data_2VA7
#
_model_server_result.job_id            E4mnyZfhOYuvWNiTfcTulQ 
_model_server_result.datetime_utc      '2024-10-18 06:18:33' 
_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          2va7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1504}' 
#
_entry.id    2VA7 
#
_exptl.entry_id    2VA7 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              126.904 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'IODIDE 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         120 
_cell.entry_id            2VA7 
_cell.length_a            102.687 
_cell.length_b            102.687 
_cell.length_c            168.34 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2VA7 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 61 2 2' 
#
_pdbx_struct_assembly.method_details        PQS 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 12_555 x,x-y,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 28.056667 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 B N N 
? 2 C N N 
? 2 D 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
disulf ? disulf1 A SG CYS 218 A CYS 155 1_555 A SG CYS 422 A CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? 
disulf ? disulf2 A SG CYS 280 A CYS 217 1_555 A SG CYS 445 A CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? 
disulf ? disulf3 A SG CYS 332 A CYS 269 1_555 A SG CYS 382 A CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
#
_chem_comp.formula           'I -1' 
_chem_comp.formula_weight    126.904 
_chem_comp.id                IOD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'IODIDE ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     2VA7 
_atom_sites.fract_transf_matrix[1][1]    0.009738 
_atom_sites.fract_transf_matrix[1][2]    0.005622 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011245 
_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]    0.00594 
_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 IOD A 1 1502 1502 IOD IOD . 
C 2 IOD A 1 1503 1503 IOD IOD . 
D 2 IOD A 1 1504 1504 IOD IOD . 
E 3 C27 A 1 1505 1505 C27 C27 . 
F 4 HOH A 1 1506 1506 HOH HOH . 
F 4 HOH A 2 1508 1508 HOH HOH . 
F 4 HOH A 3 1510 1510 HOH HOH . 
F 4 HOH A 4 1511 1511 HOH HOH . 
F 4 HOH A 5 1512 1512 HOH HOH . 
F 4 HOH A 6 1513 1513 HOH HOH . 
F 4 HOH A 7 1514 1514 HOH HOH . 
F 4 HOH A 8 1516 1516 HOH HOH . 
F 4 HOH A 9 1517 1517 HOH HOH . 
F 4 HOH A 10 1518 1518 HOH HOH . 
F 4 HOH A 11 1519 1519 HOH HOH . 
F 4 HOH A 12 1520 1520 HOH HOH . 
F 4 HOH A 13 1521 1521 HOH HOH . 
F 4 HOH A 14 1522 1522 HOH HOH . 
F 4 HOH A 15 1523 1523 HOH HOH . 
F 4 HOH A 16 1524 1524 HOH HOH . 
F 4 HOH A 17 1525 1525 HOH HOH . 
F 4 HOH A 18 1526 1526 HOH HOH . 
F 4 HOH A 19 1527 1527 HOH HOH . 
F 4 HOH A 20 1528 1528 HOH HOH . 
F 4 HOH A 21 1529 1529 HOH HOH . 
F 4 HOH A 22 1530 1530 HOH HOH . 
F 4 HOH A 23 1531 1531 HOH HOH . 
F 4 HOH A 24 1532 1532 HOH HOH . 
F 4 HOH A 25 1533 1533 HOH HOH . 
F 4 HOH A 26 1534 1534 HOH HOH . 
F 4 HOH A 27 1535 1535 HOH HOH . 
F 4 HOH A 28 1536 1536 HOH HOH . 
F 4 HOH A 29 1537 1537 HOH HOH . 
F 4 HOH A 30 1538 1538 HOH HOH . 
F 4 HOH A 31 1539 1539 HOH HOH . 
F 4 HOH A 32 1540 1540 HOH HOH . 
F 4 HOH A 33 1541 1541 HOH HOH . 
F 4 HOH A 34 1542 1542 HOH HOH . 
F 4 HOH A 35 1543 1543 HOH HOH . 
F 4 HOH A 36 1544 1544 HOH HOH . 
F 4 HOH A 37 1545 1545 HOH HOH . 
F 4 HOH A 38 1546 1546 HOH HOH . 
F 4 HOH A 39 1547 1547 HOH HOH . 
F 4 HOH A 40 1548 1548 HOH HOH . 
F 4 HOH A 41 1549 1549 HOH HOH . 
F 4 HOH A 42 1550 1550 HOH HOH . 
F 4 HOH A 43 1551 1551 HOH HOH . 
F 4 HOH A 44 1552 1552 HOH HOH . 
F 4 HOH A 45 1553 1553 HOH HOH . 
F 4 HOH A 46 1554 1554 HOH HOH . 
F 4 HOH A 47 1556 1556 HOH HOH . 
F 4 HOH A 48 1557 1557 HOH HOH . 
F 4 HOH A 49 1558 1558 HOH HOH . 
F 4 HOH A 50 1559 1559 HOH HOH . 
F 4 HOH A 51 1560 1560 HOH HOH . 
F 4 HOH A 52 1561 1561 HOH HOH . 
F 4 HOH A 53 1562 1562 HOH HOH . 
F 4 HOH A 54 1563 1563 HOH HOH . 
