data_5DKH
#
_model_server_result.job_id            js81gPVPN8qhGAk3eZDZrA 
_model_server_result.datetime_utc      '2024-11-04 20:50:49' 
_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          5dkh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":1501}' 
#
_entry.id    5DKH 
#
_exptl.entry_id    5DKH 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              65.409 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ZINC ION' 
_entity.pdbx_number_of_molecules    6 
_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         120 
_cell.entry_id            5DKH 
_cell.length_a            63.997 
_cell.length_b            63.997 
_cell.length_c            89.16 
_cell.Z_PDB               9 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5DKH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        144 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31' 
#
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 
PISA monomeric 1 author_and_software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D,E,F,N 1 1 
B,G,H,I,J,K,O 2 1 
C,L,M,P 3 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
? 2 D N N 
? 2 E N N 
? 2 G N N 
? 2 H N N 
? 2 L N N 
? 2 M 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 NE2 HIS 71 A HIS 1441 1_555 D ZN ZN . A ZN 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? 
metalc ? metalc2 A NE2 HIS 71 A HIS 1441 1_555 E ZN ZN . A ZN 1502 3_564 ? ? ? ? ? ? ? ? ? ? ? ? 2.46 ? 
metalc ? metalc3 A NE2 HIS 88 A HIS 1458 1_555 D ZN ZN . A ZN 1501 2_665 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? 
metalc ? metalc4 A NE2 HIS 88 A HIS 1458 1_555 E ZN ZN . A ZN 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? 
metalc ? metalc5 D ZN ZN . A ZN 1501 1_555 N O HOH . A HOH 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.741 ? 
metalc ? metalc6 D ZN ZN . A ZN 1501 1_555 N O HOH . A HOH 1656 3_564 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? 
metalc ? metalc7 D ZN ZN . A ZN 1501 1_555 N O HOH . A HOH 1657 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? 
metalc ? metalc8 E ZN ZN . A ZN 1502 1_555 N O HOH . A HOH 1616 2_665 ? ? ? ? ? ? ? ? ? ? ? ? 1.875 ? 
metalc ? metalc9 E ZN ZN . A ZN 1502 1_555 N O HOH . A HOH 1656 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? 
metalc ? metalc10 E ZN ZN . A ZN 1502 1_555 N O HOH . A HOH 1657 2_665 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? 
metalc ? metalc11 B NE2 HIS 71 B HIS 1441 1_555 H ZN ZN . B ZN 1502 3_454 ? ? ? ? ? ? ? ? ? ? ? ? 1.984 ? 
metalc ? metalc12 B NE2 HIS 88 B HIS 1458 1_555 G ZN ZN . B ZN 1501 2_565 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? 
metalc ? metalc13 B NE2 HIS 88 B HIS 1458 1_555 H ZN ZN . B ZN 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? 
metalc ? metalc14 G ZN ZN . B ZN 1501 1_555 O O HOH . B HOH 1634 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.66 ? 
metalc ? metalc15 G ZN ZN . B ZN 1501 1_555 O O HOH . B HOH 1654 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.822 ? 
metalc ? metalc16 H ZN ZN . B ZN 1502 1_555 O O HOH . B HOH 1654 2_565 ? ? ? ? ? ? ? ? ? ? ? ? 2.585 ? 
metalc ? metalc17 C NE2 HIS 71 C HIS 1441 1_555 L ZN ZN . C ZN 1501 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? 
metalc ? metalc18 C NE2 HIS 71 C HIS 1441 1_555 M ZN ZN . C ZN 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? 
metalc ? metalc19 C NE2 HIS 88 C HIS 1458 1_555 L ZN ZN . C ZN 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? 
metalc ? metalc20 C NE2 HIS 88 C HIS 1458 1_555 M ZN ZN . C ZN 1502 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? 
metalc ? metalc21 L ZN ZN . C ZN 1501 1_555 P O HOH . C HOH 1645 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? 
metalc ? metalc22 L ZN ZN . C ZN 1501 1_555 P O HOH . C HOH 1646 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? 
metalc ? metalc23 M ZN ZN . C ZN 1502 1_555 P O HOH . C HOH 1633 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
metalc ? metalc24 M ZN ZN . C ZN 1502 1_555 P O HOH . C HOH 1636 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? 
metalc ? metalc25 M ZN ZN . C ZN 1502 1_555 P O HOH . C HOH 1645 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? 
metalc ? metalc26 M ZN ZN . C ZN 1502 1_555 P O HOH . C HOH 1646 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? 
