data_3M02 # _model_server_result.job_id iZkrTIDrugax9TdOzjcqjA _model_server_result.datetime_utc '2024-11-07 16:02:04' _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 3m02 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":549}' # _entry.id 3M02 # _exptl.entry_id 3M02 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 400.317 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2E,6E)-2-fluoro-3,7,11-trimethyldodeca-2,6,10-trien-1-yl trihydrogen 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 3M02 _cell.length_a 125.5 _cell.length_b 125.5 _cell.length_c 121.3 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3M02 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 3 _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 303 A ASP 301 1_555 B MG MG . A MG 852 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc2 A OD1 ASP 303 A ASP 301 1_555 C MG MG . A MG 853 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc3 A OD2 ASP 307 A ASP 305 1_555 C MG MG . A MG 853 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc4 A OD1 ASP 446 A ASP 444 1_555 D MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.565 ? metalc ? metalc5 A OD1 ASP 447 A ASP 445 1_555 D MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.831 ? metalc ? metalc6 A OG1 THR 450 A THR 448 1_555 D MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.876 ? metalc ? metalc7 A OE1 GLU 454 A GLU 452 1_555 D MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc8 E O3A 2CF . A 2CF 549 1_555 B MG MG . A MG 852 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.755 ? metalc ? metalc9 E OB2 2CF . A 2CF 549 1_555 C MG MG . A MG 853 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? metalc ? metalc10 F O HOH . A HOH 615 1_555 B MG MG . A MG 852 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.946 ? metalc ? metalc11 F O HOH . A HOH 615 1_555 C MG MG . A MG 853 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? metalc ? metalc12 F O HOH . A HOH 671 1_555 D MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? # _chem_comp.formula 'C15 H27 F O7 P2' _chem_comp.formula_weight 400.317 _chem_comp.id 2CF _chem_comp.mon_nstd_flag . _chem_comp.name '(2E,6E)-2-fluoro-3,7,11-trimethyldodeca-2,6,10-trien-1-yl trihydrogen 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 F 2CF sing 1 n n C2 C1 2CF doub 2 n n C1 C15 2CF sing 3 e n C4 C2 2CF sing 4 n n C3 C2 2CF sing 5 n n C3 C5 2CF sing 6 n n C3 H3 2CF sing 7 n n C3 H3A 2CF sing 8 n n C4 H4 2CF sing 9 n n C4 H4A 2CF sing 10 n n C4 H4B 2CF sing 11 n n C5 C6 2CF sing 12 n n C5 H5 2CF sing 13 n n C5 H5A 2CF sing 14 n n C6 C7 2CF doub 15 e n C6 H6 2CF sing 16 n n C7 C14 2CF sing 17 n n C7 C8 2CF sing 18 n n C9 C8 2CF sing 19 n n C8 H8 2CF