data_1XDP # _model_server_result.job_id Yd08UIRTZ-i4G99UKKarjA _model_server_result.datetime_utc '2025-03-06 03:33:51' _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 1xdp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":703}' # _entry.id 1XDP # _exptl.entry_id 1XDP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM ION' _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 1XDP _cell.length_a 152 _cell.length_b 152 _cell.length_c 150 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XDP _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 21 2' # 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 tetrameric 4 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,C,D,E,F,G,H,I,J 1 1 A,B,C,D,E,F,G,H,I,J 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 0 -152 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N ? 2 F N N ? 2 G N 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 NH2 ARG 374 A ARG 375 1_555 C MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? metalc ? metalc2 A NH2 ARG 374 A ARG 375 1_555 D MG MG . A MG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.601 ? metalc ? metalc3 A NH1 ARG 404 A ARG 405 1_555 C MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.904 ? metalc ? metalc4 A NE ARG 404 A ARG 405 1_555 D MG MG . A MG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? metalc ? metalc5 A NH1 ARG 404 A ARG 405 1_555 D MG MG . A MG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.634 ? metalc ? metalc6 E O2A ATP . A ATP 701 1_555 C MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.79 ? metalc ? metalc7 E O1G ATP . A ATP 701 1_555 D MG MG . A MG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc8 C MG MG . A MG 702 1_555 D MG MG . A MG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.118 ? metalc ? metalc9 B NH2 ARG 52 B ARG 53 1_555 G MG MG . B MG 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc10 B NH1 ARG 404 B ARG 405 1_555 F MG MG . B MG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.116 ? metalc ? metalc11 H O1G ATP . B ATP 704 1_555 F MG MG . B MG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.931 ? metalc ? metalc12 H O2A ATP . B ATP 704 1_555 G MG MG . B MG 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc13 F MG MG . B MG 705 1_555 J O HOH . B HOH 743 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.077 ? metalc ? metalc14 G MG MG . B MG 706 1_555 J O HOH . B HOH 743 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.401 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1XDP _atom_sites.fract_transf_matrix[1][1] 0.006579 _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] 0.006579 _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] 0.006667 _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 C 2 MG A 1 702 702 MG MG . D 2 MG A 1 703 703 MG MG . E 3 ATP A 1 701 701 ATP ATP . F 2 MG B 1 705 705 MG MG . G 2 MG B 1 706 706 MG MG . H 3 ATP B 1 704 704 ATP ATP . I 4 HOH A 1 704 2 HOH TIP . I 4 HOH A 2 705 3 HOH TIP . I 4 HOH A 3 706 5 HOH TIP . I 4 HOH A 4 707 9 HOH TIP . I 4 HOH A 5 708 10 HOH TIP . I 4 HOH A 6 709 11 HOH TIP . I 4 HOH A 7 710 13 HOH TIP . I 4 HOH A 8 711 14 HOH TIP . I 4 HOH A 9 712 16 HOH TIP . I 4 HOH A 10 713 17 HOH TIP . I 4 HOH A 11 714 19 HOH TIP . I 4 HOH A 12 715 21 HOH TIP . I 4 HOH A 13 716 22 HOH TIP . I 4 HOH A 14 717 27 HOH TIP . I 4 HOH A 15 718 28 HOH TIP . I 4 HOH A 16 719 30 HOH TIP . I 4 HOH A 17 720 31 HOH TIP . I 4 HOH A 18 721 32 HOH TIP . I 4 HOH A 19 722 34 HOH TIP . I 4 HOH A 20 723 36 HOH TIP . I 4 HOH A 21 724 37 HOH TIP . I 4 HOH A 22 725 