data_5YGI
#
_model_server_result.job_id            GGc72pzbYy2aF44yqmKRqw 
_model_server_result.datetime_utc      '2024-11-21 18:12:25' 
_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          5ygi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":503}' 
#
_entry.id    5YGI 
#
_exptl.entry_id    5YGI 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              24.305 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'MAGNESIUM ION' 
_entity.pdbx_number_of_molecules    3 
_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            5YGI 
_cell.length_a            111.743 
_cell.length_b            111.743 
_cell.length_c            66.191 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YGI 
_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,G,H 
_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
? 3 D N N 
? 3 E N N 
? 3 F 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 OD2 ASP 98 A ASP 103 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? 
metalc ? metalc2 A OD1 ASP 98 A ASP 103 1_555 F MG MG . A MG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
metalc ? metalc3 A OD2 ASP 102 A ASP 107 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? 
metalc ? metalc4 A OD2 ASP 102 A ASP 107 1_555 F MG MG . A MG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? 
metalc ? metalc5 A OD2 ASP 238 A ASP 243 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? 
metalc ? metalc6 D MG MG . A MG 503 1_555 G O7 T93 . A T93 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
metalc ? metalc7 D MG MG . A MG 503 1_555 G O3 T93 . A T93 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? 
metalc ? metalc8 D MG MG . A MG 503 1_555 H O HOH . A HOH 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc9 D MG MG . A MG 503 1_555 H O HOH . A HOH 626 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? 
metalc ? metalc10 D MG MG . A MG 503 1_555 H O HOH . A HOH 635 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? 
metalc ? metalc11 E MG MG . A MG 504 1_555 G O9 T93 . A T93 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? 
metalc ? metalc12 E MG MG . A MG 504 1_555 G O4 T93 . A T93 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? 
metalc ? metalc13 E MG MG . A MG 504 1_555 H O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? 
metalc ? metalc14 E MG MG . A MG 504 1_555 H O HOH . A HOH 641 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? 
metalc ? metalc15 F MG MG . A MG 505 1_555 G O9 T93 . A T93 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? 
metalc ? metalc16 F MG MG . A MG 505 1_555 H O HOH . A HOH 621 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.877 ? 
metalc ? metalc17 F MG MG . A MG 505 1_555 H O HOH . A HOH 623 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.867 ? 
metalc ? metalc18 F MG MG . A MG 505 1_555 H O HOH . A HOH 631 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.934 ? 
#
_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                     5YGI 
_atom_sites.fract_transf_matrix[1][1]    0.008949 
_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]    0.008949 
_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]    0.015108 
_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 PO4 A 1 501 501 PO4 PO4 . 
C 2 PO4 A 1 502 502 PO4 PO4 . 
D 3 MG A 1 503 601 MG MG . 
E 3 MG A 1 504 602 MG MG . 
F 3 MG A 1 505 603 MG MG . 
G 4 T93 A 1 506 701 T93 T93 . 
H 5 HOH A 1 601 835 HOH HOH . 
H 5 HOH A 2 602 851 HOH HOH . 
H 5 HOH A 3 603 820 HOH HOH . 
H 5 HOH A 4 604 838 HOH HOH . 
H 5 HOH A 5 605 810 HOH HOH . 
H 5 HOH A 6 606 832 HOH HOH . 
H 5 HOH A 7 607 837 HOH HOH . 
H 5 HOH A 8 608 815 HOH HOH . 
H 5 HOH A 9 609 812 HOH HOH . 
H 5 HOH A 10 610 850 HOH HOH . 
H 5 HOH A 11 611 831 HOH HOH . 
H 5 HOH A 12 612 808 HOH HOH . 
H 5 HOH A 13 613 806 HOH HOH . 
H 5 HOH A 14 614 849 HOH HOH . 
H 5 HOH A 15 615 846 HOH HOH . 
H 5 HOH A 16 616 814 HOH HOH . 
H 5 HOH A 17 617 809 HOH HOH . 
H 5 HOH A 18 618 852 HOH HOH . 
H 5 HOH A 19 619 821 HOH HOH . 
H 5 HOH A 20 620 834 HOH HOH . 
H 5 HOH A 21 621 853 HOH HOH . 
H 5 HOH A 22 622 825 HOH HOH . 
H 5 HOH A 23 623 848 HOH HOH . 
H 5 HOH A 24 624 804 HOH HOH . 
H 5 HOH A 25 625 807 HOH HOH . 
H 5 HOH A 26 626 818 HOH HOH . 
H 5 HOH A 27 627 816 HOH HOH . 
H 5 HOH A 28 628 822 HOH HOH . 
H 5 HOH A 29 629 802 HOH HOH . 
H 5 HOH A 30 630 844 HOH HOH . 
H 5 HOH A 31 631 847 HOH HOH . 
H 5 HOH A 32 632 841 HOH HOH . 
H 5 HOH A 33 633 803 HOH HOH . 
H 5 HOH A 34 634 805 HOH HOH . 
H 5 HOH A 35 635 819 HOH HOH . 
H 5 HOH A 36 636 827 HOH HOH . 
H 5 HOH A 37 637 801 HOH HOH . 
H 5 HOH A 38 638 829 HOH HOH . 
H 5 HOH A 39 639 833 HOH HOH . 
H 5 HOH A 40 640 823 HOH HOH . 
H 5 HOH A 41 641 817 HOH HOH . 
H 5 HOH A 42 642 811 HOH HOH . 
H 5 HOH A 43 643 813 HOH HOH . 
H 5 HOH A 44 644 845 HOH HOH . 
H 5 HOH A 45 645 840 HOH HOH . 
H 5 HOH A 46 646 839 HOH HOH . 
H 5 HOH A 47 647 842 HOH HOH . 
H 5 HOH A 48 648 843 HOH HOH . 
H 5 HOH A 49 649 828 HOH HOH . 
H 5 HOH A 50 650 826 HOH HOH . 
H 5 HOH A 51 651 824 HOH HOH . 
H 5 HOH A 52 652 830 HOH HOH . 
H 5 HOH A 53 653 836 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         D 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               -15.352 
_atom_site.Cartn_y               37.122 
_atom_site.Cartn_z               -6.347 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        41.21 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          MG 
_atom_site.auth_comp_id          MG 
_atom_site.auth_seq_id           503 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           284 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           1 
#