data_1ZCW # _model_server_result.job_id zgMfiDuqfCmd8MX0k05a1A _model_server_result.datetime_utc '2024-11-15 12:42:35' _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 1zcw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 1ZCW # _exptl.entry_id 1ZCW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 314.209 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'GERANYL 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 90 _cell.entry_id 1ZCW _cell.length_a 74.598 _cell.length_b 91.901 _cell.length_c 48.832 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1ZCW _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 4 _struct_asym.id E _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 OD2 ASP 62 A ASP 62 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc2 E O2A GPP . A GPP 401 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.536 ? metalc ? metalc3 E O3A GPP . A GPP 401 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.034 ? metalc ? metalc4 B MG MG . A MG 501 1_555 F O HOH . A HOH 665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc5 B MG MG . A MG 501 1_555 F O HOH . A HOH 666 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? # _chem_comp.formula 'C10 H20 O7 P2' _chem_comp.formula_weight 314.209 _chem_comp.id GPP _chem_comp.mon_nstd_flag . _chem_comp.name 'GERANYL 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 C1 O1 GPP sing 129 n n C1 C2 GPP sing 130 n n C1 H11 GPP sing 131 n n C1 H12 GPP sing 132 n n O1 PA GPP sing 133 n n C2 C3 GPP doub 134 e n C2 H2 GPP sing 135 n n C3 C4 GPP sing 136 n n C3 C5 GPP sing 137 n n C4 H41 GPP sing 138 n n C4 H42 GPP sing 139 n n C4 H43 GPP sing 140 n n C5 C6 GPP sing 141 n n C5 H51 GPP sing 142 n n C5 H52 GPP sing 143 n n C6 C7 GPP sing 144 n n C6 H61 GPP sing 145 n n C6 H62 GPP sing 146 n n C7 C8 GPP doub 147 n n C7 H7 GPP sing 148 n n C8 C9 GPP sing 149 n n C8 C10 GPP sing 150 n n C9 H91 GPP sing 151 n n C9 H92 GPP sing 152 n n C9 H93 GPP sing 153 n n C10 H101 GPP sing 154 n n C10 H102 GPP sing 155 n n C10 H103 GPP sing 156 n n PA O1A GPP doub 157 n n PA O2A GPP sing 158 n n PA O3A GPP sing 159 n n O2A HOA2 GPP sing 160 n n O3A PB GPP sing 161 n n PB O1B GPP doub 162 n n PB O2B GPP sing 163 n n PB O3B GPP sing 164 n n O2B HOB2 GPP sing 165 n n O3B HOB3 GPP sing 166 n n # _atom_sites.entry_id 1ZCW _atom_sites.fract_transf_matrix[1][1] 0.013405 _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] 0.010881 _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] 0.020478 _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 MG A 1 501 501 MG MG . C 3 NO3 A 1 601 601 NO3 NO3 . D 3 NO3 A 1 602 602 NO3 NO3 . E 4 GPP A 1 401 401 GPP GPP . F 5 HOH A 1 603 1 HOH HOH . F 5 HOH A 2 604 2 HOH HOH . F 5 HOH A 3 605 3 HOH HOH . F 5 HOH A 4 606 4 HOH HOH . F 5 HOH A 5 607 5 HOH HOH . F 5 HOH A 6 608 6 HOH HOH . F 5 HOH A 7 609 7 HOH HOH . F 5 HOH A 8 610 8 HOH HOH . F 5 HOH A 9 611 9 HOH HOH . F 5 HOH A 10 612 11 HOH HOH . F 5 HOH A 11 613 12 HOH HOH . F 5 HOH A 12 614 13 HOH HOH . F 5 HOH A 13 615 14 HOH HOH . F 5 HOH A 14 616 15 HOH HOH . F 5 HOH A 15 617 16 HOH HOH . F 5 HOH A 16 618 17 HOH HOH . F 5 HOH A 17 619 18 HOH HOH . F 5 HOH A 18 620 19 HOH HOH . F 5 HOH A 19 621 20 HOH HOH . F 5 HOH A 20 622 21 HOH HOH . F 5 HOH A 21 623 22 HOH HOH . F 5 HOH A 22 624 23 HOH HOH . F 5 HOH A 23 625 24 HOH HOH . F 5 HOH A 24 626 25 HOH HOH . F 5 HOH A 25 627 26 HOH HOH . F 5 HOH A 26 628 29 HOH HOH . F 5 HOH A 27 629 30 HOH HOH . F 5 HOH A 28 630 31 HOH HOH . F 5 HOH A 29 631 33 HOH HOH . F 5 HOH A 30 632 34 HOH HOH . F 5 HOH A 31 633 35 HOH HOH . F 5 HOH A 32 634 36 HOH HOH . F 5 HOH A 33 635 37 HOH HOH . F 5 HOH A 34 636 38 HOH HOH . F 5 HOH A 35 637 39 HOH HOH . F 5 HOH A 36 638 40 HOH HOH . F 5 HOH A 37 639 43 HOH HOH . F 5 HOH A 38 640 44 HOH HOH . F 5 HOH A 39 641 46 HOH HOH . F 5 HOH A 40 642 47 HOH HOH . F 5 HOH A 41 643 48 HOH HOH . F 5 HOH A 42 644 49 HOH HOH . F 5 HOH A 43 645 50 HOH HOH . F 5 HOH A 44 646 51 HOH HOH . F 5 HOH A 45 647 52 HOH HOH . F 5 HOH A 46 648 53 HOH HOH . F 5 HOH A 47 649 54 HOH HOH . F 5 HOH A 48 650 56 HOH HOH . F 5 HOH A 49 651 58 HOH HOH . F 5 HOH A 50 652 59 HOH HOH . F 5 HOH A 51 653 60 HOH HOH . F 5 HOH A 52 654 61 HOH HOH . F 5 HOH A 53 655 62 HOH HOH . F 5 HOH A 54 656 63 HOH HOH . F 5 HOH A 55 657 64 HOH HOH . F 5 HOH A 56 658 65 HOH HOH . F 5 HOH A 57 659 66 HOH HOH . F 5 HOH A 58 660 67 HOH HOH . F 5 HOH A 59 661 68 HOH HOH . F 5 HOH A 60 662 69 HOH HOH . F 5 HOH A 61 663 70 HOH HOH . F 5 HOH A 62 664 71 HOH HOH . F 5 HOH A 63 665 73 HOH HOH . F 5 HOH A 64 666 74 HOH HOH . F 5 HOH A 65 667 75 HOH HOH . F 5 HOH A 66 668 78 HOH HOH . F 5 HOH A 67 669 79 HOH HOH . F 5 HOH A 68 670 80 HOH HOH . F 5 HOH A 69 671 85 HOH HOH . F 5 HOH A 70 672 86 HOH HOH . F 5 HOH A 71 673 88 HOH HOH . F 5 HOH A 72 674 89 HOH HOH . F 5 HOH A 73 675 90 HOH HOH . F 5 HOH A 74 676 91 HOH HOH . F 5 HOH A 75 677 92 HOH HOH . F 5 HOH A 76 678 93 HOH HOH . F 5 HOH A 77 679 94 HOH HOH . F 5 HOH A 78 680 95 HOH HOH . F 5 HOH A 79 681 96 HOH HOH . F 5 HOH A 80 682 97 HOH HOH . F 5 HOH A 81 683 98 HOH HOH . F 5 HOH A 82 684 99 HOH HOH . F 5 HOH A 83 685 100 HOH HOH . F 5 HOH A 84 686 101 HOH HOH . F 5 HOH A 85 687 102 HOH HOH . F 5 HOH A 86 688 103 HOH HOH . F 5 HOH A 87 689 104 HOH