data_6D88
#
_model_server_result.job_id            '_AVFbkgqIWbNe2MLqB8I_A' 
_model_server_result.datetime_utc      '2024-10-18 08:54:38' 
_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          6d88 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":504}' 
#
_entry.id    6D88 
#
_exptl.entry_id    6D88 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              24.305 
_entity.id                          7 
_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            6D88 
_cell.length_a            105.536 
_cell.length_b            157.894 
_cell.length_c            182.025 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6D88 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_pdbx_struct_assembly.details               author_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
? 7 I N N 
? 7 M N N 
? 7 Q 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 H CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.852 ? 
metalc ? metalc2 A OD2 ASP 39 A ASP 39 1_555 H CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.8 ? 
metalc ? metalc3 A O THR 41 A THR 41 1_555 H CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? 
metalc ? metalc4 A O GLY 44 A GLY 44 1_555 H CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? 
metalc ? metalc5 A OE1 GLU 55 A GLU 55 1_555 H CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.112 ? 
metalc ? metalc6 A OE2 GLU 55 A GLU 55 1_555 H CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? 
metalc ? metalc7 G O2G GTP . A GTP 501 1_555 I MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? 
metalc ? metalc8 G O2B GTP . A GTP 501 1_555 I MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? 
metalc ? metalc9 I MG MG . A MG 503 1_555 U O HOH . A HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.881 ? 
metalc ? metalc10 I MG MG . A MG 503 1_555 U O HOH . A HOH 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? 
metalc ? metalc11 B OE1 GLN 11 B GLN 11 1_555 M MG MG . B MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? 
metalc ? metalc12 B OD2 ASP 177 B ASP 177 1_555 M MG MG . B MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.936 ? 
metalc ? metalc13 J O2A GDP . B GDP 501 1_555 M MG MG . B MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? 
metalc ? metalc14 M MG MG . B MG 504 1_555 V O HOH . B HOH 619 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? 
metalc ? metalc15 M MG MG . B MG 504 1_555 W O HOH . C HOH 619 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? 
metalc ? metalc16 C OD1 ASP 39 C ASP 39 1_555 P CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? 
metalc ? metalc17 C OD2 ASP 39 C ASP 39 1_555 P CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? 
metalc ? metalc18 C O THR 41 C THR 41 1_555 P CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? 
metalc ? metalc19 C OG1 THR 41 C THR 41 1_555 P CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc20 C O GLY 44 C GLY 44 1_555 P CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? 
metalc ? metalc21 C OE1 GLU 55 C GLU 55 1_555 P CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.765 ? 
metalc ? metalc22 C OE2 GLU 55 C GLU 55 1_555 P CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? 
metalc ? metalc23 O O3G GTP . C GTP 501 1_555 Q MG MG . C MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? 
metalc ? metalc24 O O2B GTP . C GTP 501 1_555 Q MG MG . C MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? 
metalc ? metalc25 Q MG MG . C MG 503 1_555 W O HOH . C HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.92 ? 
metalc ? metalc26 Q MG MG . C MG 503 1_555 W O HOH . C HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? 
#
_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                     6D88 
_atom_sites.fract_transf_matrix[1][1]    0.009475 
_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]    0.006333 
_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]    0.005494 
_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 CA A 1 502 1 CA CA . 
I 7 MG A 1 503 1 MG MG . 
J 8 GDP B 1 501 501 GDP GDP . 
K 9 MES B 1 502 1 MES MES . 
L 9 MES B 1 503 2 MES MES . 
M 7 MG B 1 504 2 MG MG . 
N 10 G9K B 1 505 1 G9K G9K . 
O 5 GTP C 1 501 501 GTP GTP . 
P 6 CA C 1 502 2 CA CA . 
Q 7 MG C 1 503 3 MG MG . 
R 8 GDP D 1 501 1 GDP GDP . 
S 10 G9K D 1 502 2 G9K G9K . 
T 11 ACP F 1 401 1 ACP ACP . 
U 12 HOH A 1 601 98 HOH HOH . 
U 12 HOH A 2 602 27 HOH HOH . 
U 12 HOH A 3 603 119 HOH HOH . 
U 12 HOH A 4 604 99 HOH HOH . 
U 12 HOH A 5 605 95 HOH HOH . 
U 12 HOH A 6 606 115 HOH HOH . 
U 12 HOH A 7 607 25 HOH HOH . 
U 12 HOH A 8 608 13 HOH HOH . 
U 12 HOH A 9 609 63 HOH HOH . 
U 12 HOH A 10 610 56 HOH HOH . 
U 12 HOH A 11 611 60 HOH HOH . 
U 12 HOH A 12 612 33 HOH HOH . 
U 12 HOH A 13 613 50 HOH HOH . 
U 12 HOH A 14 614 8 HOH HOH . 
U 12 HOH A 15 615 30 HOH HOH . 
U 12 HOH A 16 616 75 HOH HOH . 
U 12 HOH A 17 617 22 HOH HOH . 
V 12 HOH B 1 601 53 HOH HOH . 
V 12 HOH B 2 602 44 HOH HOH . 
V 12 HOH B 3 603 112 HOH HOH . 
V 12 HOH B 4 604 89 HOH HOH . 
V 12 HOH B 5 605 24 HOH HOH . 
V 12 HOH B 6 606 107 HOH HOH . 
V 12 HOH B 7 607 18 HOH HOH . 
V 12 HOH B 8 608 116 HOH HOH . 
V 12 HOH B 9 609 125 HOH HOH . 
V 12 HOH B 10 610 85 HOH HOH . 
V 12 HOH B 11 611 108 HOH HOH . 
V 12 HOH B 12 612 109 HOH HOH . 
V 12 HOH B 13 613 126 HOH HOH . 
V 12 HOH B 14 614 92 HOH HOH . 
V 12 HOH B 15 615 96 HOH HOH . 
V 12 HOH B 16 616 70 HOH HOH . 
V 12 HOH B 17 617 124 HOH HOH . 
V 12 HOH B 18 618 21 HOH HOH . 
V 12 HOH B 19 619 101 HOH HOH . 
W 12 HOH C 1 601 103 HOH HOH . 
W 12 HOH C 2 602 102 HOH HOH . 
W 12 HOH C 3 603 121 HOH HOH . 
W 12 HOH C 4 604 114 HOH HOH . 
W 12 HOH C 5 605 104 HOH HOH . 
W 12 HOH C 6 606 97 HOH HOH . 
W 12 HOH C 7 607 123 HOH HOH . 
W 12 HOH C 8 608 19 HOH HOH . 
W 12 HOH C 9 609 72 HOH HOH . 
W 12 HOH C 10 610 1 HOH HOH . 
W 12 HOH C 11 611 20 HOH HOH . 
W 12 HOH C 12 612 106 HOH HOH . 
W 12 HOH C 13 613 111 HOH HOH . 
W 12 HOH C 14 614 105 HOH HOH . 
W 12 HOH C 15 615 23 HOH HOH . 
W 12 HOH C 16 616 6 HOH HOH . 
W 12 HOH C 17 617 83 HOH HOH . 
W 12 HOH C 18 618 65 HOH HOH . 
W 12 HOH C 19 619 100 HOH HOH . 
W 12 HOH C 20 620 87 HOH HOH . 
W 12 HOH C 21 621 122 HOH HOH . 
W 12 HOH C 22 622 42 HOH HOH . 
W 12 HOH C 23 623 29 HOH HOH . 
W 12 HOH C 24 624 71 HOH HOH . 
W 12 HOH C 25 625 110 HOH HOH . 
W 12 HOH C 26 626 7 HOH HOH . 
W 12 HOH C 27 627 41 HOH HOH . 
W 12 HOH C 28 628 86 HOH HOH . 
W 12 HOH C 29 629 88 HOH HOH . 
X 12 HOH D 1 601 118 HOH HOH . 
X 12 HOH D 2 602 74 HOH HOH . 
X 12 HOH D 3 603 54 HOH HOH . 
X 12 HOH D 4 604 90 HOH HOH . 
X 12 HOH D 5 605 12 HOH HOH . 
X 12 HOH D 6 606 5 HOH HOH . 
X 12 HOH D 7 607 32 HOH HOH . 
X 12 HOH D 8 608 80 HOH HOH . 
X 12 HOH D 9 609 57 HOH HOH . 
X 12 HOH D 10 610 76 HOH HOH . 
X 12 HOH D 11 611 77 HOH HOH . 
X 12 HOH D 12 612 82 HOH HOH . 
X 12 HOH D 13 613 69 HOH HOH . 
X 12 HOH D 14 614 94 HOH HOH . 
Y 12 HOH E 1 201 40 HOH HOH . 
Y 12 HOH E 2 202 93 HOH HOH . 
Y 12 HOH E 3 203 17 HOH HOH . 
Y 12 HOH E 4 204 67 HOH HOH . 
Y 12 HOH E 5 205 78 HOH HOH . 
Z 12 HOH F 1 501 59 HOH HOH . 
Z 12 HOH F 2 502 117 HOH HOH . 
Z 12 HOH F 3 503 79 HOH HOH . 
Z 12 HOH F 4 504 11 HOH HOH . 
Z 12 HOH F 5 505 81 HOH HOH . 
Z 12 HOH F 6 506 46 HOH HOH . 
Z 12 HOH F 7 507 38 HOH HOH . 
Z 12 HOH F 8 508 64 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         M 
_atom_site.label_entity_id       7 
_atom_site.Cartn_x               13.881 
_atom_site.Cartn_y               -48.09 
_atom_site.Cartn_z               -14.17 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        38.09 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          MG 
_atom_site.auth_comp_id          MG 
_atom_site.auth_seq_id           504 
_atom_site.auth_asym_id          B 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              184 
_model_server_stats.parse_time_ms           35 
_model_server_stats.create_model_time_ms    54 
_model_server_stats.query_time_ms           333 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           1 
#