#
_chem_comp.formula           'Zn 2' 
_chem_comp.formula_weight    65.409 
_chem_comp.id                ZN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'ZINC ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     5DKH 
_atom_sites.fract_transf_matrix[1][1]    0.015626 
_atom_sites.fract_transf_matrix[1][2]    0.009022 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018043 
_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]    0.011216 
_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
D 2 ZN A 1 1501 2 ZN ZN . 
E 2 ZN A 1 1502 5 ZN ZN . 
F 3 5C0 A 1 1503 2 5C0 XXX . 
G 2 ZN B 1 1501 3 ZN ZN . 
H 2 ZN B 1 1502 6 ZN ZN . 
I 4 EDO B 1 1503 1 EDO EDO . 
J 4 EDO B 1 1504 2 EDO EDO . 
K 3 5C0 B 1 1505 1 5C0 XXX . 
L 2 ZN C 1 1501 1 ZN ZN . 
M 2 ZN C 1 1502 4 ZN ZN . 
N 5 HOH A 1 1601 47 HOH HOH . 
N 5 HOH A 2 1602 146 HOH HOH . 
N 5 HOH A 3 1603 61 HOH HOH . 
N 5 HOH A 4 1604 162 HOH HOH . 
N 5 HOH A 5 1605 73 HOH HOH . 
N 5 HOH A 6 1606 60 HOH HOH . 
N 5 HOH A 7 1607 37 HOH HOH . 
N 5 HOH A 8 1608 106 HOH HOH . 
N 5 HOH A 9 1609 28 HOH HOH . 
N 5 HOH A 10 1610 67 HOH HOH . 
N 5 HOH A 11 1611 33 HOH HOH . 
N 5 HOH A 12 1612 153 HOH HOH . 
N 5 HOH A 13 1613 156 HOH HOH . 
N 5 HOH A 14 1614 127 HOH HOH . 
N 5 HOH A 15 1615 4 HOH HOH . 
N 5 HOH A 16 1616 29 HOH HOH . 
N 5 HOH A 17 1617 75 HOH HOH . 
N 5 HOH A 18 1618 104 HOH HOH . 
N 5 HOH A 19 1619 30 HOH HOH . 
N 5 HOH A 20 1620 107 HOH HOH . 
N 5 HOH A 21 1621 150 HOH HOH . 
N 5 HOH A 22 1622 114 HOH HOH . 
N 5 HOH A 23 1623 6 HOH HOH . 
N 5 HOH A 24 1624 134 HOH HOH . 
N 5 HOH A 25 1625 76 HOH HOH . 
N 5 HOH A 26 1626 55 HOH HOH . 
N 5 HOH A 27 1627 5 HOH HOH . 
N 5 HOH A 28 1628 144 HOH HOH . 
N 5 HOH A 29 1629 116 HOH HOH . 
N 5 HOH A 30 1630 95 HOH HOH . 
N 5 HOH A 31 1631 2 HOH HOH . 
N 5 HOH A 32 1632 79 HOH HOH . 
N 5 HOH A 33 1633 157 HOH HOH . 
N 5 HOH A 34 1634 56 HOH HOH . 
N 5 HOH A 35 1635 147 HOH HOH . 
N 5 HOH A 36 1636 24 HOH HOH . 
N 5 HOH A 37 1637 120 HOH HOH . 
N 5 HOH A 38 1638 62 HOH HOH . 
N 5 HOH A 39 1639 155 HOH HOH . 
N 5 HOH A 40 1640 167 HOH HOH . 
N 5 HOH A 41 1641 139 HOH HOH . 
N 5 HOH A 42 1642 113 HOH HOH . 
N 5 HOH A 43 1643 44 HOH HOH . 
N 5 HOH A 44 1644 177 HOH HOH . 
N 5 HOH A 45 1645 50 HOH HOH . 
N 5 HOH A 46 1646 105 HOH HOH . 
N 5 HOH A 47 1647 18 HOH HOH . 
N 5 HOH A 48 1648 78 HOH HOH . 
N 5 HOH A 49 1649 140 HOH HOH . 
N 5 HOH A 50 1650 176 HOH HOH . 
N 5 HOH A 51 1651 118 HOH HOH . 
N 5 HOH A 52 1652 112 HOH HOH . 
N 5 HOH A 53 1653 64 HOH HOH . 
N 5 HOH A 54 1654 101 HOH HOH . 
N 5 HOH A 55 1655 148 HOH HOH . 
N 5 HOH A 56 1656 80 HOH HOH . 
N 5 HOH A 57 1657 122 HOH HOH . 
N 5 HOH A 58 1658 121 HOH HOH . 
N 5 HOH A 59 1659 143 HOH HOH . 
N 5 HOH A 60 1660 154 HOH HOH . 
N 5 HOH A 61 1661 149 HOH HOH . 
N 5 HOH A 62 1662 123 HOH HOH . 
N 5 HOH A 63 1663 102 HOH HOH . 
N 5 HOH A 64 1664 145 HOH HOH . 
N 5 HOH A 65 1665 151 HOH HOH . 
O 5 HOH B 1 1601 117 HOH HOH . 
O 5 HOH B 2 1602 63 HOH HOH . 
O 5 HOH B 3 1603 129 HOH HOH . 
O 5 HOH B 4 1604 54 HOH HOH . 
O 5 HOH B 5 1605 36 HOH HOH . 
O 5 HOH B 6 1606 96 HOH HOH . 
O 5 HOH B 7 1607 138 HOH HOH . 
O 5 HOH B 8 1608 8 HOH HOH . 
O 5 HOH B 9 1609 16 HOH HOH . 
O 5 HOH B 10 1610 158 HOH HOH . 
O 5 HOH B 11 1611 141 HOH HOH . 
O 5 HOH B 12 1612 93 HOH HOH . 
O 5 HOH B 13 1613 128 HOH HOH . 
O 5 HOH B 14 1614 20 HOH HOH . 
O 5 HOH B 15 1615 3 HOH HOH . 
O 5 HOH B 16 1616 17 HOH HOH . 
O 5 HOH B 17 1617 58 HOH HOH . 
O 5 HOH B 18 1618 99 HOH HOH . 
O 5 HOH B 19 1619 124 HOH HOH . 
O 5 HOH B 20 1620 174 HOH HOH . 
O 5 HOH B 21 1621 14 HOH HOH . 
O 5 HOH B 22 1622 42 HOH HOH . 
O 5 HOH B 23 1623 90 HOH HOH . 
O 5 HOH B 24 1624 94 HOH HOH . 
O 5 HOH B 25 1625 87 HOH HOH . 
O 5 HOH B 26 1626 51 HOH HOH . 
O 5 HOH B 27 1627 66 HOH HOH . 
O 5 HOH B 28 1628 53 HOH HOH . 
O 5 HOH B 29 1629 175 HOH HOH . 
O 5 HOH B 30 1630 125 HOH HOH . 
O 5 HOH B 31 1631 163 HOH HOH . 
O 5 HOH B 32 1632 46 HOH HOH . 
O 5 HOH B 33 1633 166 HOH HOH . 
O 5 HOH B 34 1634 170 HOH HOH . 
O 5 HOH B 35 1635 89 HOH HOH . 
O 5 HOH B 36 1636 97 HOH HOH . 
O 5 HOH B 37 1637 103 HOH HOH . 
O 5 HOH B 38 1638 22 HOH HOH . 
O 5 HOH B 39 1639 161 HOH HOH . 
O 5 HOH B 40 1640 100 HOH HOH . 
O 5 HOH B 41 1641 137 HOH HOH . 
O 5 HOH B 42 1642 92 HOH HOH . 
O 5 HOH B 43 1643 35 HOH HOH . 
O 5 HOH B 44 1644 98 HOH HOH . 
O 5 HOH B 45 1645 9 HOH HOH . 
O 5 HOH B 46 1646 48 HOH HOH . 
O 5 HOH B 47 1647 136 HOH HOH . 
O 5 HOH B 48 1648 57 HOH HOH . 
O 5 HOH B 49 1649 12 HOH HOH . 
O 5 HOH B 50 1650 160 HOH HOH . 
O 5 HOH B 51 1651 91 HOH HOH . 
O 5 HOH B 52 1652 115 HOH HOH . 
O 5 HOH B 53 1653 71 HOH HOH . 
O 5 HOH B 54 1654 74 HOH HOH . 
O 5 HOH B 55 1655 132 HOH HOH . 
O 5 HOH B 56 1656 171 HOH HOH . 
O 5 HOH B 57 1657 126 HOH HOH . 
O 5 HOH B 58 1658 88 HOH HOH . 
O 5 HOH B 59 1659 135 HOH HOH . 
O 5 HOH B 60 1660 69 HOH HOH . 
P 5 HOH C 1 1601 81 HOH HOH . 
P 5 HOH C 2 1602 13 HOH HOH . 
P 5 HOH C 3 1603 31 HOH HOH . 
P 5 HOH C 4 1604 23 HOH HOH . 
P 5 HOH C 5 1605 26 HOH HOH . 
P 5 HOH C 6 1606 10 HOH HOH . 
P 5 HOH C 7 1607 159 HOH HOH . 
P 5 HOH C 8 1608 7 HOH HOH . 
P 5 HOH C 9 1609 39 HOH HOH . 
P 5 HOH C 10 1610 43 HOH HOH . 
P 5 HOH C 11 1611 83 HOH HOH . 
P 5 HOH C 12 1612 49 HOH HOH . 
P 5 HOH C 13 1613 110 HOH HOH . 
P 5 HOH C 14 1614 19 HOH HOH . 
P 5 HOH C 15 1615 169 HOH HOH . 
P 5 HOH C 16 1616 34 HOH HOH . 
P 5 HOH C 17 1617 45 HOH HOH . 
P 5 HOH C 18 1618 15 HOH HOH . 
P 5 HOH C 19 1619 21 HOH HOH . 
P 5 HOH C 20 1620 172 HOH HOH . 
P 5 HOH C 21 1621 142 HOH HOH . 
P 5 HOH C 22 1622 119 HOH HOH . 
P 5 HOH C 23 1623 41 HOH HOH . 
P 5 HOH C 24 1624 82 HOH HOH . 
P 5 HOH C 25 1625 77 HOH HOH . 
P 5 HOH C 26 1626 40 HOH HOH . 
P 5 HOH C 27 1627 32 HOH HOH . 
P 5 HOH C 28 1628 68 HOH HOH . 
P 5 HOH C 29 1629 84 HOH HOH . 
P 5 HOH C 30 1630 59 HOH HOH . 
P 5 HOH C 31 1631 168 HOH HOH . 
P 5 HOH C 32 1632 27 HOH HOH . 
P 5 HOH C 33 1633 11 HOH HOH . 
P 5 HOH C 34 1634 52 HOH HOH . 
P 5 HOH C 35 1635 109 HOH HOH . 
P 5 HOH C 36 1636 72 HOH HOH . 
P 5 HOH C 37 1637 173 HOH HOH . 
P 5 HOH C 38 1638 164 HOH HOH . 
P 5 HOH C 39 1639 38 HOH HOH . 
P 5 HOH C 40 1640 133 HOH HOH . 
P 5 HOH C 41 1641 165 HOH HOH . 
P 5 HOH C 42 1642 25 HOH HOH . 
P 5 HOH C 43 1643 86 HOH HOH . 
P 5 HOH C 44 1644 1 HOH HOH . 
P 5 HOH C 45 1645 131 HOH HOH . 
P 5 HOH C 46 1646 65 HOH HOH . 
P 5 HOH C 47 1647 70 HOH HOH . 
P 5 HOH C 48 1648 152 HOH HOH . 
P 5 HOH C 49 1649 111 HOH HOH . 
P 5 HOH C 50 1650 85 HOH HOH . 
P 5 HOH C 51 1651 108 HOH HOH . 
P 5 HOH C 52 1652 130 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           ZN 
_atom_site.label_atom_id         ZN 
_atom_site.label_comp_id         ZN 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         G 
_atom_site.label_entity_id       2 
_atom_site.Cartn_x               -30.484 
_atom_site.Cartn_y               25.027 
_atom_site.Cartn_z               5.304 
_atom_site.occupancy             0.5 
_atom_site.B_iso_or_equiv        48.86 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          ZN 
_atom_site.auth_comp_id          ZN 
_atom_site.auth_seq_id           1501 
_atom_site.auth_asym_id          B 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           271 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           1 
#