data_8BDG
#
_model_server_result.job_id            nGWcODcQhCpx9Bzju2eG-g 
_model_server_result.datetime_utc      '2024-12-17 06:30:36' 
_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          8bdg 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":401}' 
#
_entry.id    8BDG 
#
_exptl.entry_id    8BDG 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              24.305 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'MAGNESIUM ION' 
_entity.pdbx_number_of_molecules    5 
_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            8BDG 
_cell.length_a            105.25 
_cell.length_b            158.64 
_cell.length_c            179.19 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8BDG 
_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    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_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
? 6 H N N 
? 6 K N N 
? 6 O N N 
? 6 Q N N 
? 6 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 A OD1 ASP 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? 
metalc ? metalc2 A OD2 ASP 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.83 ? 
metalc ? metalc3 A O THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.957 ? 
metalc ? metalc4 A OG1 THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? 
metalc ? metalc5 A O GLY 44 A GLY 44 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc6 A OE2 GLU 55 A GLU 55 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? 
metalc ? metalc7 G O3G GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
metalc ? metalc8 G O1B GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc9 H MG MG . A MG 502 1_555 T O HOH . A HOH 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? 
metalc ? metalc10 H MG MG . A MG 502 1_555 T O HOH . A HOH 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? 
metalc ? metalc11 H MG MG . A MG 502 1_555 T O HOH . A HOH 618 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? 
metalc ? metalc12 H MG MG . A MG 502 1_555 T O HOH . A HOH 619 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc13 B OE1 GLN 11 B GLN 11 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? 
metalc ? metalc14 J O1A GDP . B GDP 501 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? 
metalc ? metalc15 K MG MG . B MG 502 1_555 U O HOH . B HOH 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.646 ? 
metalc ? metalc16 K MG MG . B MG 502 1_555 U O HOH . B HOH 630 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? 
metalc ? metalc17 K MG MG . B MG 502 1_555 V O HOH . C HOH 652 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? 
metalc ? metalc18 N O1G GTP . C GTP 501 1_555 O MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? 
metalc ? metalc19 N O1B GTP . C GTP 501 1_555 O MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? 
metalc ? metalc20 O MG MG . C MG 502 1_555 V O HOH . C HOH 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? 
metalc ? metalc21 O MG MG . C MG 502 1_555 V O HOH . C HOH 622 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? 
metalc ? metalc22 O MG MG . C MG 502 1_555 V O HOH . C HOH 638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? 
metalc ? metalc23 O MG MG . C MG 502 1_555 V O HOH . C HOH 641 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? 
metalc ? metalc24 D OE1 GLN 11 D GLN 11 1_555 Q MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.588 ? 
metalc ? metalc25 P O1A GDP . D GDP 501 1_555 Q MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? 
metalc ? metalc26 Q MG MG . D MG 502 1_555 W O HOH . D HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.777 ? 
metalc ? metalc27 F OE1 GLU 331 F GLU 331 1_555 S MG MG . F MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.747 ? 
metalc ? metalc28 F OE2 GLU 331 F GLU 331 1_555 S MG MG . F MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? 
#
_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                     8BDG 
_atom_sites.fract_transf_matrix[1][1]    0.009501 
_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]    0.006304 
_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]    0.005581 
_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
G 5 GTP A 1 501 501 GTP GTP . 
H 6 MG A 1 502 502 MG MG . 
I 7 CA A 1 503 503 CA CA . 
J 8 GDP B 1 501 501 GDP GDP . 
K 6 MG B 1 502 502 MG MG . 
L 9 MES B 1 503 503 MES MES . 
M 10 R3T B 1 504 504 R3T R3T . 
N 5 GTP C 1 501 501 GTP GTP . 
O 6 MG C 1 502 502 MG MG . 
P 8 GDP D 1 501 501 GDP GDP . 
Q 6 MG D 1 502 502 MG MG . 
R 10 R3T D 1 503 503 R3T R3T . 
S 6 MG F 1 401 401 MG MG . 
T 11 HOH A 1 601 601 HOH HOH . 
T 11 HOH A 2 602 602 HOH HOH . 
T 11 HOH A 3 603 603 HOH HOH . 
T 11 HOH A 4 604 604 HOH HOH . 
T 11 HOH A 5 605 605 HOH HOH . 
T 11 HOH A 6 606 606 HOH HOH . 
T 11 HOH A 7 607 607 HOH HOH . 
T 11 HOH A 8 608 608 HOH HOH . 
T 11 HOH A 9 609 609 HOH HOH . 
T 11 HOH A 10 610 610 HOH HOH . 
T 11 HOH A 11 611 611 HOH HOH . 
T 11 HOH A 12 612 612 HOH HOH . 
T 11 HOH A 13 613 613 HOH HOH . 
T 11 HOH A 14 614 614 HOH HOH . 
T 11 HOH A 15 615 615 HOH HOH . 
T 11 HOH A 16 616 616 HOH HOH . 
T 11 HOH A 17 617 617 HOH HOH . 
T 11 HOH A 18 618 618 HOH HOH . 
T 11 HOH A 19 619 619 HOH HOH . 
T 11 HOH A 20 620 620 HOH HOH . 
T 11 HOH A 21 621 621 HOH HOH . 
T 11 HOH A 22 622 622 HOH HOH . 
T 11 HOH A 23 623 623 HOH HOH . 
T 11 HOH A 24 624 624 HOH HOH . 
T 11 HOH A 25 625 625 HOH HOH . 
T 11 HOH A 26 626 626 HOH HOH . 
T 11 HOH A 27 627 627 HOH HOH . 
T 11 HOH A 28 628 628 HOH HOH . 
T 11 HOH A 29 629 629 HOH HOH . 
U 11 HOH B 1 601 601 HOH HOH . 
U 11 HOH B 2 602 602 HOH HOH . 
U 11 HOH B 3 603 603 HOH HOH . 
U 11 HOH B 4 604 604 HOH HOH . 
U 11 HOH B 5 605 605 HOH HOH . 
U 11 HOH B 6 606 606 HOH HOH . 
U 11 HOH B 7 607 607 HOH HOH . 
U 11 HOH B 8 608 608 HOH HOH . 
U 11 HOH B 9 609 609 HOH HOH . 
U 11 HOH B 10 610 610 HOH HOH . 
U 11 HOH B 11 611 611 HOH HOH . 
U 11 HOH B 12 612 612 HOH HOH . 
U 11 HOH B 13 613 613 HOH HOH . 
U 11 HOH B 14 614 614 HOH HOH . 
U 11 HOH B 15 615 615 HOH HOH . 
U 11 HOH B 16 616 616 HOH HOH . 
U 11 HOH B 17 617 617 HOH HOH . 
U 11 HOH B 18 618 618 HOH HOH . 
U 11 HOH B 19 619 619 HOH HOH . 
U 11 HOH B 20 620 620 HOH HOH . 
U 11 HOH B 21 621 621 HOH HOH . 
U 11 HOH B 22 622 622 HOH HOH . 
U 11 HOH B 23 623 623 HOH HOH . 
U 11 HOH B 24 624 624 HOH HOH . 
U 11 HOH B 25 625 625 HOH HOH . 
U 11 HOH B 26 626 626 HOH HOH . 
U 11 HOH B 27 627 627 HOH HOH . 
U 11 HOH B 28 628 628 HOH HOH . 
U 11 HOH B 29 629 629 HOH HOH . 
U 11 HOH B 30 630 630 HOH HOH . 
U 11 HOH B 31 631 631 HOH HOH . 
U 11 HOH B 32 632 632 HOH HOH . 
U 11 HOH B 33 633 633 HOH HOH . 
U 11 HOH B 34 634 634 HOH HOH . 
U 11 HOH B 35 635 635 HOH HOH . 
V 11 HOH C 1 601 601 HOH HOH . 
V 11 HOH C 2 602 602 HOH HOH . 
V 11 HOH C 3 603 603 HOH HOH . 
V 11 HOH C 4 604 604 HOH HOH . 
V 11 HOH C 5 605 605 HOH HOH . 
V 11 HOH C 6 606 606 HOH HOH . 
V 11 HOH C 7 607 607 HOH HOH . 
V 11 HOH C 8 608 608 HOH HOH . 
V 11 HOH C 9 609 609 HOH HOH . 
V 11 HOH C 10 610 610 HOH HOH . 
V 11 HOH C 11 611 611 HOH HOH . 
V 11 HOH C 12 612 612 HOH HOH . 
V 11 HOH C 13 613 613 HOH HOH . 
V 11 HOH C 14 614 614 HOH HOH . 
V 11 HOH C 15 615 615 HOH HOH . 
V 11 HOH C 16 616 616 HOH HOH . 
V 11 HOH C 17 617 617 HOH HOH . 
V 11 HOH C 18 618 618 HOH HOH . 
V 11 HOH C 19 619 619 HOH HOH . 
V 11 HOH C 20 620 620 HOH HOH . 
V 11 HOH C 21 621 621 HOH HOH . 
V 11 HOH C 22 622 622 HOH HOH . 
V 11 HOH C 23 623 623 HOH HOH . 
V 11 HOH C 24 624 624 HOH HOH . 
V 11 HOH C 25 625 625 HOH HOH . 
V 11 HOH C 26 626 626 HOH HOH . 
V 11 HOH C 27 627 627 HOH HOH . 
V 11 HOH C 28 628 628 HOH HOH . 
V 11 HOH C 29 629 629 HOH HOH . 
V 11 HOH C 30 630 630 HOH HOH . 
V 11 HOH C 31 631 631 HOH HOH . 
V 11 HOH C 32 632 632 HOH HOH . 
V 11 HOH C 33 633 633 HOH HOH . 
V 11 HOH C 34 634 634 HOH HOH . 
V 11 HOH C 35 635 635 HOH HOH . 
V 11 HOH C 36 636 636 HOH HOH . 
V 11 HOH C 37 637 637 HOH HOH . 
V 11 HOH C 38 638 638 HOH HOH . 
V 11 HOH C 39 639 639 HOH HOH . 
V 11 HOH C 40 640 640 HOH HOH . 
V 11 HOH C 41 641 641 HOH HOH . 
V 11 HOH C 42 642 642 HOH HOH . 
V 11 HOH C 43 643 643 HOH HOH . 
V 11 HOH C 44 644 644 HOH HOH . 
V 11 HOH C 45 645 645 HOH HOH . 
V 11 HOH C 46 646 646 HOH HOH . 
V 11 HOH C 47 647 647 HOH HOH . 
V 11 HOH C 48 648 648 HOH HOH . 
V 11 HOH C 49 649 649 HOH HOH . 
V 11 HOH C 50 650 650 HOH HOH . 
V 11 HOH C 51 651 651 HOH HOH . 
V 11 HOH C 52 652 652 HOH HOH . 
V 11 HOH C 53 653 653 HOH HOH . 
V 11 HOH C 54 654 654 HOH HOH . 
V 11 HOH C 55 655 655 HOH HOH . 
V 11 HOH C 56 656 656 HOH HOH . 
V 11 HOH C 57 657 657 HOH HOH . 
V 11 HOH C 58 658 658 HOH HOH . 
V 11 HOH C 59 659 659 HOH HOH . 
V 11 HOH C 60 660 660 HOH HOH . 
V 11 HOH C 61 661 661 HOH HOH . 
V 11 HOH C 62 662 662 HOH HOH . 
V 11 HOH C 63 663 663 HOH HOH . 
V 11 HOH C 64 664 664 HOH HOH . 
V 11 HOH C 65 665 665 HOH HOH . 
V 11 HOH C 66 666 666 HOH HOH . 
V 11 HOH C 67 667 667 HOH HOH . 
V 11 HOH C 68 668 668 HOH HOH . 
V 11 HOH C 69 669 669 HOH HOH . 
V 11 HOH C 70 670 670 HOH HOH . 
V 11 HOH C 71 671 671 HOH HOH . 
V 11 HOH C 72 672 672 HOH HOH . 
V 11 HOH C 73 673 673 HOH HOH . 
V 11 HOH C 74 674 674 HOH HOH . 
V 11 HOH C 75 675 675 HOH HOH . 
V 11 HOH C 76 676 676 HOH HOH . 
V 11 HOH C 77 677 677 HOH HOH . 
V 11 HOH C 78 678 678 HOH HOH . 
V 11 HOH C 79 679 679 HOH HOH . 
V 11 HOH C 80 680 680 HOH HOH . 
V 11 HOH C 81 681 681 HOH HOH . 
V 11 HOH C 82 682 682 HOH HOH . 
V 11 HOH C 83 683 683 HOH HOH . 
V 11 HOH C 84 684 684 HOH HOH . 
V 11 HOH C 85 685 685 HOH HOH . 
V 11 HOH C 86 686 686 HOH HOH . 
V 11 HOH C 87 687 687 HOH HOH . 
V 11 HOH C 88 688 688 HOH HOH . 
V 11 HOH C 89 689 689 HOH HOH . 
W 11 HOH D 1 601 601 HOH HOH . 
W 11 HOH D 2 602 602 HOH HOH . 
W 11 HOH D 3 603 603 HOH HOH . 
W 11 HOH D 4 604 604 HOH HOH . 
W 11 HOH D 5 605 605 HOH HOH . 
W 11 HOH D 6 606 606 HOH HOH . 
W 11 HOH D 7 607 607 HOH HOH . 
W 11 HOH D 8 608 608 HOH HOH . 
X 11 HOH E 1 201 201 HOH HOH . 
X 11 HOH E 2 202 202 HOH HOH . 
X 11 HOH E 3 203 203 HOH HOH . 
X 11 HOH E 4 204 204 HOH HOH . 
Y 11 HOH F 1 501 501 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       6 
_atom_site.Cartn_x               10.192 
_atom_site.Cartn_y               52.13 
_atom_site.Cartn_z               93.138 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        86.24 
_atom_site.pdbx_formal_charge    2 
_atom_site.auth_atom_id          MG 
_atom_site.auth_comp_id          MG 
_atom_site.auth_seq_id           401 
_atom_site.auth_asym_id          F 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              43 
_model_server_stats.parse_time_ms           26 
_model_server_stats.create_model_time_ms    171 
_model_server_stats.query_time_ms           460 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           1 
#