data_6JD5
#
_model_server_result.job_id            Ovp45i0hChksBt6jIsso2Q 
_model_server_result.datetime_utc      '2024-11-28 08:17:36' 
_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          6jd5 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1402}' 
#
_entry.id    6JD5 
#
_exptl.entry_id    6JD5 
_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    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          100.57 
_cell.angle_gamma         90 
_cell.entry_id            6JD5 
_cell.length_a            51.449 
_cell.length_b            69.691 
_cell.length_c            75.963 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6JD5 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_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,C,D,G 1 1 
B,E,F,H 2 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 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 OG1 THR 69 A THR 1191 1_555 D MG MG . A MG 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc2 C O1G ATP . A ATP 1401 1_555 D MG MG . A MG 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? 
metalc ? metalc3 C O1B ATP . A ATP 1401 1_555 D MG MG . A MG 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? 
metalc ? metalc4 D MG MG . A MG 1402 1_555 G O HOH . A HOH 1528 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? 
metalc ? metalc5 D MG MG . A MG 1402 1_555 G O HOH . A HOH 1536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc6 D MG MG . A MG 1402 1_555 G O HOH . A HOH 1539 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.854 ? 
metalc ? metalc7 B OG1 THR 69 B THR 1191 1_555 F MG MG . B MG 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.984 ? 
metalc ? metalc8 E O1G ATP . B ATP 1401 1_555 F MG MG . B MG 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? 
metalc ? metalc9 E O1B ATP . B ATP 1401 1_555 F MG MG . B MG 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
metalc ? metalc10 F MG MG . B MG 1402 1_555 H O HOH . B HOH 1516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? 
metalc ? metalc11 F MG MG . B MG 1402 1_555 H O HOH . B HOH 1534 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
metalc ? metalc12 F MG MG . B MG 1402 1_555 H O HOH . B HOH 1553 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? 
#
_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                     6JD5 
_atom_sites.fract_transf_matrix[1][1]    0.019437 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003628 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014349 
_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]    0.013392 
_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 ATP A 1 1401 2 ATP ATP . 
D 3 MG A 1 1402 2 MG MG . 
E 2 ATP B 1 1401 1 ATP ATP . 
F 3 MG B 1 1402 1 MG MG . 
G 4 HOH A 1 1501 26 HOH HOH . 
G 4 HOH A 2 1502 182 HOH HOH . 
G 4 HOH A 3 1503 199 HOH HOH . 
G 4 HOH A 4 1504 19 HOH HOH . 
G 4 HOH A 5 1505 114 HOH HOH . 
G 4 HOH A 6 1506 122 HOH HOH . 
G 4 HOH A 7 1507 134 HOH HOH . 
G 4 HOH A 8 1508 18 HOH HOH . 
G 4 HOH A 9 1509 90 HOH HOH . 
G 4 HOH A 10 1510 176 HOH HOH . 
G 4 HOH A 11 1511 14 HOH HOH . 
G 4 HOH A 12 1512 210 HOH HOH . 
G 4 HOH A 13 1513 211 HOH HOH . 
G 4 HOH A 14 1514 27 HOH HOH . 
G 4 HOH A 15 1515 83 HOH HOH . 
G 4 HOH A 16 1516 12 HOH HOH . 
G 4 HOH A 17 1517 65 HOH HOH . 
G 4 HOH A 18 1518 160 HOH HOH . 
G 4 HOH A 19 1519 110 HOH HOH . 
G 4 HOH A 20 1520 58 HOH HOH . 
G 4 HOH A 21 1521 169 HOH HOH . 
G 4 HOH A 22 1522 215 HOH HOH . 
G 4 HOH A 23 1523 1 HOH HOH . 
G 4 HOH A 24 1524 15 HOH HOH . 
G 4 HOH A 25 1525 35 HOH HOH . 
G 4 HOH A 26 1526 29 HOH HOH . 
G 4 HOH A 27 1527 22 HOH HOH . 
G 4 HOH A 28 1528 9 HOH HOH . 
G 4 HOH A 29 1529 116 HOH HOH . 
G 4 HOH A 30 1530 88 HOH HOH . 
G 4 HOH A 31 1531 43 HOH HOH . 
G 4 HOH A 32 1532 145 HOH HOH . 
G 4 HOH A 33 1533 47 HOH HOH . 
G 4 HOH A 34 1534 63 HOH HOH . 
G 4 HOH A 35 1535 13 HOH HOH . 
G 4 HOH A 36 1536 8 HOH HOH . 
G 4 HOH A 37 1537 44 HOH HOH . 
G 4 HOH A 38 1538 183 HOH HOH . 
G 4 HOH A 39 1539 2 HOH HOH . 
G 4 HOH A 40 1540 4 HOH HOH . 
G 4 HOH A 41 1541 39 HOH HOH . 
G 4 HOH A 42 1542 46 HOH HOH . 
G 4 HOH A 43 1543 10 HOH HOH . 
G 4 HOH A 44 1544 81 HOH HOH . 
G 4 HOH A 45 1545 94 HOH HOH . 
G 4 HOH A 46 1546 80 HOH HOH . 
G 4 HOH A 47 1547 162 HOH HOH . 
G 4 HOH A 48 1548 79 HOH HOH . 
G 4 HOH A 49 1549 57 HOH HOH . 
G 4 HOH A 50 1550 38 HOH HOH . 
G 4 HOH A 51 1551 91 HOH HOH . 
G 4 HOH A 52 1552 21 HOH HOH . 
G 4 HOH A 53 1553 143 HOH HOH . 
G 4 HOH A 54 1554 129 HOH HOH . 
G 4 HOH A 55 1555 16 HOH HOH . 
G 4 HOH A 56 1556 45 HOH HOH . 
G 4 HOH A 57 1557 131 HOH HOH . 
G 4 HOH A 58 1558 84 HOH HOH . 
G 4 HOH A 59 1559 115 HOH HOH . 
G 4 HOH A 60 1560 95 HOH HOH . 
G 4 HOH A 61 1561 25 HOH HOH . 
G 4 HOH A 62 1562 49 HOH HOH . 
G 4 HOH A 63 1563 113 HOH HOH . 
G 4 HOH A 64 1564 120 HOH HOH . 
G 4 HOH A 65 1565 98 HOH HOH . 
G 4 HOH A 66 1566 127 HOH HOH . 
G 4 HOH A 67 1567 112 HOH HOH . 
G 4 HOH A 68 1568 161 HOH HOH . 
G 4 HOH A 69 1569 89 HOH HOH . 
G 4 HOH A 70 1570 76 HOH HOH . 
G 4 HOH A 71 1571 181 HOH HOH . 
G 4 HOH A 72 1572 109 HOH HOH . 
G 4 HOH A 73 1573 123 HOH HOH . 
G 4 HOH A 74 1574 212 HOH HOH . 
G 4 HOH A 75 1575 144 HOH HOH . 
G 4 HOH A 76 1576 187 HOH HOH . 
G 4 HOH A 77 1577 189 HOH HOH . 
G 4 HOH A 78 1578 152 HOH HOH . 
G 4 HOH A 79 1579 155 HOH HOH . 
G 4 HOH A 80 1580 139 HOH HOH . 
G 4 HOH A 81 1581 56 HOH HOH . 
G 4 HOH A 82 1582 149 HOH HOH . 
G 4 HOH A 83 1583 130 HOH HOH . 
G 4 HOH A 84 1584 133 HOH HOH . 
G 4 HOH A 85 1585 48 HOH HOH . 
G 4 HOH A 86 1586 168 HOH HOH . 
G 4 HOH A 87 1587 171 HOH HOH . 
G 4 HOH A 88 1588 170 HOH HOH . 
G 4 HOH A 89 1589 52 HOH HOH . 
G 4 HOH A 90 1590 119 HOH HOH . 
G 4 HOH A 91 1591 128 HOH HOH . 
G 4 HOH A 92 1592 154 HOH HOH . 
G 4 HOH A 93 1593 148 HOH HOH . 
G 4 HOH A 94 1594 132 HOH HOH . 
G 4 HOH A 95 1595 146 HOH HOH . 
G 4 HOH A 96 1596 200 HOH HOH . 
G 4 HOH A 97 1597 216 HOH HOH . 
G 4 HOH A 98 1598 205 HOH HOH . 
G 4 HOH A 99 1599 174 HOH HOH . 
G 4 HOH A 100 1600 101 HOH HOH . 
G 4 HOH A 101 1601 140 HOH HOH . 
G 4 HOH A 102 1602 153 HOH HOH . 
G 4 HOH A 103 1603 136 HOH HOH . 
G 4 HOH A 104 1604 71 HOH HOH . 
G 4 HOH A 105 1605 167 HOH HOH . 
G 4 HOH A 106 1606 157 HOH HOH . 
G 4 HOH A 107 1607 147 HOH HOH . 
G 4 HOH A 108 1608 150 HOH HOH . 
G 4 HOH A 109 1609 184 HOH HOH . 
G 4 HOH A 110 1610 190 HOH HOH . 
G 4 HOH A 111 1611 111 HOH HOH . 
G 4 HOH A 112 1612 165 HOH HOH . 
G 4 HOH A 113 1613 188 HOH HOH . 
G 4 HOH A 114 1614 180 HOH HOH . 
G 4 HOH A 115 1615 195 HOH HOH . 
H 4 HOH B 1 1501 213 HOH HOH . 
H 4 HOH B 2 1502 177 HOH HOH . 
H 4 HOH B 3 1503 193 HOH HOH . 
H 4 HOH B 4 1504 67 HOH HOH . 
H 4 HOH B 5 1505 125 HOH HOH . 
H 4 HOH B 6 1506 33 HOH HOH . 
H 4 HOH B 7 1507 107 HOH HOH . 
H 4 HOH B 8 1508 86 HOH HOH . 
H 4 HOH B 9 1509 158 HOH HOH . 
H 4 HOH B 10 1510 156 HOH HOH . 
H 4 HOH B 11 1511 93 HOH HOH . 
H 4 HOH B 12 1512 31 HOH HOH . 
H 4 HOH B 13 1513 28 HOH HOH . 
H 4 HOH B 14 1514 50 HOH HOH . 
H 4 HOH B 15 1515 59 HOH HOH . 
H 4 HOH B 16 1516 6 HOH HOH . 
H 4 HOH B 17 1517 142 HOH HOH . 
H 4 HOH B 18 1518 61 HOH HOH . 
H 4 HOH B 19 1519 106 HOH HOH . 
H 4 HOH B 20 1520 7 HOH HOH . 
H 4 HOH B 21 1521 42 HOH HOH . 
H 4 HOH B 22 1522 20 HOH HOH . 
H 4 HOH B 23 1523 100 HOH HOH . 
H 4 HOH B 24 1524 64 HOH HOH . 
H 4 HOH B 25 1525 126 HOH HOH . 
H 4 HOH B 26 1526 72 HOH HOH . 
H 4 HOH B 27 1527 103 HOH HOH . 
H 4 HOH B 28 1528 41 HOH HOH . 
H 4 HOH B 29 1529 53 HOH HOH . 
H 4 HOH B 30 1530 78 HOH HOH . 
H 4 HOH B 31 1531 55 HOH HOH . 
H 4 HOH B 32 1532 68 HOH HOH . 
H 4 HOH B 33 1533 51 HOH HOH . 
H 4 HOH B 34 1534 11 HOH HOH . 
H 4 HOH B 35 1535 17 HOH HOH . 
H 4 HOH B 36 1536 207 HOH HOH . 
H 4 HOH B 37 1537 23 HOH HOH . 
H 4 HOH B 38 1538 32 HOH HOH . 
H 4 HOH B 39 1539 3 HOH HOH . 
H 4 HOH B 40 1540 73 HOH HOH . 
H 4 HOH B 41 1541 104 HOH HOH . 
H 4 HOH B 42 1542 37 HOH HOH . 
H 4 HOH B 43 1543 66 HOH HOH . 
H 4 HOH B 44 1544 87 HOH HOH . 
H 4 HOH B 45 1545 5 HOH HOH . 
H 4 HOH B 46 1546 24 HOH HOH . 
H 4 HOH B 47 1547 77 HOH HOH . 
H 4 HOH B 48 1548 164 HOH HOH . 
H 4 HOH B 49 1549 202 HOH HOH . 
H 4 HOH B 50 1550 118 HOH HOH . 
H 4 HOH B 51 1551 96 HOH HOH . 
H 4 HOH B 52 1552 179 HOH HOH . 
H 4 HOH B 53 1553 185 HOH HOH . 
H 4 HOH B 54 1554 108 HOH HOH . 
H 4 HOH B 55 1555 60 HOH HOH . 
H 4 HOH B 56 1556 70 HOH HOH . 
H 4 HOH B 57 1557 138 HOH HOH . 
H 4 HOH B 58 1558 124 HOH HOH . 
H 4 HOH B 59 1559 105 HOH HOH . 
H 4 HOH B 60 1560 69 HOH HOH . 
H 4 HOH B 61 1561 166 HOH HOH . 
H 4 HOH B 62 1562 163 HOH HOH . 
H 4 HOH B 63 1563 92 HOH HOH . 
H 4 HOH B 64 1564 40 HOH HOH . 
H 4 HOH B 65 1565 102 HOH HOH . 
H 4 HOH B 66 1566 85 HOH HOH . 
H 4 HOH B 67 1567 117 HOH HOH . 
H 4 HOH B 68 1568 172 HOH HOH . 
H 4 HOH B 69 1569 74 HOH HOH . 
H 4 HOH B 70 1570 30 HOH HOH . 
H 4 HOH B 71 1571 34 HOH HOH . 
H 4 HOH B 72 1572 36 HOH HOH . 
H 4 HOH B 73 1573 178 HOH HOH . 
H 4 HOH B 74 1574 141 HOH HOH . 
H 4 HOH B 75 1575 159 HOH HOH . 
H 4 HOH B 76 1576 186 HOH HOH . 
H 4 HOH B 77 1577 75 HOH HOH . 
H 4 HOH B 78 1578 121 HOH HOH . 
H 4 HOH B 79 1579 197 HOH HOH . 
H 4 HOH B 80 1580 82 HOH HOH . 
H 4 HOH B 81 1581 203 HOH HOH . 
H 4 HOH B 82 1582 54 HOH HOH . 
H 4 HOH B 83 1583 151 HOH HOH . 
H 4 HOH B 84 1584 191 HOH HOH . 
H 4 HOH B 85 1585 97 HOH HOH . 
H 4 HOH B 86 1586 206 HOH HOH . 
H 4 HOH B 87 1587 135 HOH HOH . 
H 4 HOH B 88 1588 214 HOH HOH . 
H 4 HOH B 89 1589 62 HOH HOH . 
H 4 HOH B 90 1590 209 HOH HOH . 
H 4 HOH B 91 1591 196 HOH HOH . 
H 4 HOH B 92 1592 173 HOH HOH . 
H 4 HOH B 93 1593 192 HOH HOH . 
H 4 HOH B 94 1594 99 HOH HOH . 
H 4 HOH B 95 1595 204 HOH HOH . 
H 4 HOH B 96 1596 175 HOH HOH . 
H 4 HOH B 97 1597 137 HOH HOH . 
H 4 HOH B 98 1598 201 HOH HOH . 
H 4 HOH B 99 1599 194 HOH HOH . 
H 4 HOH B 100 1600 208 HOH HOH . 
H 4 HOH B 101 1601 198 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               37.431 
_atom_site.Cartn_y               46.502 
_atom_site.Cartn_z               32.209 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        33.1 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          MG 
_atom_site.auth_comp_id          MG 
_atom_site.auth_seq_id           1402 
_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           13 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           304 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           1 
#