 B N4 DC 9 B DC 109 1_555 C O6 DG 8 C DG 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 B O2 DC 9 B DC 109 1_555 C N2 DG 8 C DG 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 B N3 DC 10 B DC 110 1_555 C N1 DG 7 C DG 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 B N4 DC 10 B DC 110 1_555 C O6 DG 7 C DG 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 B O2 DC 10 B DC 110 1_555 C N2 DG 7 C DG 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 B N1 DA 11 B DA 111 1_555 C N3 DT 6 C DT 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 B N6 DA 11 B DA 111 1_555 C O4 DT 6 C DT 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 B N3 DOC 12 B DOC 112 1_555 C N1 DG 5 C DG 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 B N4 DOC 12 B DOC 112 1_555 C O6 DG 5 C DG 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 B O2 DOC 12 B DOC 112 1_555 C N2 DG 5 C DG 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 O1 GOL sing 358 n n C1 C2 GOL sing 359 n n C1 H11 GOL sing 360 n n C1 H12 GOL sing 361 n n O1 HO1 GOL sing 362 n n C2 O2 GOL sing 363 n n C2 C3 GOL sing 364 n n C2 H2 GOL sing 365 n n O2 HO2 GOL sing 366 n n C3 O3 GOL sing 367 n n C3 H31 GOL sing 368 n n C3 H32 GOL sing 369 n n O3 HO3 GOL sing 370 n n # _atom_sites.entry_id 9FMF _atom_sites.fract_transf_matrix[1][1] 0.009088 _atom_sites.fract_transf_matrix[1][2] 0.005247 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010493 _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] 0.01095 _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 D 4 MG A 1 901 1 MG MG . E 5 A1IDW A 1 902 1 A1IDW L3N . F 6 GOL A 1 903 1 GOL GOL . G 7 HOH A 1 1001 75 HOH HOH . G 7 HOH A 2 1002 5 HOH HOH . G 7 HOH A 3 1003 309 HOH HOH . G 7 HOH A 4 1004 152 HOH HOH . G 7 HOH A 5 1005 312 HOH HOH . G 7 HOH A 6 1006 24 HOH HOH . G 7 HOH A 7 1007 6 HOH HOH . G 7 HOH A 8 1008 298 HOH HOH . G 7 HOH A 9 1009 296 HOH HOH . G 7 HOH A 10 1010 168 HOH HOH . G 7 HOH A 11 1011 300 HOH HOH . G 7 HOH A 12 1012 165 HOH HOH . G 7 HOH A 13 1013 148 HOH HOH . G 7 HOH A 14 1014 294 HOH HOH . G 7 HOH A 15 1015 68 HOH HOH . G 7 HOH A 16 1016 218 HOH HOH . G 7 HOH A 17 1017 303 HOH HOH . G 7 HOH A 18 1018 308 HOH HOH . G 7 HOH A 19 1019 40 HOH HOH . G 7 HOH A 20 1020 304 HOH HOH . G 7 HOH A 21 1021 109 HOH HOH . G 7 HOH A 22 1022 290 HOH HOH . G 7 HOH A 23 1023 4 HOH HOH . G 7 HOH A 24 1024 299 HOH HOH . G 7 HOH A 25 1025 129 HOH HOH . G 7 HOH A 26 1026 310 HOH HOH . G 7 HOH A 27 1027 311 HOH HOH . G 7 HOH A 28 1028 126 HOH HOH . G 7 HOH A 29 1029 307 HOH HOH . G 7 HOH A 30 1030 134 HOH HOH . H 7 HOH B 1 201 238 HOH HOH . H 7 HOH B 2 202 301 HOH HOH . I 7 HOH C 1 301 291 HOH HOH . I 7 HOH C 2 302 28 HOH HOH . I 7 HOH C 3 303 306 HOH HOH . I 7 HOH C 4 304 107 HOH HOH . I 7 HOH C 5 305 293 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 GOL . . . F 6 35.93 26.325 9.584 0.9 61.74 ? C1 GOL 903 A 1 HETATM 2 O O1 GOL . . . F 6 36.981 27.223 9.289 0.9 63.75 ? O1 GOL 903 A 1 HETATM 3 C C2 GOL . . . F 6 35.797 25.277 8.491 0.9 61.41 ? C2 GOL 903 A 1 HETATM 4 O O2 GOL . . . F 6 36.772 24.26 8.652 0.9 59.53 ? O2 GOL 903 A 1 HETATM 5 C C3 GOL . . . F 6 34.405 24.673 8.381 0.9 60.44 ? C3 GOL 903 A 1 HETATM 6 O O3 GOL . . . F 6 34.6 23.265 8.357 0.9 61.22 ? O3 GOL 903 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #