data_3RYH # _model_server_result.job_id VmkwQG_Y4pMRBLabIjbyuQ _model_server_result.datetime_utc '2024-11-24 22:34:42' _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 3ryh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":601}' # _entry.id 3RYH # _exptl.entry_id 3RYH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 5 _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 3RYH _cell.length_a 65.27 _cell.length_b 128.21 _cell.length_c 250.43 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RYH _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 G N N ? 5 L N N ? 5 O N N ? 5 S 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 F O1G GTP . A GTP 600 1_555 G MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc2 F O1B GTP . A GTP 600 1_555 G MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc3 G MG MG . A MG 601 1_555 V O HOH . A HOH 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc4 G MG MG . A MG 601 1_555 V O HOH . A HOH 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? metalc ? metalc5 G MG MG . A MG 601 1_555 V O HOH . A HOH 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc6 G MG MG . A MG 601 1_555 V O HOH . A HOH 613 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc7 K O1B G2P . B G2P 600 1_555 L MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? metalc ? metalc8 K O1G G2P . B G2P 600 1_555 L MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? metalc ? metalc9 L MG MG . B MG 601 1_555 W O HOH . B HOH 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? metalc ? metalc10 L MG MG . B MG 601 1_555 W O HOH . B HOH 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? metalc ? metalc11 N O1B GTP . C GTP 600 1_555 O MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc12 N O1G GTP . C GTP 600 1_555 O MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc13 O MG MG . C MG 601 1_555 X O HOH . C HOH 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc14 O MG MG . C MG 601 1_555 X O HOH . C HOH 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc15 O MG MG . C MG 601 1_555 X O HOH . C HOH 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc16 O MG MG . C MG 601 1_555 X O HOH . C HOH 613 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? metalc ? metalc17 R O1B G2P . D G2P 600 1_555 S MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc18 R O1G G2P . D G2P 600 1_555 S MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? metalc ? metalc19 S MG MG . D MG 601 1_555 Y O HOH . D HOH 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc20 S MG MG . D MG 601 1_555 Y O HOH . D HOH 613 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc21 S MG MG . D MG 601 1_555 Y O HOH . D HOH 614 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc22 S MG MG . D MG 601 1_555 Y O HOH . D HOH 615 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? # _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 3RYH _atom_sites.fract_transf_matrix[1][1] 0.015321 _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] 0.0078 _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] 0.003993 _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 F 4 GTP A 1 600 600 GTP GTP . G 5 MG A 1 601 601 MG MG . H 6 SO4 A 1 452 3 SO4 SO4 . I 6 SO4 A 1 453 6 SO4 SO4 . J 6 SO4 A 1 454 8 SO4 SO4 . K 7 G2P B 1 600 600 G2P G2P . L 5 MG B 1 601 601 MG MG . M 6 SO4 B 1 456 2 SO4 SO4 . N 4 GTP C 1 600 600 GTP GTP . O 5 MG C 1 601 601 MG MG . P 6 SO4 C 1 452 5 SO4 SO4 . Q 6 SO4 C 1 453 7 SO4 SO4 . R 7 G2P D 1 600 600 G2P G2P . S 5 MG D 1 601 601 MG MG . T 6 SO4 D 1 456 1 SO4 SO4 . U 6 SO4 D 1 457 4 SO4 SO4 . V 8 HOH A 1 610 610 HOH HOH . V 8 HOH A 2 611 611 HOH HOH . V 8 HOH A 3 612 612 HOH HOH . V 8 HOH A 4 613 613 HOH HOH . V 8 HOH A 5 614 614 HOH HOH . V 8 HOH A 6 615 5 HOH HOH . V 8 HOH A 7 616 9 HOH HOH . V 8 HOH A 8 617 18 HOH HOH . V 8 HOH A 9 618 20 HOH HOH . V 8 HOH A 10 619 22 HOH HOH . V 8 HOH A 11 620 24 HOH HOH . V 8 HOH A 12 621 34 HOH HOH . V 8 HOH A 13 622 37 HOH HOH . V 8 HOH A 14 623 45 HOH HOH . V 8 HOH A 15 624 46 HOH HOH . V 8 HOH A 16 625 49 HOH HOH . V 8 HOH A 17 626 51 HOH HOH . V 8 HOH A 18 627 52 HOH HOH . V 8 HOH A 19 628 55 HOH HOH . V 8 HOH A 20 629 63 HOH HOH . V 8 HOH A 21 630 69 HOH HOH . V 8 HOH A 22 631 75 HOH HOH . V 8 HOH A 23 632 78 HOH HOH . V 8 HOH A 24 633 79 HOH HOH . V 8 HOH A 25 634 80 HOH HOH . V 8 HOH A 26 635 81 HOH HOH . V 8 HOH A 27 636 83 HOH HOH . V 8 HOH A 28 637 84 HOH HOH . V 8 HOH A 29 638 88 HOH HOH . V 8 HOH A 30 639 89 HOH HOH . V 8 HOH A 31 640 104 HOH HOH . V 8 HOH A 32 641 107 HOH HOH . V 8 HOH A 33 642 110 HOH HOH . V 8 HOH A 34 643 112 HOH HOH . V 8 HOH A 35 644 113 HOH HOH . V 8 HOH A 36 645 114 HOH HOH . V 8 HOH A 37 646 117 HOH HOH . V 8 HOH A 38 647 120 HOH HOH . V 8 HOH A 39 648 125 HOH HOH . V 8 HOH A 40 649 126 HOH HOH . V 8 HOH A 41 650 129 HOH HOH . V 8 HOH A 42 651 136 HOH HOH . V 8 HOH A 43 652 140 HOH HOH . V 8 HOH A 44 653 141 HOH HOH . V 8 HOH A 45 654 147 HOH HOH . V 8 HOH A 46 655 150 HOH HOH . V 8 HOH A 47 656 158 HOH HOH . V 8 HOH A 48 657 160 HOH HOH . V 8 HOH A 49 658 161 HOH HOH . V 8 HOH A 50 659 163 HOH HOH . V 8 HOH A 51 660 167 HOH HOH . V 8 HOH A 52 661 168 HOH HOH . V 8 HOH A 53 662 171 HOH HOH . W 8 HOH B 1 610 610 HOH HOH . W 8 HOH B 2 611 611 HOH HOH . W 8 HOH B 3 612 612 HOH HOH . W 8 HOH B 4 613 4 HOH HOH . W 8 HOH B 5 614 14 HOH HOH . W 8 HOH B 6 615 16 HOH HOH . W 8 HOH B 7 616 17 HOH HOH . W 8 HOH B 8 617 25 HOH HOH . W 8 HOH B 9 618 29 HOH HOH . W 8 HOH B 10 619 30 HOH HOH . W 8 HOH B 11 620 31 HOH HOH . W 8 HOH B 12 621 33 HOH HOH . W 8 HOH B 13 622 36 HOH HOH . W 8 HOH B 14 623 38 HOH HOH . W 8 HOH B 15 624 44 HOH HOH . W 8 HOH B 16 625 53 HOH HOH . W 8 HOH B 17 626 56 HOH HOH . W 8 HOH B 18 627 58 HOH HOH . W 8 HOH B 19 628 59 HOH HOH . W 8 HOH B 20 629 60 HOH HOH . W 8 HOH B 21 630 65 HOH HOH . W 8 HOH B 22 631 68 HOH HOH . W 8 HOH B 23 632 70 HOH HOH . W 8 HOH B 24 633 71 HOH HOH . W 8 HOH B 25 634 72 HOH HOH . W 8 HOH B 26 635 82 HOH HOH . W 8 HOH B 27 636 91 HOH HOH . W 8 HOH B 28 637 93 HOH HOH . W 8 HOH B 29 638 95 HOH HOH . W 8 HOH B 30 639 96 HOH HOH . W 8 HOH B 31 640 98 HOH HOH . W 8 HOH B 32 641 102 HOH HOH . W 8 HOH B 33 642 111 HOH HOH . W 8 HOH B 34 643 118 HOH HOH . W 8 HOH B 35 644 124 HOH HOH . W 8 HOH B 36 645 128 HOH HOH . W 8 HOH B 37 646 132 HOH HOH . W 8 HOH B 38 647 134 HOH HOH . W 8 HOH B 39 648 135 HOH HOH . W 8 HOH B 40 649 138 HOH HOH . W 8 HOH B 41 650 142 HOH HOH . W 8 HOH B 42 651 143 HOH HOH . W 8 HOH B 43 652 144 HOH HOH . W 8 HOH B 44 653 151 HOH HOH . W 8 HOH B 45 654 154 HOH HOH . W 8 HOH B 46 655 159 HOH HOH . W 8 HOH B 47 656 169 HOH HOH . W 8 HOH B 48 657 173 HOH HOH . X 8 HOH C 1 610 610 HOH HOH . X 8 HOH C 2 611 611 HOH HOH . X 8 HOH C 3 612 612 HOH HOH . X 8 HOH C 4 613 613 HOH HOH . X 8 HOH C 5 614 614 HOH HOH . X 8 HOH C 6 615 2 HOH HOH . X 8 HOH C 7 616 3 HOH HOH . X 8 HOH C 8 617 6 HOH HOH . X 8 HOH C 9 618 8 HOH HOH . X 8 HOH C 10 619 19 HOH HOH . X 8 HOH C 11 620 21 HOH HOH . X 8 HOH C 12 621 23 HOH HOH . X 8 HOH C 13 622 26 HOH HOH . X 8 HOH C 14 623 27 HOH HOH . X 8 HOH C 15 624 35 HOH HOH . X 8 HOH C 16 625 39 HOH HOH . X 8 HOH C 17 626 40 HOH HOH . X 8 HOH C 18 627 42 HOH HOH . X 8 HOH C 19 628 47 HOH HOH . X 8 HOH C 20 629 50 HOH HOH . X 8 HOH C 21 630 61 HOH HOH . X 8 HOH C 22 631 62 HOH HOH . X 8 HOH C 23 632 64 HOH HOH . X 8 HOH C 24 633 67 HOH HOH . X 8 HOH C 25 634 74 HOH HOH . X 8 HOH C 26 635 85 HOH HOH . X 8 HOH C 27 636 86 HOH HOH . X 8 HOH C 28 637 90 HOH HOH . X 8 HOH C 29 638 94 HOH HOH . X 8 HOH C 30 639 97 HOH HOH . X 8 HOH C 31 640 103 HOH HOH . X 8 HOH C 32 641 106 HOH HOH . X 8 HOH C 33 642 109 HOH HOH . X 8 HOH C 34 643 115 HOH HOH . X 8 HOH C 35 644 119 HOH HOH . X 8 HOH C 36 645 123 HOH HOH . X 8 HOH C 37 646 137 HOH HOH . X 8 HOH C 38 647 139 HOH HOH . X 8 HOH C 39 648 145 HOH HOH . X 8 HOH C 40 649 146 HOH HOH . X 8 HOH C 41 650 152 HOH HOH . X 8 HOH C 42 651 153 HOH HOH . X 8 HOH C 43 652 155 HOH HOH . X 8 HOH C 44 653 162 HOH HOH . X 8 HOH C 45 654 164 HOH HOH . X 8 HOH C 46 655 165 HOH HOH . X 8 HOH C 47 656 172 HOH HOH . Y 8 HOH D 1 610 610 HOH HOH . Y 8 HOH D 2 611 611 HOH HOH . Y 8 HOH D 3 612 612 HOH HOH . Y 8 HOH D 4 613 613 HOH HOH . Y 8 HOH D 5 614 614 HOH HOH . Y 8 HOH D 6 615 615 HOH HOH . Y 8 HOH D 7 616 1 HOH HOH . Y 8 HOH D 8 617 7 HOH HOH . Y 8 HOH D 9 618 10 HOH HOH . Y 8 HOH D 10 619 11 HOH HOH . Y 8 HOH D 11 620 12 HOH HOH . Y 8 HOH D 12 621 13 HOH HOH . Y 8 HOH D 13 622 15 HOH HOH . Y 8 HOH D 14 623 28 HOH HOH . Y 8 HOH D 15 624 32 HOH HOH . Y 8 HOH D 16 625 43 HOH HOH . Y 8 HOH D 17 626 54 HOH HOH . Y 8 HOH D 18 627 57 HOH HOH . Y 8 HOH D 19 628 66 HOH HOH . Y 8 HOH D 20 629 76 HOH HOH . Y 8 HOH D 21 630 77 HOH HOH . Y 8 HOH D 22 631 87 HOH HOH . Y 8 HOH D 23 632 92 HOH HOH . Y 8 HOH D 24 633 99 HOH HOH . Y 8 HOH D 25 634 100 HOH HOH . Y 8 HOH D 26 635 101 HOH HOH . Y 8 HOH D 27 636 108 HOH HOH . Y 8 HOH D 28 637 116 HOH HOH . Y 8 HOH D 29 638 121 HOH HOH . Y 8 HOH D 30 639 122 HOH HOH . Y 8 HOH D 31 640 127 HOH HOH . Y 8 HOH D 32 641 130 HOH HOH . Y 8 HOH D 33 642 131 HOH HOH . Y 8 HOH D 34 643 133 HOH HOH . Y 8 HOH D 35 644 148 HOH HOH . Y 8 HOH D 36 645 149 HOH HOH . Y 8 HOH D 37 646 156 HOH HOH . Y 8 HOH D 38 647 157 HOH HOH . Y 8 HOH D 39 648 166 HOH HOH . Y 8 HOH D 40 649 170 HOH HOH . Z 8 HOH E 1 146 41 HOH HOH . Z 8 HOH E 2 147 48 HOH HOH . Z 8 HOH E 3 148 73 HOH HOH . Z 8 HOH E 4 149 105 HOH HOH . # _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 S _atom_site.label_entity_id 5 _atom_site.Cartn_x -45.45 _atom_site.Cartn_y 159.405 _atom_site.Cartn_z 114.746 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 75.24 _atom_site.pdbx_formal_charge 2 _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 601 _atom_site.auth_asym_id D _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 44 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #