data_5RKH # _model_server_result.job_id qKs6TPo-ihRDgDmj_maiIw _model_server_result.datetime_utc '2024-11-23 21:31:18' _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 5rkh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1501}' # _entry.id 5RKH # _exptl.entry_id 5RKH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 249.329 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-(4-methylphenoxy)-1-(4-methylpiperazin-4-ium-1-yl)ethanone _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 99.86 _cell.angle_gamma 90 _cell.entry_id 5RKH _cell.length_a 81.623 _cell.length_b 27.656 _cell.length_c 55.878 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5RKH _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C14 H21 N2 O2 1' _chem_comp.formula_weight 249.329 _chem_comp.id LPZ _chem_comp.mon_nstd_flag . _chem_comp.name 2-(4-methylphenoxy)-1-(4-methylpiperazin-4-ium-1-yl)ethanone _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C C1 LPZ sing 194 n n C1 C2 LPZ doub 195 n y C1 C6 LPZ sing 196 n y C2 C3 LPZ sing 197 n y C6 C5 LPZ doub 198 n y C3 C4 LPZ doub 199 n y C5 C4 LPZ sing 200 n y C4 O LPZ sing 201 n n O C7 LPZ sing 202 n n O1 C8 LPZ doub 203 n n C7 C8 LPZ sing 204 n n C8 N LPZ sing 205 n n N C12 LPZ sing 206 n n N C9 LPZ sing 207 n n C11 C12 LPZ sing 208 n n C11 N1 LPZ sing 209 n n C10 C9 LPZ sing 210 n n C10 N1 LPZ sing 211 n n C13 N1 LPZ sing 212 n n N1 H1 LPZ sing 213 n n C5 H2 LPZ sing 214 n n C6 H3 LPZ sing 215 n n C7 H4 LPZ sing 216 n n C7 H5 LPZ sing 217 n n C10 H6 LPZ sing 218 n n C10 H7 LPZ sing 219 n n C13 H8 LPZ sing 220 n n C13 H9 LPZ sing 221 n n C13 H10 LPZ sing 222 n n C H11 LPZ sing 223 n n C H12 LPZ sing 224 n n C H13 LPZ sing 225 n n C11 H14 LPZ sing 226 n n C11 H15 LPZ sing 227 n n C12 H16 LPZ sing 228 n n C12 H17 LPZ sing 229 n n C2 H18 LPZ sing 230 n n C3 H19 LPZ sing 231 n n C9 H20 LPZ sing 232 n n C9 H21 LPZ sing 233 n n # _atom_sites.entry_id 5RKH _atom_sites.fract_transf_matrix[1][1] 0.012251 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002129 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.036159 _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] 0.018164 _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 LPZ A 1 1501 1501 LPZ LIG . C 3 HOH A 1 1601 195 HOH HOH . C 3 HOH A 2 1602 206 HOH HOH . C 3 HOH A 3 1603 205 HOH HOH . C 3 HOH A 4 1604 89 HOH HOH . C 3 HOH A 5 1605 85 HOH HOH . C 3 HOH A 6 1606 197 HOH HOH . C 3 HOH A 7 1607 17 HOH HOH . C 3 HOH A 8 1608 129 HOH HOH . C 3 HOH A 9 1609 7 HOH HOH . C 3 HOH A 10 1610 135 HOH HOH . C 3 HOH A 11 1611 83 HOH HOH . C 3 HOH A 12 1612 121 HOH HOH . C 3 HOH A 13 1613 204 HOH HOH . C 3 HOH A 14 1614 2 HOH HOH . C 3 HOH A 15 1615 50 HOH HOH . C 3 HOH A 16 1616 33 HOH HOH . C 3 HOH A 17 1617 145 HOH HOH . C 3 HOH A 18 1618 210 HOH HOH . C 3 HOH A 19 1619 42 HOH HOH . C 3 HOH A 20 1620 124 HOH HOH . C 3 HOH A 21 1621 98 HOH HOH . C 3 HOH A 22 1622 12 HOH HOH . C 3 HOH A 23 1623 161 HOH HOH . C 3 HOH A 24 1624 160 HOH HOH . C 3 HOH A 25 1625 138 HOH HOH . C 3 HOH A 26 1626 31 HOH HOH . C 3 HOH A 27 1627 131 HOH HOH . C 3 HOH A 28 1628 184 HOH HOH . C 3 HOH A 29 1629 25 HOH HOH . C 3 HOH A 30 1630 101 HOH HOH . C 3 HOH A 31 1631 158 HOH HOH . C 3 HOH A 32 1632 60 HOH HOH . C 3 HOH A 33 1633 94 HOH HOH . C 3 HOH A 34 1634 9 HOH HOH . C 3 HOH A 35 1635 20 HOH HOH . C 3 HOH A 36 1636 70 HOH HOH . C 3 HOH A 37 1637 177 HOH HOH . C 3 HOH A 38 1638 151 HOH HOH . C 3 HOH A 39 1639 36 HOH HOH . C 3 HOH A 40 1640 143 HOH HOH . C 3 HOH A 41 1641 45 HOH HOH . C 3 HOH A 42 1642 4 HOH HOH . C 3 HOH A 43 1643 91 HOH HOH . C 3 HOH A 44 1644 92 HOH HOH . C 3 HOH A 45 1645 14 HOH HOH . C 3 HOH A 46 1646 39 HOH HOH . C 3 HOH A 47 1647 76 HOH HOH . C 3 HOH A 48 1648 1 HOH HOH . C 3 HOH A 49 1649 176 HOH HOH . C 3 HOH A 50 1650 3 HOH HOH . C 3 HOH A 51 1651 55 HOH HOH . C 3 HOH A 52 1652 187 HOH HOH . C 3 HOH A 53 1653 182 HOH HOH . C 3 HOH A 54 1654 59 HOH HOH . C 3 HOH A 55 1655 16 HOH HOH . C 3 HOH A 56 1656 35 HOH HOH . C 3 HOH A 57 1657 64 HOH HOH . C 3 HOH A 58 1658 159 HOH HOH . C 3 HOH A 59 1659 122 HOH HOH . C 3 HOH A 60 1660 144 HOH HOH . C 3 HOH A 61 1661 213 HOH HOH . C 3 HOH A 62 1662 140 HOH HOH . C 3 HOH A 63 1663 62 HOH HOH . C 3 HOH A 64 1664 82 HOH HOH . C 3 HOH A 65 1665 52 HOH HOH . C 3 HOH A 66 1666 11 HOH HOH . C 3 HOH A 67 1667 113 HOH HOH . C 3 HOH A 68 1668 28 HOH HOH . C 3 HOH A 69 1669 139 HOH HOH . C 3 HOH A 70 1670 48 HOH HOH . C 3 HOH A 71 1671 27 HOH HOH . C 3 HOH A 72 1672 137 HOH HOH . C 3 HOH A 73 1673 8 HOH HOH . C 3 HOH A 74 1674 5 HOH HOH . C 3 HOH A 75 1675 142 HOH HOH . C 3 HOH A 76 1676 141 HOH HOH . C 3 HOH A 77 1677 128 HOH HOH . C 3 HOH A 78 1678 119 HOH HOH . C 3 HOH A 79 1679 77 HOH HOH . C 3 HOH A 80 1680 58 HOH HOH . C 3 HOH A 81 1681 6 HOH HOH . C 3 HOH A 82 1682 180 HOH HOH . C 3 HOH A 83 1683 21 HOH HOH . C 3 HOH A 84 1684 54 HOH HOH . C 3 HOH A 85 1685 80 HOH HOH . C 3 HOH A 86 1686 40 HOH HOH . C 3 HOH A 87 1687 18 HOH HOH . C 3 HOH A 88 1688 29 HOH HOH . C 3 HOH A 89 1689 75 HOH HOH . C 3 HOH A 90 1690 86 HOH HOH . C 3 HOH A 91 1691 71 HOH HOH . C 3 HOH A 92 1692 69 HOH HOH . C 3 HOH A 93 1693 63 HOH HOH . C 3 HOH A 94 1694 130 HOH HOH . C 3 HOH A 95 1695 65 HOH HOH . C 3 HOH A 96 1696 43 HOH HOH . C 3 HOH A 97 1697 19 HOH HOH . C 3 HOH A 98 1698 178 HOH HOH . C 3 HOH A 99 1699 23 HOH HOH . C 3 HOH A 100 1700 108 HOH HOH . C 3 HOH A 101 1701 125 HOH HOH . C 3 HOH A 102 1702 191 HOH HOH . C 3 HOH A 103 1703 15 HOH HOH . C 3 HOH A 104 1704 174 HOH HOH . C 3 HOH A 105 1705 157 HOH HOH . C 3 HOH A 106 1706 13 HOH HOH . C 3 HOH A 107 1707 38 HOH HOH . C 3 HOH A 108 1708 116 HOH HOH . C 3 HOH A 109 1709 88 HOH HOH . C 3 HOH A 110 1710 67 HOH HOH . C 3 HOH A 111 1711 49 HOH HOH . C 3 HOH A 112 1712 81 HOH HOH . C 3 HOH A 113 1713 44 HOH HOH . C 3 HOH A 114 1714 37 HOH HOH . C 3 HOH A 115 1715 152 HOH HOH . C 3 HOH A 116 1716 53 HOH HOH . C 3 HOH A 117 1717 24 HOH HOH . C 3 HOH A 118 1718 72 HOH HOH . C 3 HOH A 119 1719 211 HOH HOH . C 3 HOH A 120 1720 117 HOH HOH . C 3 HOH A 121 1721 22 HOH HOH . C 3 HOH A 122 1722 32 HOH HOH . C 3 HOH A 123 1723 99 HOH HOH . C 3 HOH A 124 1724 127 HOH HOH . C 3 HOH A 125 1725 134 HOH HOH . C 3 HOH A 126 1726 208 HOH HOH . C 3 HOH A 127 1727 57 HOH HOH . C 3 HOH A 128 1728 118 HOH HOH . C 3 HOH A 129 1729 34 HOH HOH . C 3 HOH A 130 1730 96 HOH HOH . C 3 HOH A 131 1731 84 HOH HOH . C 3 HOH A 132 1732 10 HOH HOH . C 3 HOH A 133 1733 126 HOH HOH . C 3 HOH A 134 1734 136 HOH HOH . C 3 HOH A 135 1735 120 HOH HOH . C 3 HOH A 136 1736 109 HOH HOH . C 3 HOH A 137 1737 165 HOH HOH . C 3 HOH A 138 1738 95 HOH HOH . C 3 HOH A 139 1739 13 HOH HOH . C 3 HOH A 140 1740 90 HOH HOH . C 3 HOH A 141 1741 175 HOH HOH . C 3 HOH A 142 1742 173 HOH HOH . C 3 HOH A 143 1743 123 HOH HOH . C 3 HOH A 144 1744 100 HOH HOH . C 3 HOH A 145 1745 104 HOH HOH . C 3 HOH A 146 1746 166 HOH HOH . C 3 HOH A 147 1747 1 HOH HOH . C 3 HOH A 148 1748 105 HOH HOH . C 3 HOH A 149 1749 153 HOH HOH . C 3 HOH A 150 1750 154 HOH HOH . C 3 HOH A 151 1751 185 HOH HOH . C 3 HOH A 152 1752 181 HOH HOH . C 3 HOH A 153 1753 150 HOH HOH . C 3 HOH A 154 1754 8 HOH HOH . C 3 HOH A 155 1755 172 HOH HOH . C 3 HOH A 156 1756 198 HOH HOH . C 3 HOH A 157 1757 66 HOH HOH . C 3 HOH A 158 1758 19 HOH HOH . C 3 HOH A 159 1759 3 HOH HOH . C 3 HOH A 160 1760 9 HOH HOH . C 3 HOH A 161 1761 114 HOH HOH . C 3 HOH A 162 1762 107 HOH HOH . C 3 HOH A 163 1763 133 HOH HOH . C 3 HOH A 164 1764 61 HOH HOH . C 3 HOH A 165 1765 190 HOH HOH . C 3 HOH A 166 1766 14 HOH HOH . C 3 HOH A 167 1767 30 HOH HOH . C 3 HOH A 168 1768 112 HOH HOH . C 3 HOH A 169 1769 199 HOH HOH . C 3 HOH A 170 1770 156 HOH HOH . C 3 HOH A 171 1771 115 HOH HOH . C 3 HOH A 172 1772 186 HOH HOH . C 3 HOH A 173 1773 51 HOH HOH . C 3 HOH A 174 1774 170 HOH HOH . C 3 HOH A 175 1775 12 HOH HOH . C 3 HOH A 176 1776 16 HOH HOH . C 3 HOH A 177 1777 6 HOH HOH . C 3 HOH A 178 1778 188 HOH HOH . C 3 HOH A 179 1779 18 HOH HOH . C 3 HOH A 180 1780 41 HOH HOH . C 3 HOH A 181 1781 46 HOH HOH . C 3 HOH A 182 1782 102 HOH HOH . C 3 HOH A 183 1783 212 HOH HOH . C 3 HOH A 184 1784 5 HOH HOH . C 3 HOH A 185 1785 193 HOH HOH . C 3 HOH A 186 1786 110 HOH HOH . C 3 HOH A 187 1787 11 HOH HOH . C 3 HOH A 188 1788 4 HOH HOH . C 3 HOH A 189 1789 78 HOH HOH . C 3 HOH A 190 1790 68 HOH HOH . C 3 HOH A 191 1791 201 HOH HOH . C 3 HOH A 192 1792 73 HOH HOH . C 3 HOH A 193 1793 7 HOH HOH . C 3 HOH A 194 1794 103 HOH HOH . C 3 HOH A 195 1795 200 HOH HOH . C 3 HOH A 196 1796 196 HOH HOH . C 3 HOH A 197 1797 148 HOH HOH . C 3 HOH A 198 1798 17 HOH HOH . C 3 HOH A 199 1799 111 HOH HOH . C 3 HOH A 200 1800 168 HOH HOH . C 3 HOH A 201 1801 189 HOH HOH . C 3 HOH A 202 1802 192 HOH HOH . C 3 HOH A 203 1803 87 HOH HOH . C 3 HOH A 204 1804 15 HOH HOH . C 3 HOH A 205 1805 97 HOH HOH . C 3 HOH A 206 1806 203 HOH HOH . C 3 HOH A 207 1807 79 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 N N1 LPZ . . . B 2 -24.192 18.191 31.045 0.62 9.74 ? N1 LPZ 1501 A 1 HETATM 2 C C4 LPZ . . . B 2 -23.441 12.867 27.428 0.62 12.26 ? C4 LPZ 1501 A 1 HETATM 3 C C5 LPZ . . . B 2 -23.226 12.179 26.243 0.62 12.88 ? C5 LPZ 1501 A 1 HETATM 4 C C6 LPZ . . . B 2 -21.952 12.099 25.714 0.62 13.32 ? C6 LPZ 1501 A 1 HETATM 5 C C7 LPZ . . . B 2 -25.188 13.77 28.81 0.62 10.03 ? C7 LPZ 1501 A 1 HETATM 6 C C8 LPZ . . . B 2 -25.168 15.229 28.296 0.62 9.39 ? C8 LPZ 1501 A 1 HETATM 7 C C10 LPZ . . . B 2 -24.211 16.748 31.466 0.62 9.78 ? C10 LPZ 1501 A 1 HETATM 8 C C13 LPZ . . . B 2 -23.178 18.875 31.863 0.62 10.26 ? C13 LPZ 1501 A 1 HETATM 9 N N LPZ . . . B 2 -25.137 16.244 29.23 0.62 8.85 ? N LPZ 1501 A 1 HETATM 10 C C LPZ . . . B 2 -19.538 12.685 25.725 0.62 13.93 ? C LPZ 1501 A 1 HETATM 11 O O LPZ . . . B 2 -24.785 12.955 27.758 0.62 11.16 ? O LPZ 1501 A 1 HETATM 12 C C1 LPZ . . . B 2 -20.889 12.714 26.366 0.62 13.26 ? C1 LPZ 1501 A 1 HETATM 13 C C11 LPZ . . . B 2 -23.915 18.366 29.574 0.62 8.95 ? C11 LPZ 1501 A 1 HETATM 14 C C12 LPZ . . . B 2 -25.066 17.683 28.802 0.62 8.68 ? C12 LPZ 1501 A 1 HETATM 15 C C2 LPZ . . . B 2 -21.09 13.392 27.583 0.62 12.96 ? C2 LPZ 1501 A 1 HETATM 16 C C3 LPZ . . . B 2 -22.371 13.466 28.135 0.62 12.47 ? C3 LPZ 1501 A 1 HETATM 17 C C9 LPZ . . . B 2 -25.298 15.985 30.679 0.62 9.68 ? C9 LPZ 1501 A 1 HETATM 18 O O1 LPZ . . . B 2 -25.2 15.508 27.104 0.62 8.73 ? O1 LPZ 1501 A 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 18 #