data_7PB1 # _model_server_result.job_id x2-E2jbeQuPQQ271DMxdDw _model_server_result.datetime_utc '2024-11-02 21:34:11' _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 7pb1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 7PB1 # _exptl.entry_id 7PB1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 450.443 _entity.id 4 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description 'GERANYLGERANYL DIPHOSPHATE' _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 7PB1 _cell.length_a 183.47 _cell.length_b 183.47 _cell.length_c 112.29 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7PB1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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 'point symmetry operation' ? ? 1 0 0 0 -1 0 0 0 -1 0 212.55 150.124 # _struct_asym.details ? _struct_asym.entity_id 4 _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 OD1 ASP 41 A ASP 34 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc2 C MG MG . A MG 401 1_555 D O3B GRG . A GRG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.915 ? metalc ? metalc3 C MG MG . A MG 401 1_555 D O2A GRG . A GRG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc4 C MG MG . A MG 401 1_555 E O7 ISY . A ISY 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc5 C MG MG . A MG 401 1_555 F O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc6 C MG MG . A MG 401 1_555 G O HOH . B HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? # _chem_comp.formula 'C20 H36 O7 P2' _chem_comp.formula_weight 450.443 _chem_comp.id GRG _chem_comp.mon_nstd_flag . _chem_comp.name 'GERANYLGERANYL DIPHOSPHATE' _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 C20 C18 GRG sing 129 n n C20 H201 GRG sing 130 n n C20 H202 GRG sing 131 n n C20 H203 GRG sing 132 n n C19 C18 GRG sing 133 n n C19 H191 GRG sing 134 n n C19 H192 GRG sing 135 n n C19 H193 GRG sing 136 n n C18 C17 GRG doub 137 n n C17 C16 GRG sing 138 n n C17 H17 GRG sing 139 n n C16 C15 GRG sing 140 n n C16 H161 GRG sing 141 n n C16 H162 GRG sing 142 n n C14 C13 GRG sing 143 n n C14 H141 GRG sing 144 n n C14 H142 GRG sing 145 n n C14 H143 GRG sing 146 n n C13 C15 GRG sing 147 n n C13 C12 GRG doub 148 e n C15 H151 GRG sing 149 n n C15 H152 GRG sing 150 n n C12 C11 GRG sing 151 n n C12 H12 GRG sing 152 n n C11 C9 GRG sing 153 n n C11 H111 GRG sing 154 n n C11 H112 GRG sing 155 n n C9 C8 GRG sing 156 n n C9 HC91 GRG sing 157 n n C9 HC92 GRG sing 158 n n C8 C10 GRG sing 159 n n C8 C7 GRG doub 160 e n C10 H101 GRG sing 161 n n C10 H102 GRG sing 162 n n C10 H103 GRG sing 163 n n C7 C6 GRG sing 164 n n C7 HC7 GRG sing 165 n n C6 C5 GRG sing 166 n n C6 HC61 GRG sing 167 n n C6 HC62 GRG sing 168 n n C5 C3 GRG sing 169 n n C5 HC51 GRG sing 170 n n C5 HC52 GRG sing 171 n n C3 C4 GRG sing 172 n n C3 C2 GRG doub 173 e n C4 HC41 GRG sing 174 n n C4 HC42 GRG sing 175 n n C4 HC43 GRG sing 176 n n C2 C1 GRG sing 177 n n C2 HC2 GRG sing 178 n n C1 O1 GRG sing 179 n n C1 HC11 GRG sing 180 n n C1 HC12 GRG sing 181 n n O1 PA