sing 20 n n C8 H8A 2CF sing 21 n n C10 C9 2CF sing 22 n n C9 H9 2CF sing 23 n n C9 H9A 2CF sing 24 n n O1A PA 2CF sing 25 n n PA O2A 2CF doub 26 n n PA O3A 2CF sing 27 n n PA OB4 2CF sing 28 n n OB2 PB 2CF doub 29 n n PB OB3 2CF sing 30 n n PB OB4 2CF sing 31 n n PB OB1 2CF sing 32 n n C11 C10 2CF doub 33 n n C10 H10 2CF sing 34 n n C12 C11 2CF sing 35 n n C13 C11 2CF sing 36 n n C12 H12 2CF sing 37 n n C12 H12A 2CF sing 38 n n C12 H12B 2CF sing 39 n n C13 H13 2CF sing 40 n n C13 H13A 2CF sing 41 n n C13 H13B 2CF sing 42 n n C14 H14 2CF sing 43 n n C14 H14A 2CF sing 44 n n C14 H14B 2CF sing 45 n n C15 O1A 2CF sing 46 n n C15 H15 2CF sing 47 n n C15 H15A 2CF sing 48 n n O3A HO3A 2CF sing 49 n n OB1 HOB1 2CF sing 50 n n OB3 HOB3 2CF sing 51 n n # _atom_sites.entry_id 3M02 _atom_sites.fract_transf_matrix[1][1] 0.007968 _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] 0.007968 _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] 0.008244 _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 1 852 852 MG MG . C 2 MG A 1 853 853 MG MG . D 2 MG A 1 854 854 MG MG . E 3 2CF A 1 549 0 2CF 2CF . F 4 HOH A 1 550 550 HOH HOH . F 4 HOH A 2 551 551 HOH HOH . F 4 HOH A 3 552 552 HOH HOH . F 4 HOH A 4 553 553 HOH HOH . F 4 HOH A 5 554 554 HOH HOH . F 4 HOH A 6 555 555 HOH HOH . F 4 HOH A 7 556 556 HOH HOH . F 4 HOH A 8 557 557 HOH HOH . F 4 HOH A 9 558 558 HOH HOH . F 4 HOH A 10 559 559 HOH HOH . F 4 HOH A 11 560 560 HOH HOH . F 4 HOH A 12 561 561 HOH HOH . F 4 HOH A 13 562 562 HOH HOH . F 4 HOH A 14 563 563 HOH HOH . F 4 HOH A 15 564 564 HOH HOH . F 4 HOH A 16 565 565 HOH HOH . F 4 HOH A 17 566 566 HOH HOH . F 4 HOH A 18 567 567 HOH HOH . F 4 HOH A 19 568 568 HOH HOH . F 4 HOH A 20 569 569 HOH HOH . F 4 HOH A 21 570 570 HOH HOH . F 4 HOH A 22 571 571 HOH HOH . F 4 HOH A 23 572 572 HOH HOH . F 4 HOH A 24 573 573 HOH HOH . F 4 HOH A 25 574 574 HOH HOH . F 4 HOH A 26 575 575 HOH HOH . F 4 HOH A 27 576 576 HOH HOH . F 4 HOH A 28 577 577 HOH HOH . F 4 HOH A 29 578 578 HOH HOH . F 4 HOH A 30 579 579 HOH HOH . F 4 HOH A 31 580 580 HOH HOH . F 4 HOH A 32 581 581 HOH HOH . F 4 HOH A 33 582 582 HOH HOH . F 4 HOH A 34 583 583 HOH HOH . F 4 HOH A 35 584 584 HOH HOH . F 4 HOH A 36 585 585 HOH HOH . F 4 HOH A 37 586 586 HOH HOH . F 4 HOH A 38 587 587 HOH HOH . F 4 HOH A 39 588 588 HOH HOH . F 4 HOH A 40 589 589 HOH HOH . F 4 HOH A 41 590 590 HOH HOH . F 4 HOH A 42 591 591 HOH HOH . F 4 HOH A 43 592 592 HOH HOH . F 4 HOH A 44 593 593 HOH HOH . F 4 HOH A 45 594 594 HOH HOH . F 4 HOH A 46 595 595 HOH HOH . F 4 HOH A 47 596 596 HOH HOH . F 4 HOH A 48 597 597 HOH HOH . F 4 HOH A 49 598 598 HOH HOH . F 4 HOH A 50 599 599 HOH HOH . F 4 HOH A 51 600 600 HOH HOH . F 4 HOH A 52 601 601 HOH HOH . F 4 HOH