HOH . F 5 HOH A 88 690 105 HOH HOH . F 5 HOH A 89 691 106 HOH HOH . F 5 HOH A 90 692 107 HOH HOH . F 5 HOH A 91 693 108 HOH HOH . F 5 HOH A 92 694 109 HOH HOH . F 5 HOH A 93 695 110 HOH HOH . F 5 HOH A 94 696 111 HOH HOH . F 5 HOH A 95 697 112 HOH HOH . F 5 HOH A 96 698 113 HOH HOH . F 5 HOH A 97 699 115 HOH HOH . F 5 HOH A 98 700 117 HOH HOH . F 5 HOH A 99 701 118 HOH HOH . F 5 HOH A 100 702 119 HOH HOH . F 5 HOH A 101 703 121 HOH HOH . F 5 HOH A 102 704 122 HOH HOH . F 5 HOH A 103 705 123 HOH HOH . F 5 HOH A 104 706 124 HOH HOH . F 5 HOH A 105 707 125 HOH HOH . F 5 HOH A 106 708 126 HOH HOH . F 5 HOH A 107 709 127 HOH HOH . F 5 HOH A 108 710 129 HOH HOH . F 5 HOH A 109 711 130 HOH HOH . F 5 HOH A 110 712 131 HOH HOH . F 5 HOH A 111 713 133 HOH HOH . F 5 HOH A 112 714 134 HOH HOH . F 5 HOH A 113 715 136 HOH HOH . F 5 HOH A 114 716 138 HOH HOH . F 5 HOH A 115 717 139 HOH HOH . F 5 HOH A 116 718 140 HOH HOH . F 5 HOH A 117 719 141 HOH HOH . F 5 HOH A 118 720 142 HOH HOH . F 5 HOH A 119 721 146 HOH HOH . F 5 HOH A 120 722 147 HOH HOH . F 5 HOH A 121 723 148 HOH HOH . F 5 HOH A 122 724 149 HOH HOH . F 5 HOH A 123 725 150 HOH HOH . F 5 HOH A 124 726 151 HOH HOH . F 5 HOH A 125 727 152 HOH HOH . F 5 HOH A 126 728 153 HOH HOH . F 5 HOH A 127 729 154 HOH HOH . F 5 HOH A 128 730 157 HOH HOH . F 5 HOH A 129 731 160 HOH HOH . F 5 HOH A 130 732 161 HOH HOH . F 5 HOH A 131 733 162 HOH HOH . F 5 HOH A 132 734 163 HOH HOH . F 5 HOH A 133 735 164 HOH HOH . F 5 HOH A 134 736 165 HOH HOH . F 5 HOH A 135 737 167 HOH HOH . F 5 HOH A 136 738 168 HOH HOH . F 5 HOH A 137 739 169 HOH HOH . F 5 HOH A 138 740 170 HOH HOH . F 5 HOH A 139 741 174 HOH HOH . F 5 HOH A 140 742 175 HOH HOH . F 5 HOH A 141 743 177 HOH HOH . F 5 HOH A 142 744 178 HOH HOH . F 5 HOH A 143 745 180 HOH HOH . F 5 HOH A 144 746 182 HOH HOH . F 5 HOH A 145 747 189 HOH HOH . F 5 HOH A 146 748 193 HOH HOH . F 5 HOH A 147 749 196 HOH HOH . F 5 HOH A 148 750 198 HOH HOH . F 5 HOH A 149 751 199 HOH HOH . F 5 HOH A 150 752 200 HOH HOH . F 5 HOH A 151 753 203 HOH HOH . F 5 HOH A 152 754 204 HOH HOH . F 5 HOH A 153 755 207 HOH HOH . F 5 HOH A 154 756 208 HOH HOH . F 5 HOH A 155 757 209 HOH HOH . F 5 HOH A 156 758 210 HOH HOH . F 5 HOH A 157 759 211 HOH HOH . F 5 HOH A 158 760 214 HOH HOH . F 5 HOH A 159 761 215 HOH HOH . F 5 HOH A 160 762 216 HOH HOH . F 5 HOH A 161 763 217 HOH HOH . F 5 HOH A 162 764 218 HOH HOH . F 5 HOH A 163 765 222 HOH HOH . F 5 HOH A 164 766 223 HOH HOH . F 5 HOH A 165 767 224 HOH HOH . F 5 HOH A 166 768 227 HOH HOH . F 5 HOH A 167 769 231 HOH HOH . F 5 HOH A 168 770 232 HOH HOH . F 5 HOH A 169 771 233 HOH HOH . F 5 HOH A 170 772 238 HOH HOH . F 5 HOH A 171 773 240 HOH HOH . F 5 HOH A 172 774 243 HOH HOH . F 5 HOH A 173 775 244 HOH HOH . F 5 HOH A 174 776 245 HOH HOH . F 5 HOH A 175 777 249 HOH HOH . F 5 HOH A 176 778 250 HOH HOH . F 5 HOH A 177 779 252 HOH HOH . F 5 HOH A 178 780 253 HOH HOH . F 5 HOH A 179 781 256 HOH HOH . F 5 HOH A 180 782 259 HOH HOH . F 5 HOH A 181 783 260 HOH HOH . F 5 HOH A 182 784 264 HOH HOH . F 5 HOH A 183 785 267 HOH HOH . F 5 HOH A 184 786 268 HOH HOH . F 5 HOH A 185 787 269 HOH HOH . F 5 HOH A 186 788 274 HOH HOH . F 5 HOH A 187 789 277 HOH HOH . F 5 HOH A 188 790 278 HOH HOH . F 5 HOH A 189 791 279 HOH HOH . F 5 HOH A 190 792 283 HOH HOH . F 5 HOH A 191 793 286 HOH HOH . F 5 HOH A 192 794 290 HOH HOH . F 5 HOH A 193 795 291 HOH HOH . F 5 HOH A 194 796 295 HOH HOH . F 5 HOH A 195 797 297 HOH HOH . F 5 HOH A 196 798 305 HOH HOH . F 5 HOH A 197 799 308 HOH HOH . F 5 HOH A 198 800 311 HOH HOH . F 5 HOH A 199 801 312 HOH HOH . F 5 HOH A 200 802 313 HOH HOH . F 5 HOH A 201 803 314 HOH HOH . F 5 HOH A 202 804 315 HOH HOH . F 5 HOH A 203 805 317 HOH HOH . F 5 HOH A 204 806 319 HOH HOH . F 5 HOH A 205 807 320 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 GPP . . . E 4 24.609 27.26 6.824 1 70.9 ? C1 GPP 401 A 1 HETATM 2 O O1 GPP . . . E 4 23.492 26.736 6.111 1 73.86 ? O1 GPP 401 A 1 HETATM 3 C C2 GPP . . . E 4 25.369 26.1 7.497 1 68.16 ? C2 GPP 401 A 1 HETATM 4 C C3 GPP . . . E 4 26.514 26.163 8.255 1 66.19 ? C3 GPP 401 A 1 HETATM 5 C C4 GPP . . . E 4 27.249 27.483 8.553 1 65.77 ? C4 GPP 401 A 1 HETATM 6 C C5 GPP . . . E 4 27.131 24.87 8.847 1 64.01 ? C5 GPP 401 A 1 HETATM 7 C C6 GPP . . . E 4 28.432 25.024 9.667 1 62.32 ? C6 GPP 401 A 1 HETATM 8 C C7 GPP . . . E 4 28.925 23.689 10.168 1 61.35 ? C7 GPP 401 A 1 HETATM 9 C C8 GPP . . . E 4 30.026 23.409 10.908 1 61.38 ? C8 GPP 401 A 1 HETATM 10 C C9 GPP . . . E 4 31.053 24.409 11.419 1 61.68 ? C9 GPP 401 A 1 HETATM 11 C C10 GPP . . . E 4 30.322 21.975 11.297 1 60.13 ? C10 GPP 401 A 1 HETATM 12 P PA GPP . . . E 4 21.994 26.425 6.697 1 75.98 ? PA GPP 401 A 1 HETATM 13 O O1A GPP . . . E 4 21.516 27.762 7.208 1 76.19 ? O1A GPP 401 A 1 HETATM 14 O O2A GPP . . . E 4 22.185 25.508 7.876 1 76.49 ? O2A GPP 401 A 1 HETATM 15 O O3A GPP . . . E 4 20.894 25.849 5.644 1 75.8 ? O3A GPP 401 A 1 HETATM 16 P PB GPP . . . E 4 20.877 25.476 4.067 1 74.12 ? PB GPP 401 A 1 HETATM 17 O O1B GPP . . . E 4 19.775 24.506 3.858 1 75.37 ? O1B GPP 401 A 1 HETATM 18 O O2B GPP . . . E 4 20.614 26.719 3.317 1 73.51 ? O2B GPP 401 A 1 HETATM 19 O O3B GPP . . . E 4 22.175 24.839 3.687 1 75.57 ? O3B GPP 401 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 19 #