data_3PH7 # _model_server_result.job_id YdyozZqC4ThqFMni-O19lA _model_server_result.datetime_utc '2024-11-18 09:48:33' _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 3ph7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1502}' # _entry.id 3PH7 # _exptl.entry_id 3PH7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 450.443 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'GERANYLGERANYL DIPHOSPHATE' _entity.pdbx_number_of_molecules 4 _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 3PH7 _cell.length_a 107.095 _cell.length_b 108.985 _cell.length_c 141.354 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PH7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # 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 dimeric 2 author_and_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,E,F,I,J 1 1 C,D,G,H,K,L 2 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 ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _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 3PH7 _atom_sites.fract_transf_matrix[1][1] 0.009338 _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] 0.009176 _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] 0.007074 _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 E 2 GRG A 1 1502 1502 GRG GRG . F 2 GRG B 1 1502 1502 GRG GRG . G 2 GRG C 1 1502 1502 GRG GRG . H 2 GRG D 1 1502 1502 GRG GRG . I 3 HOH A 1 397 2 HOH HOH . I 3 HOH A 2 398 4 HOH HOH . I 3 HOH A 3 399 9 HOH HOH . I 3 HOH A 4 400 10 HOH HOH . I 3 HOH A 5 401 12 HOH HOH . I 3 HOH A 6 402 17 HOH HOH . I 3 HOH A 7 403 20 HOH HOH . I 3 HOH A 8 404 59 HOH HOH . I 3 HOH A 9 405 62 HOH HOH . I 3 HOH A 10 406 67 HOH HOH . I 3 HOH A 11 407 68 HOH HOH . I 3 HOH A 12 408 70 HOH HOH . I 3 HOH A 13 409 71 HOH HOH . I 3 HOH A 14 410 74 HOH HOH . I 3 HOH A 15 411 77 HOH HOH . I 3 HOH A 16 412 84 HOH HOH . I 3 HOH A 17 413 88 HOH HOH . I 3 HOH A 18 414 90 HOH HOH . I 3 HOH A 19 415 101 HOH HOH . I 3 HOH A 20 416 110 HOH HOH . I 3 HOH A 21 417 114 HOH HOH . I 3 HOH A 22 418 120 HOH HOH . I 3 HOH A 23 419 133 HOH HOH . I 3 HOH A 24 420 136 HOH HOH . I 3 HOH A 25 421 140 HOH HOH . I 3 HOH A 26 422 142 HOH HOH . I 3 HOH A 27 423 148 HOH HOH . I 3 HOH A 28 424 149 HOH HOH . I 3 HOH A 29 425 150 HOH HOH . I 3 HOH A 30 426 151 HOH HOH . I 3 HOH A 31 427 152 HOH HOH . I 3 HOH A 32 428 157 HOH HOH . I 3 HOH A 33 429 164 HOH HOH . J 3 HOH B 1 397 1 HOH HOH . J 3 HOH B 2 398 8 HOH HOH . J 3 HOH B 3 399 11 HOH HOH . J 3 HOH B 4 400 13 HOH HOH . J 3 HOH B 5 401 14 HOH HOH . J 3 HOH B 6 402 33 HOH HOH . J 3 HOH B 7 403 36 HOH HOH . J 3 HOH B 8 404 39 HOH HOH . J 3 HOH B 9 405 46 HOH HOH . J 3 HOH B 10 406 47 HOH HOH . J 3 HOH B 11 407 52 HOH HOH . J 3 HOH B 12 408 53 HOH HOH . J 3 HOH B 13 409 57 HOH HOH . J 3 HOH B 14 410 58 HOH HOH . J 3 HOH B 15 411 65 HOH HOH . J 3 HOH B 16 412 69 HOH HOH . J 3 HOH B 17 413 72 HOH HOH . J 3 HOH B 18 414 76 HOH HOH . J 3 HOH B 19 415 81 HOH HOH . J 3 HOH B 20 416 83 HOH HOH . J 3 HOH B 21 417 89 HOH HOH . J 3 HOH B 22 418 93 HOH HOH . J 3 HOH B 23 419 105 HOH HOH . J 3 HOH B 24 420 107 HOH HOH . J 3 HOH B 25 421 108 HOH HOH . J 3 HOH B 26 422 123 HOH HOH . J 3 HOH B 27 423 125 HOH HOH . J 3 HOH B 28 424 161 HOH HOH . J 3 HOH B 29 425 162 HOH HOH . J 3 HOH B 30 426 163 HOH HOH . J 3 HOH B 31 427 165 HOH HOH . J 3 HOH B 32 428 167 HOH HOH . K 3 HOH C 1 397 19 HOH HOH . K 3 HOH C 2 398 24 HOH HOH . K 3 HOH C 3 399 29 HOH HOH . K 3 HOH C 4 400 60 HOH HOH . K 3 HOH C 5 401 78 HOH HOH . K 3 HOH C 6 402 96 HOH HOH . K 3 HOH C 7 403 135 HOH HOH . K 3 HOH C 8 404 137 HOH HOH . K 3 HOH C 9 405 153 HOH HOH . K 3 HOH C 10 406 154 HOH HOH . L 3 HOH D 1 397 22 HOH HOH . L 3 HOH D 2 398 31 HOH HOH . L 3 HOH D 3 399 32 HOH HOH . L 3 HOH D 4 400 35 HOH HOH . L 3 HOH D 5 401 43 HOH HOH . L 3 HOH D 6 402 73 HOH HOH . L 3 HOH D 7 403 91 HOH HOH . L 3 HOH D 8 404 97 HOH HOH . L 3 HOH D 9 405 99 HOH HOH . L 3 HOH D 10 406 100 HOH HOH . L 3 HOH D 11 407 103 HOH HOH . L 3 HOH D 12 408 117 HOH HOH . L 3 HOH D 13 409 118 HOH HOH . L 3 HOH D 14 410 131 HOH HOH . L 3 HOH D 15 411 166 HOH HOH . L 3 HOH D 16 412 168 HOH HOH . L 3 HOH D 17 413 169 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 . . . E 2 30.645 13.218 9.526 1 37.41 ? C20 GRG 1502 A 1 HETATM 2 C C19 GRG . . . E 2 30.618 10.698 9.869 1 34.87 ? C19 GRG 1502 A 1 HETATM 3 C C18 GRG . . . E 2 31.423 11.941 9.639 1 84.96 ? C18 GRG 1502 A 1 HETATM 4 C C17 GRG . . . E 2 32.691 11.929 9.529 1 55.78 ? C17 GRG 1502 A 1 HETATM 5 C C16 GRG . . . E 2 33.952 11.949 9.359 1 66.99 ? C16 GRG 1502 A 1 HETATM 6 C C14 GRG . . . E 2 33.874 14.293 11.782 1 45.43 ? C14 GRG 1502 A 1 HETATM 7 C C13 GRG . . . E 2 34.559 12.98 11.663 1 53.34 ? C13 GRG 1502 A 1 HETATM 8 C C15 GRG . . . E 2 35.024 12.53 10.291 1 34.89 ? C15 GRG 1502 A 1 HETATM 9 C C12 GRG . . . E 2 34.736 12.319 12.721 1 49.35 ? C12 GRG 1502 A 1 HETATM 10 C C11 GRG . . . E 2 34.874 11.702 13.813 1 58.85 ? C11 GRG 1502 A 1 HETATM 11 C C9 GRG . . . E 2 35.547 12.332 15.018 1 43.64 ? C9 GRG 1502 A 1 HETATM 12 C C8 GRG . . . E 2 34.919 11.931 16.341 1 50.5 ? C8 GRG 1502 A 1 HETATM 13 C C10 GRG . . . E 2 33.779 12.733 16.876 1 59.97 ? C10 GRG 1502 A 1 HETATM 14 C C7 GRG . . . E 2 35.304 10.94 17.021 1 95.34 ? C7 GRG 1502 A 1 HETATM 15 C C6 GRG . . . E 2 35.633 9.951 17.731 1 50.06 ? C6 GRG 1502 A 1 HETATM 16 C C5 GRG . . . E 2 35.137 9.863 19.15 1 58.89 ? C5 GRG 1502 A 1 HETATM 17 C C3 GRG . . . E 2 34.692 8.479 19.577 1 60.5 ? C3 GRG 1502 A 1 HETATM 18 C C4 GRG . . . E 2 34.44 7.398 18.563 1 53.88 ? C4 GRG 1502 A 1 HETATM 19 C C2 GRG . . . E 2 34.53 8.25 20.811 1 91.63 ? C2 GRG 1502 A 1 HETATM 20 C C1 GRG . . . E 2 34.378 8.036 22.048 1 42.87 ? C1 GRG 1502 A 1 HETATM 21 O O1 GRG . . . E 2 33.058 8.169 22.638 1 72.63 ? O1 GRG 1502 A 1 HETATM 22 P PA GRG . . . E 2 32.614 7.246 23.875 1 52.17 ? PA GRG 1502 A 1 HETATM 23 O O1A GRG . . . E 2 33.704 7.382 24.928 1 52.75 ? O1A GRG 1502 A 1 HETATM 24 O O3A GRG . . . E 2 32.629 5.745 23.26 1 53.79 ? O3A GRG 1502 A 1 HETATM 25 O O2A GRG . . . E 2 31.201 7.645 24.221 1 65.86 ? O2A GRG 1502 A 1 HETATM 26 P PB GRG . . . E 2 31.461 4.613 23.215 1 46.38 ? PB GRG 1502 A 1 HETATM 27 O O1B GRG . . . E 2 30.593 4.978 22.053 1 47.31 ? O1B GRG 1502 A 1 HETATM 28 O O2B GRG . . . E 2 32.211 3.353 22.924 1 48.62 ? O2B GRG 1502 A 1 HETATM 29 O O3B GRG . . . E 2 30.736 4.639 24.544 1 73.58 ? O3B GRG 1502 A 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 29 #