data_3LZ9 # _model_server_result.job_id 3iucKc1ou-4y5tZ4KR8T1A _model_server_result.datetime_utc '2024-11-07 14:50:44' _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 3lz9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":700}' # _entry.id 3LZ9 # _exptl.entry_id 3LZ9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 400.317 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2Z,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 3LZ9 _cell.length_a 126.33 _cell.length_b 126.33 _cell.length_c 121.91 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LZ9 _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 2 _struct_asym.id B _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 303 A ASP 301 1_555 C MG MG . A MG 852 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? metalc ? metalc2 A OD2 ASP 303 A ASP 301 1_555 D MG MG . A MG 853 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc3 A OD1 ASP 307 A ASP 305 1_555 C MG MG . A MG 852 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc4 A OD2 ASP 307 A ASP 305 1_555 C MG MG . A MG 852 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? metalc ? metalc5 A OD1 ASP 307 A ASP 305 1_555 D MG MG . A MG 853 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.144 ? metalc ? metalc6 A OD1 ASP 446 A ASP 444 1_555 E MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc7 A OG1 THR 450 A THR 448 1_555 E MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.813 ? metalc ? metalc8 A OE2 GLU 454 A GLU 452 1_555 E MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? metalc ? metalc9 F O HOH . A HOH 549 1_555 E MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? metalc ? metalc10 F O HOH . A HOH 550 1_555 E MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc11 F O HOH . A HOH 552 1_555 C MG MG . A MG 852 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc12 F O HOH . A HOH 553 1_555 D MG MG . A MG 853 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc13 F O HOH . A HOH 554 1_555 E MG MG . A MG 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc14 B O2B FPF . A FPF 700 1_555 C MG MG . A MG 852 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? metalc ? metalc15 B O3A FPF . A FPF 700 1_555 D MG MG . A MG 853 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? # _chem_comp.formula 'C15 H27 F O7 P2' _chem_comp.formula_weight 400.317 _chem_comp.id FPF _chem_comp.mon_nstd_flag . _chem_comp.name '(2Z,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 O1 C1 FPF sing 83 n n C1 C2 FPF sing 84 n n C1 H1 FPF sing 85 n n C1 H1A FPF sing 86 n n P1 O1 FPF sing 87 n n C3 C2 FPF doub 88 z n C2 F FPF sing 89 n n C4 C3 FPF sing 90 n n C3 C5 FPF sing 91 n n C4 H4 FPF sing 92 n n C4 H4A FPF sing 93 n n C4 H4B FPF sing 94 n n C6 C5 FPF sing 95 n n C5 H5 FPF sing 96 n n C5 H5A FPF sing 97 n n C7 C6 FPF sing 98 n n C6 H6 FPF sing 99 n n C6 H6A FPF sing 100 n n C8 C7 FPF doub 101 e n C7 H7 FPF sing 102 n n C9 C8 FPF sing 103 n n C8 C10 FPF sing 104 n n C10 H10 FPF sing 105 n n C10 H10A FPF sing 106 n n C10 H10B FPF sing 107 n n C11 C9 FPF sing 108 n n C9 H9 FPF sing 109 n n C9 H9A FPF sing 110 n n C11 C12 FPF sing 111 n n C11 H11 FPF sing 112 n n C11 H11A FPF sing 113 n n C13 C12 FPF doub 114 n n C12 H12 