F 4 HOH A 55 1564 1564 HOH HOH . 
F 4 HOH A 56 1565 1565 HOH HOH . 
F 4 HOH A 57 1566 1566 HOH HOH . 
F 4 HOH A 58 1568 1568 HOH HOH . 
F 4 HOH A 59 1569 1569 HOH HOH . 
F 4 HOH A 60 1570 1570 HOH HOH . 
F 4 HOH A 61 1571 1571 HOH HOH . 
F 4 HOH A 62 1573 1573 HOH HOH . 
F 4 HOH A 63 1575 1575 HOH HOH . 
F 4 HOH A 64 1576 1576 HOH HOH . 
F 4 HOH A 65 1577 1577 HOH HOH . 
F 4 HOH A 66 1578 1578 HOH HOH . 
F 4 HOH A 67 1579 1579 HOH HOH . 
F 4 HOH A 68 1580 1580 HOH HOH . 
F 4 HOH A 69 1581 1581 HOH HOH . 
F 4 HOH A 70 1582 1582 HOH HOH . 
F 4 HOH A 71 1584 1584 HOH HOH . 
F 4 HOH A 72 1586 1586 HOH HOH . 
F 4 HOH A 73 1587 1587 HOH HOH . 
F 4 HOH A 74 1588 1588 HOH HOH . 
F 4 HOH A 75 1589 1589 HOH HOH . 
F 4 HOH A 76 1590 1590 HOH HOH . 
F 4 HOH A 77 1591 1591 HOH HOH . 
F 4 HOH A 78 1592 1592 HOH HOH . 
F 4 HOH A 79 1593 1593 HOH HOH . 
F 4 HOH A 80 1594 1594 HOH HOH . 
F 4 HOH A 81 1595 1595 HOH HOH . 
F 4 HOH A 82 1596 1596 HOH HOH . 
F 4 HOH A 83 1597 1597 HOH HOH . 
F 4 HOH A 84 1601 1601 HOH HOH . 
F 4 HOH A 85 1602 1602 HOH HOH . 
F 4 HOH A 86 1603 1603 HOH HOH . 
F 4 HOH A 87 1604 1604 HOH HOH . 
F 4 HOH A 88 1605 1605 HOH HOH . 
F 4 HOH A 89 1606 1606 HOH HOH . 
F 4 HOH A 90 1607 1607 HOH HOH . 
F 4 HOH A 91 1608 1608 HOH HOH . 
F 4 HOH A 92 1609 1609 HOH HOH . 
F 4 HOH A 93 1610 1610 HOH HOH . 
F 4 HOH A 94 1611 1611 HOH HOH . 
F 4 HOH A 95 1613 1613 HOH HOH . 
F 4 HOH A 96 1614 1614 HOH HOH . 
F 4 HOH A 97 1616 1616 HOH HOH . 
F 4 HOH A 98 1617 1617 HOH HOH . 
F 4 HOH A 99 1618 1618 HOH HOH . 
F 4 HOH A 100 1619 1619 HOH HOH . 
F 4 HOH A 101 1620 1620 HOH HOH . 
F 4 HOH A 102 1621 1621 HOH HOH . 
F 4 HOH A 103 1624 1624 HOH HOH . 
F 4 HOH A 104 1625 1625 HOH HOH . 
F 4 HOH A 105 1626 1626 HOH HOH . 
F 4 HOH A 106 1628 1628 HOH HOH . 
F 4 HOH A 107 1629 1629 HOH HOH . 
F 4 HOH A 108 1631 1631 HOH HOH . 
F 4 HOH A 109 1632 1632 HOH HOH . 
F 4 HOH A 110 1633 1633 HOH HOH . 
F 4 HOH A 111 1634 1634 HOH HOH . 
F 4 HOH A 112 1635 1635 HOH HOH . 
F 4 HOH A 113 1636 1636 HOH HOH . 
F 4 HOH A 114 1637 1637 HOH HOH . 
F 4 HOH A 115 1638 1638 HOH HOH . 
F 4 HOH A 116 1639 1639 HOH HOH . 
F 4 HOH A 117 1640 1640 HOH HOH . 
F 4 HOH A 118 1641 1641 HOH HOH . 
F 4 HOH A 119 1643 1643 HOH HOH . 
F 4 HOH A 120 1644 1644 HOH HOH . 
F 4 HOH A 121 1645 1645 HOH HOH . 
F 4 HOH A 122 1646 1646 HOH HOH . 
F 4 HOH A 123 1648 1648 HOH HOH . 
F 4 HOH A 124 1649 1649 HOH HOH . 
F 4 HOH A 125 1650 1650 HOH HOH . 
F 4 HOH A 126 1651 1651 HOH HOH . 
F 4 HOH A 127 1652 1652 HOH HOH . 
F 4 HOH A 128 1653 1653 HOH HOH . 
F 4 HOH A 129 1654 1654 HOH HOH . 
F 4 HOH A 130 1655 1655 HOH HOH . 
F 4 HOH A 131 1656 1656 HOH HOH . 
F 4 HOH A 132 1657 1657 HOH HOH . 
