data_1DOA # _model_server_result.job_id fnI9dsv9YyoNRAR1knxdBA _model_server_result.datetime_utc '2025-07-07 19:53:04' _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 1doa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":952}' # _entry.id 1DOA # _exptl.entry_id 1DOA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 274.484 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'GERAN-8-YL GERAN' _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 1DOA _cell.length_a 83.94 _cell.length_b 83.94 _cell.length_c 191.16 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DOA _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA hexameric 6 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H 1 1 A,B,C,D,E,F,G,H 2 1,2,3 # 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' 2_645 -y+1,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 125.91 -72.694172 0 3 'crystal symmetry operation' 3_765 -x+y+2,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 125.91 72.694172 0 # _struct_asym.details ? _struct_asym.entity_id 5 _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 A C ARG 190 A ARG 187 1_555 A N CMT 191 A CMT 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A SG CMT 191 A CMT 188 1_555 F C1 GER . A GER 952 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.818 ? metalc ? metalc1 A ND1 HIS 3 A HIS 0 1_555 D MG MG . A MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.811 ? metalc ? metalc2 A OG1 THR 20 A THR 17 1_555 C MG MG . A MG 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc3 A O THR 38 A THR 35 1_555 C MG MG . A MG 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.289 ? metalc ? metalc4 E O2B GDP . A GDP 198 1_555 C MG MG . A MG 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.603 ? metalc ? metalc5 C MG MG . A MG 199 1_555 G O HOH . A HOH 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.893 ? metalc ? metalc6 C MG MG . A MG 199 1_555 G O HOH . A HOH 749 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc7 D MG MG . A MG 200 1_555 G O HOH . A HOH 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.904 ? # _chem_comp.formula 'C20 H34' _chem_comp.formula_weight 274.484 _chem_comp.id GER _chem_comp.mon_nstd_flag . _chem_comp.name 'GERAN-8-YL GERAN' _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 C1 C2 GER sing 144 n n C1 H11 GER sing 145 n n C1 H12 GER sing 146 n n C1 H13 GER sing 147 n n C2 C3 GER doub 148 e n C2 H21 GER sing 149 n n C3 C4 GER sing 150 n n C3 C5 GER sing 151 n n C4 H41 GER sing 152 n n C4 H42 GER sing 153 n n C4 H43 GER sing 154 n n C5 C6 GER sing 155 n n C5 H51 GER sing 156 n n C5 H52 GER sing 157 n n C6 C7 GER sing 158 n n C6 H61 GER sing 159 n n C6 H62 GER sing 160 n n C7 C8 GER doub 161 e n C7 H71 GER sing 162 n n C8 C9 GER sing 163 n n C8 C10 GER sing 164 n n C9 H91 GER sing 165 n n C9 H92 GER sing 166 n n C9 H93 GER sing 167 n n C10 C11 GER sing 168 n n C10 H101 GER sing 169 n n C10 H102 GER sing 170 n n C11 C12 GER sing 171 n n C11 H111 GER sing 172 n n C11 H112 GER sing 173 n n C12 C13 GER doub 174 e n C12 H121 GER sing 175 n n C13 C14 GER sing 176 n n C13 C15 GER sing 177 n n C14 H141 GER sing 178 n n C14 H142 GER sing 179 n n C14 H143 GER sing 180 n n C15 C16 GER sing 181 n n C15 H151 GER sing 182 n n C15 H152 GER sing 183 n n C16 C17 GER sing 184 n n C16 H161 GER sing 185 n n C16 H162 GER sing 186 n n C17 C18 GER doub 187 n n C17 H171 GER sing 188 n n C18 C19 GER sing 189 n n C18 C20 GER sing 190 n n C19 H191 GER sing 191 n n C19 H192 GER sing 192 n n C19 H193 GER sing 193 n n C20 H201 GER sing 194 n n C20 H202 GER sing 195 n n C20 H203 GER sing 196 n n # _atom_sites.entry_id 1DOA _atom_sites.fract_transf_matrix[1][1] 0.011913 _atom_sites.fract_transf_matrix[1][2] 0.006878 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013756 _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] 0.005231 _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 C 3 MG A 1 199 199 MG MG2 . D 3 MG A 1 200 200 MG MG2 . E 4 GDP A 1 198 198 GDP GDP . F 5 GER A 1 952 952 GER GER . G 6 HOH A 1 701 701 HOH WAT . G 6 HOH A 2 702 702 HOH WAT . G 6 HOH A 3 703 703 HOH WAT . G 6 HOH A 4 704 704 HOH WAT . G 6 HOH A 5 705 705 HOH WAT . G 6 HOH A 6 706 706 HOH WAT . G 6 HOH A 7 707 707 HOH WAT . G 6 HOH A 8 709 709 HOH WAT . G 6 HOH A 9 710 710 HOH WAT . G 6 HOH A 10 711 711 HOH WAT . G 6 HOH A 11 712 712 HOH WAT . G 6 HOH A 12 713 713 HOH WAT . G 6 HOH A 13 714 714 HOH WAT . G 6 HOH A 14 715 715 HOH WAT . G 6 HOH A 15 716 716 HOH WAT . G 6 HOH A 16 718 718 HOH WAT . G 6 HOH A 17 720 720 HOH WAT . G 6 HOH A 18 721 721 HOH WAT . G 6 HOH A 19 722 722 HOH WAT . G 6 HOH A 20 723 723 HOH WAT . G 6 HOH A 21 724 724 HOH WAT . G 6 HOH A 22 725 725 HOH WAT . G 6 HOH A 23 726 726 HOH WAT . G 6 HOH A 24 728 728 HOH WAT . G 6 HOH A 25 729 729 HOH WAT . G 6 HOH A 26 730 730 HOH WAT . G 6 HOH A 27 731 731 HOH WAT . G 6 HOH A 28 732 732 HOH WAT . G 6 HOH A 29 733 733 HOH WAT . G 6 HOH A 30 734 734 HOH WAT . G 6 HOH A 31 735 735 HOH WAT . G 6 HOH A 32 736 736 HOH WAT . G 6 HOH A 33 737 737 HOH WAT . G 6 HOH A 34 745 745 HOH WAT . G 6 HOH A 35 747 747 HOH WAT . G 6 HOH A 36 748 748 HOH WAT . G 6 HOH A 37 749 749 HOH WAT . H 6 HOH B 1 708 708 HOH WAT . H 6 HOH B 2 717 717 HOH WAT . H 6 HOH B 3 719 719 HOH WAT . H 6 HOH B 4 727 727 HOH WAT . H 6 HOH B 5 738 738 HOH WAT . H 6 HOH B 6 739 739 HOH WAT . H 6 HOH B 7 740 740 HOH WAT . H 6 HOH B 8 741 741 HOH WAT . H 6 HOH B 9 742 742 HOH WAT . H 6 HOH B 10 743 743 HOH WAT . H 6 HOH B 11 744 744 HOH WAT . H 6 HOH B 12 746 746 HOH WAT . H 6 HOH B 13 750 750 HOH WAT . # 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 GER . . . F 5 61.911 15.896 40.363 1 116.83 ? C1 GER 952 A 1 HETATM 2 C C2 GER . . . F 5 61.687 14.397 40.304 1 111.69 ? C2 GER 952 A 1 HETATM 3 C C3 GER . . . F 5 61.79 13.612 41.395 1 107.7 ? C3 GER 952 A 1 HETATM 4 C C4 GER . . . F 5 62.145 14.309 42.7 1 106.78 ? C4 GER 952 A 1 HETATM 5 C C5 GER . . . F 5 61.555 12.091 41.286 1 105.22 ? C5 GER 952 A 1 HETATM 6 C C6 GER . . . F 5 60.997 11.394 40.05 1 102.48 ? C6 GER 952 A 1 HETATM 7 C C7 GER . . . F 5 61.507 9.97 39.929 1 100.18 ? C7 GER 952 A 1 HETATM 8 C C8 GER . . . F 5 61.819 9.5 38.703 1 98.52 ? C8 GER 952 A 1 HETATM 9 C C9 GER . . . F 5 61.616 10.491 37.555 1 97.32 ? C9 GER 952 A 1 HETATM 10 C C10 GER . . . F 5 62.329 8.028 38.636 1 95.07 ? C10 GER 952 A 1 HETATM 11 C C11 GER . . . F 5 62.504 7.258 37.322 1 91.52 ? C11 GER 952 A 1 HETATM 12 C C12 GER . . . F 5 62.675 5.767 37.537 1 88.44 ? C12 GER 952 A 1 HETATM 13 C C13 GER . . . F 5 62.851 4.91 36.502 1 86.95 ? C13 GER 952 A 1 HETATM 14 C C14 GER . . . F 5 62.874 5.508 35.096 1 86.7 ? C14 GER 952 A 1 HETATM 15 C C15 GER . . . F 5 63.029 3.409 36.754 1 85.48 ? C15 GER 952 A 1 HETATM 16 C C16 GER . . . F 5 64.026 2.539 35.992 1 85.01 ? C16 GER 952 A 1 HETATM 17 C C17 GER . . . F 5 64.267 1.224 36.703 1 85.85 ? C17 GER 952 A 1 HETATM 18 C C18 GER . . . F 5 64.144 0.07 36.016 1 86.3 ? C18 GER 952 A 1 HETATM 19 C C19 GER . . . F 5 63.758 0.207 34.539 1 83.45 ? C19 GER 952 A 1 HETATM 20 C C20 GER . . . F 5 64.412 -1.213 36.841 1 84.25 ? C20 GER 952 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 20 #