FPF sing 115 n n C15 C13 FPF sing 116 n n C13 C14 FPF sing 117 n n C14 H14 FPF sing 118 n n C14 H14A FPF sing 119 n n C14 H14B FPF sing 120 n n C15 H15 FPF sing 121 n n C15 H15A FPF sing 122 n n C15 H15B FPF sing 123 n n O1A P1 FPF doub 124 n n O2A P1 FPF sing 125 n n P1 O3A FPF sing 126 n n O2A HO2A FPF sing 127 n n P2 O3A FPF sing 128 n n O3B P2 FPF doub 129 n n P2 O1B FPF sing 130 n n P2 O2B FPF sing 131 n n O1B HO1B FPF sing 132 n n O2B HO2B FPF sing 133 n n # _atom_sites.entry_id 3LZ9 _atom_sites.fract_transf_matrix[1][1] 0.007916 _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] 0.007916 _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] 0.008203 _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 FPF A 1 700 700 FPF FPF . C 3 MG A 1 852 852 MG MG . D 3 MG A 1 853 853 MG MG . E 3 MG A 1 854 854 MG MG . F 4 HOH A 1 549 549 HOH HOH . F 4 HOH A 2 550 550 HOH HOH . F 4 HOH A 3 551 551 HOH HOH . F 4 HOH A 4 552 552 HOH HOH . F 4 HOH A 5 553 553 HOH HOH . F 4 HOH A 6 554 554 HOH HOH . F 4 HOH A 7 555 555 HOH HOH . F 4 HOH A 8 556 556 HOH HOH . F 4 HOH A 9 557 557 HOH HOH . F 4 HOH A 10 558 558 HOH HOH . F 4 HOH A 11 559 559 HOH HOH . F 4 HOH A 12 562 562 HOH HOH . F 4 HOH A 13 563 563 HOH HOH . F 4 HOH A 14 564 564 HOH HOH . F 4 HOH A 15 565 565 HOH HOH . F 4 HOH A 16 566 566 HOH HOH . F 4 HOH A 17 567 567 HOH HOH . F 4 HOH A 18 568 568 HOH HOH . F 4 HOH A 19 569 569 HOH HOH . F 4 HOH A 20 570 570 HOH HOH . F 4 HOH A 21 571 571 HOH HOH . F 4 HOH A 22 572 572 HOH HOH . F 4 HOH A 23 573 573 HOH HOH . F 4 HOH A 24 574 574 HOH HOH . F 4 HOH A 25 575 575 HOH HOH . F 4 HOH A 26 576 576 HOH HOH . F 4 HOH A 27 577 577 HOH HOH . F 4 HOH A 28 578 578 HOH HOH . F 4 HOH A 29 579 579 HOH HOH . F 4 HOH A 30 580 580 HOH HOH . F 4 HOH A 31 581 581 HOH HOH . F 4 HOH A 32 582 582 HOH HOH . F 4 HOH A 33 583 583 HOH HOH . F 4 HOH A 34 584 584 HOH HOH . F 4 HOH A 35 585 585 HOH HOH . F 4 HOH A 36 586 586 HOH HOH . F 4 HOH A 37 587 587 HOH HOH . F 4 HOH A 38 588 588 HOH HOH . F 4 HOH A 39 589 589 HOH HOH . F 4 HOH A 40 590 590 HOH HOH . F 4 HOH A 41 591 591 HOH HOH . F 4 HOH A 42 592 592 HOH HOH . F 4 HOH A 43 593 593 HOH HOH . F 4 HOH A 44 594 594 HOH HOH . F 4 HOH A 45 595 595 HOH HOH . F 4 HOH A 46 596 596 HOH HOH . F 4 HOH A 47 597 597 HOH HOH . F 4 HOH A 48 598 598 HOH HOH . F 4 HOH A 49 599 599 HOH HOH . F 4 HOH A 50 600 600 HOH HOH . F 4 HOH A 51 601 601 HOH HOH . F 4 HOH A 52 602 602 HOH HOH . F 4 HOH A 53 603 603 HOH HOH . F 4 HOH A 54 604 604 HOH HOH . F 4 HOH A 55 605 605 HOH HOH . F 4 HOH A 56 606 606 HOH HOH . F 4 HOH A 57 607 607 HOH HOH . F 4 HOH A 58 608 608 HOH HOH . F 4 HOH A 59 609 609 HOH HOH . F 4 HOH A 60 610 610 HOH HOH . F 4 HOH A 61 611 611 HOH HOH . F 4 HOH A 62 612 612 HOH HOH . F 4 HOH A 63 613 613 HOH HOH . F 4 HOH A 64 614 614 HOH HOH . F 4 HOH A 65 615 615 HOH HOH . F 4 HOH A 66 616 616 HOH HOH . F 4 HOH A 67 617 617 HOH HOH . F 4 HOH A 68 618 618 HOH HOH . F 4 HOH A 69 619 619 HOH HOH . F 4 HOH A 70 620 620 HOH HOH . F 4 HOH A 71 621 621 HOH HOH . F 4 HOH A 72 622 622 HOH HOH . F 4 HOH A 73 623 623 HOH HOH . F 4 HOH A 74 624 624 HOH HOH . F 4 HOH A 75 625 625 HOH HOH . F 4 HOH A 76 626 626 HOH HOH . F 4 HOH A 77 627 627 HOH HOH . F 4 HOH A 78 628 628 HOH