GRG sing 182 n n PA O1A GRG sing 183 n n PA O3A GRG sing 184 n n PA O2A GRG doub 185 n n O1A H1AO GRG sing 186 n n O3A PB GRG sing 187 n n PB O1B GRG sing 188 n n PB O2B GRG sing 189 n n PB O3B GRG doub 190 n n O1B H1BO GRG sing 191 n n O2B H2BO GRG sing 192 n n # _atom_sites.entry_id 7PB1 _atom_sites.fract_transf_matrix[1][1] 0.00545 _atom_sites.fract_transf_matrix[1][2] 0.003147 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006294 _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] 0.008906 _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 1 401 1 MG MG . D 4 GRG A 1 402 401 GRG GRG . E 5 ISY A 1 403 501 ISY ISY . F 6 HOH A 1 501 1 HOH HOH . G 6 HOH B 1 301 2 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 C20 GRG . . . D 4 22.353 128.572 32.772 1 89.18 ? C20 GRG 402 A 1 HETATM 2 C C19 GRG . . . D 4 23.878 129.391 34.744 1 103.03 ? C19 GRG 402 A 1 HETATM 3 C C18 GRG . . . D 4 23.744 128.793 33.342 1 93.47 ? C18 GRG 402 A 1 HETATM 4 C C17 GRG . . . D 4 24.846 128.476 32.659 1 86.22 ? C17 GRG 402 A 1 HETATM 5 C C16 GRG . . . D 4 24.769 127.868 31.24 1 79.46 ? C16 GRG 402 A 1 HETATM 6 C C14 GRG . . . D 4 26.854 127.473 29.114 1 78.16 ? C14 GRG 402 A 1 HETATM 7 C C13 GRG . . . D 4 26.055 126.338 29.758 1 70 ? C13 GRG 402 A 1 HETATM 8 C C15 GRG . . . D 4 25.537 126.528 31.203 1 72.69 ? C15 GRG 402 A 1 HETATM 9 C C12 GRG . . . D 4 25.817 125.221 29.044 1 65.21 ? C12 GRG 402 A 1 HETATM 10 C C11 GRG . . . D 4 25.015 124.014 29.607 1 66.86 ? C11 GRG 402 A 1 HETATM 11 C C9 GRG . . . D 4 24.49 123.113 28.435 1 61.95 ? C9 GRG 402 A 1 HETATM 12 C C8 GRG . . . D 4 25.65 122.424 27.655 1 65.43 ? C8 GRG 402 A 1 HETATM 13 C C10 GRG . . . D 4 26.353 123.11 26.492 1 72.04 ? C10 GRG 402 A 1 HETATM 14 C C7 GRG . . . D 4 26.065 121.186 27.984 1 64.57 ? C7 GRG 402 A 1 HETATM 15 C C6 GRG . . . D 4 27.22 120.58 27.155 1 68.24 ? C6 GRG 402 A 1 HETATM 16 C C5 GRG . . . D 4 28.427 120.245 28.075 1 67.05 ? C5 GRG 402 A 1 HETATM 17 C C3 GRG . . . D 4 29.158 119.006 27.536 1 68.46 ? C3 GRG 402 A 1 HETATM 18 C C4 GRG . . . D 4 30.614 119.105 27.074 1 62.86 ? C4 GRG 402 A 1 HETATM 19 C C2 GRG . . . D 4 28.465 117.862 27.476 1 73.47 ? C2 GRG 402 A 1 HETATM 20 C C1 GRG . . . D 4 29.043 116.538 26.98 1 67.64 ? C1 GRG 402 A 1 HETATM 21 O O1 GRG . . . D 4 28.256 115.99 25.947 1 49.31 ? O1 GRG 402 A 1 HETATM 22 P PA GRG . . . D 4 29.231 115.529 24.676 1 63.61 ? PA GRG 402 A 1 HETATM 23 O O1A GRG . . . D 4 29.692 116.78 23.968 1 74.79 ? O1A GRG 402 A 1 HETATM 24 O O3A GRG . . . D 4 28.391 114.533 23.675 1 81.26 ? O3A GRG 402 A 1 HETATM 25 O O2A GRG . . . D 4 30.465 114.812 25.167 1 49.36 ? O2A GRG 402 A 1 HETATM 26 P PB GRG . . . D 4 28.978 113.048 23.318 1 86.29 ? PB GRG 402 A 1 HETATM 27 O O1B GRG . . . D 4 28.037 112.357 22.367 1 73.25 ? O1B GRG 402 A 1 HETATM 28 O O2B GRG . . . D 4 30.348 113.23 22.713 1 72.11 ? O2B GRG 402 A 1 HETATM 29 O O3B GRG . . . D 4 29.082 112.239 24.585 1 67.24 ? O3B GRG 402 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 29 #