F 4 HOH A 133 1658 1658 HOH HOH . 
F 4 HOH A 134 1659 1659 HOH HOH . 
F 4 HOH A 135 1661 1661 HOH HOH . 
F 4 HOH A 136 1662 1662 HOH HOH . 
F 4 HOH A 137 1663 1663 HOH HOH . 
F 4 HOH A 138 1664 1664 HOH HOH . 
F 4 HOH A 139 1665 1665 HOH HOH . 
F 4 HOH A 140 1666 1666 HOH HOH . 
F 4 HOH A 141 1667 1667 HOH HOH . 
F 4 HOH A 142 1668 1668 HOH HOH . 
F 4 HOH A 143 1669 1669 HOH HOH . 
F 4 HOH A 144 1670 1670 HOH HOH . 
F 4 HOH A 145 1671 1671 HOH HOH . 
F 4 HOH A 146 1672 1672 HOH HOH . 
F 4 HOH A 147 1673 1673 HOH HOH . 
F 4 HOH A 148 1674 1674 HOH HOH . 
F 4 HOH A 149 1675 1675 HOH HOH . 
F 4 HOH A 150 1677 1677 HOH HOH . 
F 4 HOH A 151 1678 1678 HOH HOH . 
F 4 HOH A 152 1679 1679 HOH HOH . 
F 4 HOH A 153 1681 1681 HOH HOH . 
F 4 HOH A 154 1682 1682 HOH HOH . 
F 4 HOH A 155 1683 1683 HOH HOH . 
F 4 HOH A 156 1684 1684 HOH HOH . 
F 4 HOH A 157 1688 1688 HOH HOH . 
F 4 HOH A 158 1690 1690 HOH HOH . 
F 4 HOH A 159 1691 1691 HOH HOH . 
F 4 HOH A 160 1694 1694 HOH HOH . 
F 4 HOH A 161 1695 1695 HOH HOH . 
F 4 HOH A 162 1696 1696 HOH HOH . 
F 4 HOH A 163 1698 1698 HOH HOH . 
F 4 HOH A 164 1699 1699 HOH HOH . 
F 4 HOH A 165 1700 1700 HOH HOH . 
F 4 HOH A 166 1701 1701 HOH HOH . 
F 4 HOH A 167 1702 1702 HOH HOH . 
F 4 HOH A 168 1703 1703 HOH HOH . 
F 4 HOH A 169 1704 1704 HOH HOH . 
F 4 HOH A 170 1705 1705 HOH HOH . 
F 4 HOH A 171 1706 1706 HOH HOH . 
F 4 HOH A 172 1707 1707 HOH HOH . 
F 4 HOH A 173 1710 1710 HOH HOH . 
F 4 HOH A 174 1712 1712 HOH HOH . 
F 4 HOH A 175 1713 1713 HOH HOH . 
F 4 HOH A 176 1714 1714 HOH HOH . 
F 4 HOH A 177 1715 1715 HOH HOH . 
F 4 HOH A 178 1716 1716 HOH HOH . 
F 4 HOH A 179 1718 1718 HOH HOH . 
F 4 HOH A 180 1719 1719 HOH HOH . 
F 4 HOH A 181 1720 1720 HOH HOH . 
F 4 HOH A 182 1721 1721 HOH HOH . 
F 4 HOH A 183 1722 1722 HOH HOH . 
F 4 HOH A 184 1724 1724 HOH HOH . 
F 4 HOH A 185 1725 1725 HOH HOH . 
F 4 HOH A 186 1727 1727 HOH HOH . 
F 4 HOH A 187 1729 1729 HOH HOH . 
F 4 HOH A 188 1730 1730 HOH HOH . 
F 4 HOH A 189 1731 1731 HOH HOH . 
F 4 HOH A 190 1732 1732 HOH HOH . 
F 4 HOH A 191 1733 1733 HOH HOH . 
F 4 HOH A 192 1734 1734 HOH HOH . 
F 4 HOH A 193 1735 1735 HOH HOH . 
F 4 HOH A 194 1736 1736 HOH HOH . 
F 4 HOH A 195 1737 1737 HOH HOH . 
F 4 HOH A 196 1738 1738 HOH HOH . 
F 4 HOH A 197 1739 1739 HOH HOH . 
F 4 HOH A 198 1740 1740 HOH HOH . 
F 4 HOH A 199 1741 1741 HOH HOH . 
F 4 HOH A 200 1742 1742 HOH HOH . 
F 4 HOH A 201 1743 1743 HOH HOH . 
F 4 HOH A 202 1744 1744 HOH HOH . 
F 4 HOH A 203 1745 1745 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           I 
_atom_site.label_atom_id         I 
_atom_site.label_comp_id         IOD 
_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       2 
_atom_site.Cartn_x               51.08 
_atom_site.Cartn_y               57.773 
_atom_site.Cartn_z               -12.876 
_atom_site.occupancy             0.25 
_atom_site.B_iso_or_equiv        50.5 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          I 
_atom_site.auth_comp_id          IOD 
_atom_site.auth_seq_id           1504 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              51 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    25 
_model_server_stats.query_time_ms           276 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           1 
#