HOH . F 4 HOH A 79 629 629 HOH HOH . F 4 HOH A 80 630 630 HOH HOH . F 4 HOH A 81 631 631 HOH HOH . F 4 HOH A 82 632 632 HOH HOH . F 4 HOH A 83 633 633 HOH HOH . F 4 HOH A 84 634 634 HOH HOH . F 4 HOH A 85 635 635 HOH HOH . F 4 HOH A 86 636 636 HOH HOH . F 4 HOH A 87 637 637 HOH HOH . F 4 HOH A 88 638 638 HOH HOH . F 4 HOH A 89 639 639 HOH HOH . F 4 HOH A 90 640 640 HOH HOH . F 4 HOH A 91 641 641 HOH HOH . F 4 HOH A 92 643 643 HOH HOH . F 4 HOH A 93 644 644 HOH HOH . F 4 HOH A 94 645 645 HOH HOH . F 4 HOH A 95 646 646 HOH HOH . F 4 HOH A 96 647 647 HOH HOH . F 4 HOH A 97 648 648 HOH HOH . F 4 HOH A 98 649 649 HOH HOH . F 4 HOH A 99 650 650 HOH HOH . F 4 HOH A 100 651 651 HOH HOH . F 4 HOH A 101 652 652 HOH HOH . F 4 HOH A 102 653 653 HOH HOH . F 4 HOH A 103 654 654 HOH HOH . F 4 HOH A 104 655 655 HOH HOH . F 4 HOH A 105 656 656 HOH HOH . F 4 HOH A 106 657 657 HOH HOH . F 4 HOH A 107 658 658 HOH HOH . F 4 HOH A 108 659 659 HOH HOH . F 4 HOH A 109 660 660 HOH HOH . F 4 HOH A 110 661 661 HOH HOH . F 4 HOH A 111 662 662 HOH HOH . F 4 HOH A 112 663 663 HOH HOH . F 4 HOH A 113 664 664 HOH HOH . F 4 HOH A 114 665 665 HOH HOH . F 4 HOH A 115 666 666 HOH HOH . F 4 HOH A 116 667 667 HOH HOH . F 4 HOH A 117 668 668 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 FPF . . . B 2 109.635 43.528 49.102 1 102.18 ? C1 FPF 700 A 1 HETATM 2 O O1 FPF . . . B 2 109.704 42.34 49.883 1 99.98 ? O1 FPF 700 A 1 HETATM 3 C C2 FPF . . . B 2 110.326 43.385 47.749 1 102.5 ? C2 FPF 700 A 1 HETATM 4 F F FPF . . . B 2 111.412 44.133 47.667 1 102.47 ? F FPF 700 A 1 HETATM 5 C C3 FPF . . . B 2 109.905 42.594 46.728 1 102.51 ? C3 FPF 700 A 1 HETATM 6 C C4 FPF . . . B 2 108.654 41.729 46.813 1 103.11 ? C4 FPF 700 A 1 HETATM 7 C C5 FPF . . . B 2 110.599 42.463 45.371 1 102.17 ? C5 FPF 700 A 1 HETATM 8 C C6 FPF . . . B 2 112.111 42.162 45.287 1 101.08 ? C6 FPF 700 A 1 HETATM 9 C C7 FPF . . . B 2 112.488 40.983 46.141 1 100.07 ? C7 FPF 700 A 1 HETATM 10 C C8 FPF . . . B 2 113.27 39.944 45.832 1 99.98 ? C8 FPF 700 A 1 HETATM 11 C C10 FPF . . . B 2 113.96 39.75 44.5 1 99.55 ? C10 FPF 700 A 1 HETATM 12 C C9 FPF . . . B 2 113.541 38.832 46.809 1 100.63 ? C9 FPF 700 A 1 HETATM 13 C C11 FPF . . . B 2 112.399 37.836 47.082 1 101.91 ? C11 FPF 700 A 1 HETATM 14 C C12 FPF . . . B 2 111.738 38.115 48.412 1 101.55 ? C12 FPF 700 A 1 HETATM 15 C C13 FPF . . . B 2 110.423 38.246 48.671 1 101.53 ? C13 FPF 700 A 1 HETATM 16 C C14 FPF . . . B 2 109.955 38.524 50.067 1 101.8 ? C14 FPF 700 A 1 HETATM 17 C C15 FPF . . . B 2 109.306 38.136 47.659 1 101.34 ? C15 FPF 700 A 1 HETATM 18 P P1 FPF . . . B 2 109.011 42.295 51.331 1 99.43 ? P1 FPF 700 A 1 HETATM 19 O O1A FPF . . . B 2 109.632 43.518 52.387 1 99.54 ? O1A FPF 700 A 1 HETATM 20 O O2A FPF . . . B 2 109.196 40.86 51.989 1 99.41 ? O2A FPF 700 A 1 HETATM 21 O O3A FPF . . . B 2 107.444 42.453 51.013 1 96.83 ? O3A FPF 700 A 1 HETATM 22 P P2 FPF . . . B 2 106.383 41.305 50.693 1 94.15 ? P2 FPF 700 A 1 HETATM 23 O O1B FPF . . . B 2 105.852 40.779 52.097 1 93.77 ? O1B FPF 700 A 1 HETATM 24 O O2B FPF . . . B 2 105.143 42.064 50.062 1 93.95 ? O2B FPF 700 A 1 HETATM 25 O O3B FPF . . . B 2 106.955 40.018 49.688 1 94.89 ? O3B FPF 700 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 25 #