38 HOH TIP . I 4 HOH A 23 726 40 HOH TIP . I 4 HOH A 24 727 41 HOH TIP . I 4 HOH A 25 728 42 HOH TIP . I 4 HOH A 26 729 45 HOH TIP . I 4 HOH A 27 730 46 HOH TIP . I 4 HOH A 28 731 48 HOH TIP . I 4 HOH A 29 732 50 HOH TIP . I 4 HOH A 30 733 51 HOH TIP . I 4 HOH A 31 734 55 HOH TIP . I 4 HOH A 32 735 56 HOH TIP . I 4 HOH A 33 736 60 HOH TIP . I 4 HOH A 34 737 61 HOH TIP . I 4 HOH A 35 738 62 HOH TIP . I 4 HOH A 36 739 64 HOH TIP . I 4 HOH A 37 740 65 HOH TIP . I 4 HOH A 38 741 66 HOH TIP . I 4 HOH A 39 742 67 HOH TIP . I 4 HOH A 40 743 68 HOH TIP . I 4 HOH A 41 744 71 HOH TIP . I 4 HOH A 42 745 72 HOH TIP . I 4 HOH A 43 746 75 HOH TIP . I 4 HOH A 44 747 76 HOH TIP . I 4 HOH A 45 748 78 HOH TIP . I 4 HOH A 46 749 79 HOH TIP . I 4 HOH A 47 750 80 HOH TIP . I 4 HOH A 48 751 82 HOH TIP . I 4 HOH A 49 752 84 HOH TIP . I 4 HOH A 50 753 85 HOH TIP . I 4 HOH A 51 754 87 HOH TIP . I 4 HOH A 52 755 88 HOH TIP . I 4 HOH A 53 756 89 HOH TIP . I 4 HOH A 54 757 90 HOH TIP . I 4 HOH A 55 758 91 HOH TIP . I 4 HOH A 56 759 92 HOH TIP . I 4 HOH A 57 760 96 HOH TIP . I 4 HOH A 58 761 97 HOH TIP . I 4 HOH A 59 762 98 HOH TIP . I 4 HOH A 60 763 103 HOH TIP . I 4 HOH A 61 764 105 HOH TIP . I 4 HOH A 62 765 106 HOH TIP . I 4 HOH A 63 766 109 HOH TIP . I 4 HOH A 64 767 113 HOH TIP . I 4 HOH A 65 768 114 HOH TIP . I 4 HOH A 66 769 115 HOH TIP . I 4 HOH A 67 770 116 HOH TIP . I 4 HOH A 68 771 117 HOH TIP . I 4 HOH A 69 772 118 HOH TIP . I 4 HOH A 70 773 122 HOH TIP . I 4 HOH A 71 774 123 HOH TIP . I 4 HOH A 72 775 125 HOH TIP . I 4 HOH A 73 776 126 HOH TIP . I 4 HOH A 74 777 127 HOH TIP . I 4 HOH A 75 778 129 HOH TIP . I 4 HOH A 76 779 130 HOH TIP . J 4 HOH B 1 707 1 HOH TIP . J 4 HOH B 2 708 4 HOH TIP . J 4 HOH B 3 709 6 HOH TIP . J 4 HOH B 4 710 7 HOH TIP . J 4 HOH B 5 711 8 HOH TIP . J 4 HOH B 6 712 12 HOH TIP . J 4 HOH B 7 713 15 HOH TIP . J 4 HOH B 8 714 18 HOH TIP . J 4 HOH B 9 715 20 HOH TIP . J 4 HOH B 10 716 23 HOH TIP . J 4 HOH B 11 717 24 HOH TIP . J 4 HOH B 12 718 25 HOH TIP . J 4 HOH B 13 719 26 HOH TIP . J 4 HOH B 14 720 29 HOH TIP . J 4 HOH B 15 721 33 HOH TIP . J 4 HOH B 16 722 39 HOH TIP . J 4 HOH B 17 723 43 HOH TIP . J 4 HOH B 18 724 44 HOH TIP . J 4 HOH B 19 725 47 HOH TIP . J 4 HOH B 20 726 49 HOH TIP . J 4 HOH B 21 727 52 HOH TIP . J 4 HOH B 22 728 53 HOH TIP . J 4 HOH B 23 729 54 HOH TIP . J 4 HOH B 24 730 57 HOH TIP . J 4 HOH B 25 731 58 HOH TIP . J 4 HOH B 26 732 59 HOH TIP . J 4 HOH B 27 733 63 HOH TIP . J 4 HOH B 28 734 69 HOH TIP . J 4 HOH B 29 735 70 HOH TIP . J 4 HOH B 30 736 73 HOH TIP . J 4 HOH B 31 737 74 HOH TIP . J 4 HOH B 32 738 77 HOH TIP . J 4 HOH B 33 739 81 HOH TIP . J 4 HOH B 34 740 83 HOH TIP . J 4 HOH B 35 741 86 HOH TIP . J 4 HOH B 36 742 93 HOH TIP . J 4 HOH B 37 743 94 HOH TIP . J 4 HOH B 38 744 95 HOH TIP . J 4 HOH B 39 745 99 HOH TIP . J 4 HOH B 40 746 100 HOH TIP . J 4 HOH B 41 747 101 HOH TIP . J 4 HOH B 42 748 102 HOH TIP . J 4 HOH B 43 749 104 HOH TIP . J 4 HOH B 44 750 107 HOH TIP . J 4 HOH B 45 751 108 HOH TIP . J 4 HOH B 46 752 110 HOH TIP . J 4 HOH B 47 753 111 HOH TIP . J 4 HOH B 48 754 112 HOH TIP . J 4 HOH B 49 755 119 HOH TIP . J 4 HOH B 50 756 120 HOH TIP . J 4 HOH B 51 757 121 HOH TIP . J 4 HOH B 52 758 124 HOH TIP . J 4 HOH B 53 759 128 HOH TIP . J 4 HOH B 54 760 131 HOH TIP . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 2 _atom_site.Cartn_x -28.266 _atom_site.Cartn_y -82.058 _atom_site.Cartn_z 36.848 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 79.06 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 703 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #