data_5IK0 # _model_server_result.job_id -0E0DW1BbABtySsJMnzh0g _model_server_result.datetime_utc '2024-11-02 21:20:40' _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 5ik0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":604}' # _entry.id 5IK0 # _exptl.entry_id 5IK0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 382.326 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FARNESYL 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 5IK0 _cell.length_a 127.66 _cell.length_b 127.66 _cell.length_c 124.67 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5IK0 _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 OD1 ASP 303 A ASP 301 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc2 A OD2 ASP 303 A ASP 301 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.995 ? metalc ? metalc3 A OD2 ASP 303 A ASP 301 1_555 D MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? metalc ? metalc4 A OD2 ASP 307 A ASP 305 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.823 ? metalc ? metalc5 A OD2 ASP 307 A ASP 305 1_555 D MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.642 ? metalc ? metalc6 A OD2 ASP 446 A ASP 444 1_555 B MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.746 ? metalc ? metalc7 A OE2 GLU 454 A GLU 452 1_555 B MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.767 ? metalc ? metalc8 B MG MG . A MG 601 1_555 E O2A FPP . A FPP 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.749 ? metalc ? metalc9 B MG MG . A MG 601 1_555 E O3B FPP . A FPP 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc10 B MG MG . A MG 601 1_555 F O HOH . A HOH 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc11 B MG MG . A MG 601 1_555 F O HOH . A HOH 712 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc12 C MG MG . A MG 602 1_555 E O1A FPP . A FPP 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc13 C MG MG . A MG 602 1_555 E O1B FPP . A FPP 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.983 ? metalc ? metalc14 C MG MG . A MG 602 1_555 F O HOH . A HOH 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc15 C MG MG . A MG 602 1_555 F O HOH . A HOH 728 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc16 D MG MG . A MG 603 1_555 E O1A FPP . A FPP 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? # _chem_comp.formula 'C15 H28 O7 P2' _chem_comp.formula_weight 382.326 _chem_comp.id FPP _chem_comp.mon_nstd_flag . _chem_comp.name 'FARNESYL 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 FPP sing 83 n n C1 C2 FPP sing 84 n n C1 H11 FPP sing 85 n n C1 H12A FPP sing 86 n n O1 PA FPP sing 87 n n C2 C3 FPP doub 88 e n C2 H2 FPP sing 89 n n C3 C4 FPP sing 90 n n C3 C5 FPP sing 91 n n C4 H41 FPP sing 92 n n C4 H42 FPP sing 93 n n C4 H43 FPP sing 94 n n C5 C6 FPP sing 95 n n C5 H51 FPP sing 96 n n C5 H52 FPP sing 97 n n C6 C7 FPP sing 98 n n C6 H61 FPP sing 99 n n C6 H62 FPP sing 100 n n C7 C8 FPP doub 101 e n C7 H7 FPP sing 102 n n C8 C10 FPP sing 103 n n C8 C9 FPP sing 104 n n C10 H101 FPP sing 105 n n C10 H102 FPP sing 106 n n C10 H103 FPP sing 107 n n C9 C11 FPP sing 108 n n C9 H91 FPP sing 109 n n C9 H92 FPP sing 110 n n C11 C12 FPP sing 111 n n C11 H111 FPP sing 112 n n C11 H112 FPP sing 113 n n C12 C13 FPP doub 114 n n C12 H12 FPP sing 115 n n C13 C14 FPP sing 116 n n C13 C15 FPP sing 117 n n C14 H141 FPP sing 118 n n C14 H142 FPP sing 119 n n C14 H143 FPP sing 120 n n C15 H151 FPP sing 121 n n C15 H152 FPP sing 122 n n C15 H153 FPP sing 123 n n PA O1A FPP doub 124 n n PA O2A FPP sing 125 n n PA O3A FPP sing 126 n n O2A HOA2 FPP sing 127 n n O3A PB FPP sing 128 n n PB O1B FPP doub 129 n n PB O2B FPP sing 130 n n PB O3B FPP sing 131 n n O2B HOB2 FPP sing 132 n n O3B HOB3 FPP sing 133 n n # _atom_sites.entry_id 5IK0 _atom_sites.fract_transf_matrix[1][1] 0.007833 _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] 0.007833 _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] 0.008021 _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 1 601 1 MG MG . C 2 MG A 1 602 3 MG MG . D 2 MG A 1 603 2 MG MG . E 3 FPP A 1 604 549 FPP FPP . F 4 HOH A 1 701 111 HOH HOH . F 4 HOH A 2 702 10 HOH HOH . F 4 HOH A 3 703 88 HOH HOH . F 4 HOH A 4 704 40 HOH HOH . F 4 HOH A 5 705 81 HOH HOH . F 4 HOH A 6 706 90 HOH HOH . F 4 HOH A 7 707 63 HOH HOH . F 4 HOH A 8 708 99 HOH HOH . F 4 HOH A 9 709 92 HOH HOH . F 4 HOH A 10 710 107 HOH HOH . F 4 HOH A 11 711 54 HOH HOH . F 4 HOH A 12 712 110 HOH HOH . F 4 HOH A 13 713 39 HOH HOH . F 4 HOH A 14 714 43 HOH HOH . F 4 HOH A 15 715 16 HOH HOH . F 4 HOH A 16 716 86 HOH HOH . F 4 HOH A 17 717 109 HOH HOH . F 4 HOH A 18 718 19 HOH HOH . F 4 HOH A 19 719 45 HOH HOH . F 4 HOH A 20 720 31 HOH HOH . F 4 HOH A 21 721 52 HOH HOH . F 4 HOH A 22 722 46 HOH HOH . F 4 HOH A 23 723 36 HOH HOH . F 4 HOH A 24 724 67 HOH HOH . F 4 HOH A 25 725 61 HOH HOH . F 4 HOH A 26 726 66 HOH HOH . F 4 HOH A 27 727 22 HOH HOH . F 4 HOH A 28 728 83 HOH HOH . F 4 HOH A 29 729 13 HOH HOH . F 4 HOH A 30 730 59 HOH HOH . F 4 HOH A 31 731 8 HOH HOH . F 4 HOH A 32 732 14 HOH HOH . F 4 HOH A 33 733 55 HOH HOH . F 4 HOH A 34 734 30 HOH HOH . F 4 HOH A 35 735 15 HOH HOH . F 4 HOH A 36 736 6 HOH HOH . F 4 HOH A 37 737 4 HOH HOH . F 4 HOH A 38 738 38 HOH HOH . F 4 HOH A 39 739 5 HOH HOH . F 4 HOH A 40 740 64 HOH HOH . F 4 HOH A 41 741 34 HOH HOH . F 4 HOH A 42 742 7 HOH HOH . F 4 HOH A 43 743 3 HOH HOH . F 4 HOH A 44 744 35 HOH HOH . F 4 HOH A 45 745 29 HOH HOH . F 4 HOH A 46 746 105 HOH HOH . F 4 HOH A 47 747 23 HOH HOH . F 4 HOH A 48 748 24 HOH HOH . F 4 HOH A 49 749 62 HOH HOH . F 4 HOH A 50 750 58 HOH HOH . F 4 HOH A 51 751 42 HOH HOH . F 4 HOH A 52 752 106 HOH HOH . F 4 HOH A 53 753 85 HOH HOH . F 4 HOH A 54 754 96 HOH HOH . F 4 HOH A 55 755 51 HOH HOH . F 4 HOH A 56 756 71 HOH HOH . F 4 HOH A 57 757 104 HOH HOH . F 4 HOH A 58 758 32 HOH HOH . F 4 HOH A 59 759 12 HOH HOH . F 4 HOH A 60 760 25 HOH HOH . F 4 HOH A 61 761 95 HOH HOH . F 4 HOH A 62 762 72 HOH HOH . F 4 HOH A 63 763 44 HOH HOH . F 4 HOH A 64 764 65 HOH HOH . F 4 HOH A 65 765 69 HOH HOH . F 4 HOH A 66 766 47 HOH HOH . F 4 HOH A 67 767 9 HOH HOH . F 4 HOH A 68 768 70 HOH HOH . F 4 HOH A 69 769 76 HOH HOH . F 4 HOH A 70 770 60 HOH HOH . F 4 HOH A 71 771 82 HOH HOH . F 4 HOH A 72 772 1 HOH HOH . F 4 HOH A 73 773 53 HOH HOH . F 4 HOH A 74 774 56 HOH HOH . F 4 HOH A 75 775 68 HOH HOH . F 4 HOH A 76 776 11 HOH HOH . F 4 HOH A 77 777 94 HOH HOH . F 4 HOH A 78 778 100 HOH HOH . F 4 HOH A 79 779 73 HOH HOH . F 4 HOH A 80 780 103 HOH HOH . F 4 HOH A 81 781 2 HOH HOH . F 4 HOH A 82 782 57 HOH HOH . F 4 HOH A 83 783 93 HOH HOH . F 4 HOH A 84 784 98 HOH HOH . F 4 HOH A 85 785 17 HOH HOH . F 4 HOH A 86 786 21 HOH HOH . F 4 HOH A 87 787 26 HOH HOH . F 4 HOH A 88 788 27 HOH HOH . F 4 HOH A 89 789 48 HOH HOH . F 4 HOH A 90 790 80 HOH HOH . F 4 HOH A 91 791 89 HOH HOH . F 4 HOH A 92 792 101 HOH HOH . F 4 HOH A 93 793 79 HOH HOH . F 4 HOH A 94 794 33 HOH HOH . F 4 HOH A 95 795 37 HOH HOH . F 4 HOH A 96 796 87 HOH HOH . F 4 HOH A 97 797 102 HOH HOH . F 4 HOH A 98 798 75 HOH HOH . F 4 HOH A 99 799 108 HOH HOH . F 4 HOH A 100 800 91 HOH HOH . F 4 HOH A 101 801 78 HOH HOH . F 4 HOH A 102 802 50 HOH HOH . F 4 HOH A 103 803 97 HOH HOH . F 4 HOH A 104 804 77 HOH HOH . F 4 HOH A 105 805 41 HOH HOH . F 4 HOH A 106 806 84 HOH HOH . F 4 HOH A 107 807 49 HOH HOH . F 4 HOH A 108 808 20 HOH HOH . F 4 HOH A 109 809 18 HOH HOH . F 4 HOH A 110 810 74 HOH HOH . F 4 HOH A 111 811 28 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 FPP . . . E 3 22.383 80.759 11.177 1 112.35 ? C1 FPP 604 A 1 HETATM 2 O O1 FPP . . . E 3 21.649 81.57 10.252 1 115.94 ? O1 FPP 604 A 1 HETATM 3 C C2 FPP . . . E 3 21.377 80.028 12.03 1 110.04 ? C2 FPP 604 A 1 HETATM 4 C C3 FPP . . . E 3 21.383 80.104 13.371 1 106.38 ? C3 FPP 604 A 1 HETATM 5 C C4 FPP . . . E 3 22.404 80.951 14.08 1 104.38 ? C4 FPP 604 A 1 HETATM 6 C C5 FPP . . . E 3 20.311 79.342 14.124 1 104 ? C5 FPP 604 A 1 HETATM 7 C C6 FPP . . . E 3 20.761 78.782 15.47 1 99.31 ? C6 FPP 604 A 1 HETATM 8 C C7 FPP . . . E 3 21.915 77.829 15.29 1 93.92 ? C7 FPP 604 A 1 HETATM 9 C C8 FPP . . . E 3 22.839 77.743 16.254 1 90.4 ? C8 FPP 604 A 1 HETATM 10 C C10 FPP . . . E 3 22.692 78.578 17.49 1 88.05 ? C10 FPP 604 A 1 HETATM 11 C C9 FPP . . . E 3 24.02 76.815 16.089 1 84.82 ? C9 FPP 604 A 1 HETATM 12 C C11 FPP . . . E 3 24.757 77.32 14.853 1 84.97 ? C11 FPP 604 A 1 HETATM 13 C C12 FPP . . . E 3 25.064 78.803 14.941 1 82.09 ? C12 FPP 604 A 1 HETATM 14 C C13 FPP . . . E 3 25.702 79.414 13.929 1 72.44 ? C13 FPP 604 A 1 HETATM 15 C C14 FPP . . . E 3 26.025 80.881 13.959 1 64.51 ? C14 FPP 604 A 1 HETATM 16 C C15 FPP . . . E 3 26.091 78.597 12.742 1 69.81 ? C15 FPP 604 A 1 HETATM 17 P PA FPP . . . E 3 21.936 83.161 10.223 1 127.3 ? PA FPP 604 A 1 HETATM 18 O O1A FPP . . . E 3 20.706 83.918 10.682 1 123.97 ? O1A FPP 604 A 1 HETATM 19 O O2A FPP . . . E 3 22.55 83.511 8.889 1 125.52 ? O2A FPP 604 A 1 HETATM 20 O O3A FPP . . . E 3 23.061 83.217 11.382 1 202.38 ? O3A FPP 604 A 1 HETATM 21 P PB FPP . . . E 3 24.104 84.432 11.567 1 129.83 ? PB FPP 604 A 1 HETATM 22 O O1B FPP . . . E 3 23.215 85.635 11.784 1 132.11 ? O1B FPP 604 A 1 HETATM 23 O O2B FPP . . . E 3 24.915 84.013 12.773 1 126.78 ? O2B FPP 604 A 1 HETATM 24 O O3B FPP . . . E 3 24.885 84.457 10.272 1 127.83 ? O3B FPP 604 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 24 #