A 53 602 602 HOH HOH . F 4 HOH A 54 603 603 HOH HOH . F 4 HOH A 55 604 604 HOH HOH . F 4 HOH A 56 605 605 HOH HOH . F 4 HOH A 57 606 606 HOH HOH . F 4 HOH A 58 607 607 HOH HOH . F 4 HOH A 59 608 608 HOH HOH . F 4 HOH A 60 609 609 HOH HOH . F 4 HOH A 61 610 610 HOH HOH . F 4 HOH A 62 611 611 HOH HOH . F 4 HOH A 63 612 612 HOH HOH . F 4 HOH A 64 613 613 HOH HOH . F 4 HOH A 65 614 614 HOH HOH . F 4 HOH A 66 615 615 HOH HOH . F 4 HOH A 67 616 616 HOH HOH . F 4 HOH A 68 617 617 HOH HOH . F 4 HOH A 69 618 618 HOH HOH . F 4 HOH A 70 619 619 HOH HOH . F 4 HOH A 71 620 620 HOH HOH . F 4 HOH A 72 621 621 HOH HOH . F 4 HOH A 73 622 622 HOH HOH . F 4 HOH A 74 623 623 HOH HOH . F 4 HOH A 75 624 624 HOH HOH . F 4 HOH A 76 625 625 HOH HOH . F 4 HOH A 77 626 626 HOH HOH . F 4 HOH A 78 627 627 HOH HOH . F 4 HOH A 79 628 628 HOH HOH . F 4 HOH A 80 629 629 HOH HOH . F 4 HOH A 81 630 630 HOH HOH . F 4 HOH A 82 631 631 HOH HOH . F 4 HOH A 83 632 632 HOH HOH . F 4 HOH A 84 633 633 HOH HOH . F 4 HOH A 85 634 634 HOH HOH . F 4 HOH A 86 635 635 HOH HOH . F 4 HOH A 87 636 636 HOH HOH . F 4 HOH A 88 637 637 HOH HOH . F 4 HOH A 89 638 638 HOH HOH . F 4 HOH A 90 639 639 HOH HOH . F 4 HOH A 91 640 640 HOH HOH . F 4 HOH A 92 641 641 HOH HOH . F 4 HOH A 93 642 642 HOH HOH . F 4 HOH A 94 643 643 HOH HOH . F 4 HOH A 95 644 644 HOH HOH . F 4 HOH A 96 645 645 HOH HOH . F 4 HOH A 97 646 646 HOH HOH . F 4 HOH A 98 647 647 HOH HOH . F 4 HOH A 99 648 648 HOH HOH . F 4 HOH A 100 649 649 HOH HOH . F 4 HOH A 101 650 650 HOH HOH . F 4 HOH A 102 651 651 HOH HOH . F 4 HOH A 103 652 652 HOH HOH . F 4 HOH A 104 653 653 HOH HOH . F 4 HOH A 105 654 654 HOH HOH . F 4 HOH A 106 655 655 HOH HOH . F 4 HOH A 107 656 656 HOH HOH . F 4 HOH A 108 657 657 HOH HOH . F 4 HOH A 109 658 658 HOH HOH . F 4 HOH A 110 659 659 HOH HOH . F 4 HOH A 111 660 660 HOH HOH . F 4 HOH A 112 661 661 HOH HOH . F 4 HOH A 113 662 662 HOH HOH . F 4 HOH A 114 663 663 HOH HOH . F 4 HOH A 115 664 664 HOH HOH . F 4 HOH A 116 665 665 HOH HOH . F 4 HOH A 117 666 666 HOH HOH . F 4 HOH A 118 667 667 HOH HOH . F 4 HOH A 119 668 668 HOH HOH . F 4 HOH A 120 669 669 HOH HOH . F 4 HOH A 121 670 670 HOH HOH . F 4 HOH A 122 671 671 HOH HOH . F 4 HOH A 123 672 672 HOH HOH . F 4 HOH A 124 673 673 HOH HOH . F 4 HOH A 125 674 674 HOH HOH . F 4 HOH A 126 675 675 HOH HOH . F 4 HOH A 127 676 676 HOH HOH . F 4 HOH A 128 677 677 HOH HOH . F 4 HOH A 129 678 678 HOH HOH . F 4 HOH A 130 679 679 HOH HOH . F 4 HOH A 131 680 680 HOH HOH . F 4 HOH A 132 681 681 HOH HOH . F 4 HOH A 133 682 682 HOH HOH . F 4 HOH A 134 683 683 HOH HOH . F 4 HOH A 135 684 684 HOH HOH . F 4 HOH A 136 685 685 HOH HOH . F 4 HOH A 137 686 686 HOH HOH . F 4 HOH A 138 687 687 HOH HOH . F 4 HOH A 139 688 688 HOH HOH . F 4 HOH A 140 689 689 HOH HOH . F 4 HOH A 141 690 690 HOH HOH . F 4 HOH A 142 691 691 HOH HOH . F 4 HOH A 143 692 692 HOH HOH . F 4 HOH A 144 693 693 HOH HOH . F 4 HOH A 145 694 694 HOH HOH . F 4 HOH A 146 695 695 HOH HOH . F 4 HOH A 147 696 696 HOH HOH . F 4 HOH A 148 697 697 HOH HOH . F 4 HOH A 149 698 698 HOH HOH . F 4 HOH A 150 699 699 HOH HOH . F 4 HOH A 151 700 700 HOH HOH . F 4 HOH A 152 701 701 HOH HOH . F 4 HOH A 153 702 702 HOH HOH . F 4 HOH A 154 703 703 HOH HOH . F 4 HOH A 155 704 704 HOH HOH . F 4 HOH A 156 705 705 HOH HOH . F 4 HOH A 157 706 706 HOH HOH . F 4 HOH A 158 707 707 HOH HOH . F 4 HOH A 159 708 708 HOH HOH . F 4 HOH A 160 709 709 HOH HOH . F 4 HOH A 161 710 710 HOH HOH . F 4 HOH A 162 711 549 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 F F 2CF . . . E 3 109.78 43.734 47.568 1 87.02 ? F 2CF 549 A 1 HETATM 2 C C1 2CF . . . E 3 109.755 42.49 47.112 1 86.46 ? C1 2CF 549 A 1 HETATM 3 C C2 2CF . . . E 3 110.488 42.145 46.003 1 86.42 ? C2 2CF 549 A 1 HETATM 4 C C3 2CF . . . E 3 110.535 40.754 45.378 1 86.07 ? C3 2CF 549 A 1 HETATM 5 C C4 2CF . . . E 3 111.34 43.168 45.284 1 87.06 ? C4 2CF 549 A 1 HETATM 6 C C5 2CF . . . E 3 111.809 39.948 45.716 1 86.67 ? C5 2CF 549 A 1 HETATM 7 C C6 2CF . . . E 3 111.577 39.1 46.939 1 87.46 ? C6 2CF 549 A 1 HETATM 8 C C7 2CF . . . E 3 111.029 37.87 47.027 1 87.72 ? C7 2CF 549 A 1 HETATM 9 C C8 2CF . . . E 3 110.841 37.139 48.349 1 87.9 ? C8 2CF 549 A 1 HETATM 10 C C9 2CF . . . E 3 109.803 37.675 49.375 1 87.91 ? C9 2CF 549 A 1 HETATM 11 P PA 2CF . . . E 3 108.498 41.863 50.587 1 83.66 ? PA 2CF 549 A 1 HETATM 12 P PB 2CF . . . E 3 105.84 40.601 50.84 1 78.89 ? PB 2CF 549 A 1 HETATM 13 C C10 2CF . . . E 3 108.411 37.995 48.839 1 87.45 ? C10 2CF 549 A 1 HETATM 14 C C11 2CF . . . E 3 107.412 37.165 48.449 1 87.6 ? C11 2CF 549 A 1 HETATM 15 C C12 2CF . . . E 3 106.102 37.73 47.951 1 86.86 ? C12 2CF 549 A 1 HETATM 16 C C13 2CF . . . E 3 107.444 35.652 48.451 1 87.44 ? C13 2CF 549 A 1 HETATM 17 C C14 2CF . . . E 3 110.526 37.064 45.85 1 88.29 ? C14 2CF 549 A 1 HETATM 18 C C15 2CF . . . E 3 108.854 41.544 47.916 1 85.95 ? C15 2CF 549 A 1 HETATM 19 O O1A 2CF . . . E 3 108.152 42.138 49.027 1 84.78 ? O1A 2CF 549 A 1 HETATM 20 O O2A 2CF . . . E 3 109.685 40.782 50.576 1 85.08 ? O2A 2CF 549 A 1 HETATM 21 O O3A 2CF . . . E 3 109.015 43.271 51.436 1 84.27 ? O3A 2CF 549 A 1 HETATM 22 O OB1 2CF . . . E 3 104.822 41.288 51.861 1 80.51 ? OB1 2CF 549 A 1 HETATM 23 O OB2 2CF . . . E 3 105.492 41.228 49.424 1 77.27 ? OB2 2CF 549 A 1 HETATM 24 O OB3 2CF . . . E 3 105.678 38.884 50.819 1 78.84 ? OB3 2CF 549 A 1 HETATM 25 O OB4 2CF . . . E 3 107.277 41.114 51.319 1 81.22 ? OB4 2CF 549 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #