data_8YFM # _model_server_result.job_id TtyhDw6brsXgvnnPFroMjA _model_server_result.datetime_utc '2024-11-15 13:24:42' _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 8yfm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1601}' # _entry.id 8YFM # _exptl.entry_id 8YFM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 90 _cell.angle_gamma 120 _cell.entry_id 8YFM _cell.length_a 61.072 _cell.length_b 61.072 _cell.length_c 65.302 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8YFM _symmetry.cell_setting ? _symmetry.Int_Tables_number 145 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,B,E,G,H 1 1 C,D,F,I,J 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 covale ? covale1 B C THR 4 B THR 102 1_555 B N SEP 5 B SEP 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 B C SEP 5 B SEP 103 1_555 B N SER 6 B SER 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 D C THR 4 E THR 102 1_555 D N SEP 5 E SEP 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale4 D C SEP 5 E SEP 103 1_555 D N SER 6 E SER 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 C1 O1 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 8YFM _atom_sites.fract_transf_matrix[1][1] 0.016374 _atom_sites.fract_transf_matrix[1][2] 0.009454 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018907 _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] 0.015313 _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 E 3 SO4 A 1 1601 1 SO4 SO4 . F 4 GOL D 1 1601 1601 GOL GOL . G 5 HOH A 1 1701 234 HOH HOH . G 5 HOH A 2 1702 110 HOH HOH . G 5 HOH A 3 1703 191 HOH HOH . G 5 HOH A 4 1704 219 HOH HOH . G 5 HOH A 5 1705 149 HOH HOH . G 5 HOH A 6 1706 150 HOH HOH . G 5 HOH A 7 1707 53 HOH HOH . G 5 HOH A 8 1708 196 HOH HOH . G 5 HOH A 9 1709 228 HOH HOH . G 5 HOH A 10 1710 96 HOH HOH . G 5 HOH A 11 1711 37 HOH HOH . G 5 HOH A 12 1712 43 HOH HOH . G 5 HOH A 13 1713 34 HOH HOH . G 5 HOH A 14 1714 67 HOH HOH . G 5 HOH A 15 1715 128 HOH HOH . G 5 HOH A 16 1716 19 HOH HOH . G 5 HOH A 17 1717 46 HOH HOH . G 5 HOH A 18 1718 138 HOH HOH . G 5 HOH A 19 1719 76 HOH HOH . G 5 HOH A 20 1720 172 HOH HOH . G 5 HOH A 21 1721 107 HOH HOH . G 5 HOH A 22 1722 122 HOH HOH . G 5 HOH A 23 1723 106 HOH HOH . G 5 HOH A 24 1724 156 HOH HOH . G 5 HOH A 25 1725 141 HOH HOH . G 5 HOH A 26 1726 181 HOH HOH . G 5 HOH A 27 1727 80 HOH HOH . G 5 HOH A 28 1728 116 HOH HOH . G 5 HOH A 29 1729 25 HOH HOH . G 5 HOH A 30 1730 225 HOH HOH . G 5 HOH A 31 1731 60 HOH HOH . G 5 HOH A 32 1732 66 HOH HOH . G 5 HOH A 33 1733 18 HOH HOH . G 5 HOH A 34 1734 58 HOH HOH . G 5 HOH A 35 1735 2 HOH HOH . G 5 HOH A 36 1736 3 HOH HOH . G 5 HOH A 37 1737 126 HOH HOH . G 5 HOH A 38 1738 32 HOH HOH . G 5 HOH A 39 1739 8 HOH HOH . G 5 HOH A 40 1740 14 HOH HOH . G 5 HOH A 41 1741 73 HOH HOH . G 5 HOH A 42 1742 45 HOH HOH . G 5 HOH A 43 1743 55 HOH HOH . G 5 HOH A 44 1744 38 HOH HOH . G 5 HOH A 45 1745 93 HOH HOH . G 5 HOH A 46 1746 65 HOH HOH . G 5 HOH A 47 1747 56 HOH HOH . G 5 HOH A 48 1748 185 HOH HOH . G 5 HOH A 49 1749 155 HOH HOH . G 5 HOH A 50 1750 169 HOH HOH . G 5 HOH A 51 1751 216 HOH HOH . G 5 HOH A 52 1752 10 HOH HOH . G 5 HOH A 53 1753 222 HOH HOH . G 5 HOH A 54 1754 127 HOH HOH . G 5 HOH A 55 1755 90 HOH HOH . G 5 HOH A 56 1756 44 HOH HOH . G 5 HOH A 57 1757 192 HOH HOH . G 5 HOH A 58 1758 168 HOH HOH . G 5 HOH A 59 1759 40 HOH HOH . G 5 HOH A 60 1760 140 HOH HOH . G 5 HOH A 61 1761 125 HOH HOH . G 5 HOH A 62 1762 105 HOH HOH . G 5 HOH A 63 1763 238 HOH HOH . G 5 HOH A 64 1764 182 HOH HOH . G 5 HOH A 65 1765 200 HOH HOH . G 5 HOH A 66 1766 17 HOH HOH . G 5 HOH A 67 1767 189 HOH HOH . G 5 HOH A 68 1768 75 HOH HOH . G 5 HOH A 69 1769 195 HOH HOH . G 5 HOH A 70 1770 31 HOH HOH . G 5 HOH A 71 1771 84 HOH HOH . G 5 HOH A 72 1772 97 HOH HOH . G 5 HOH A 73 1773 49 HOH HOH . G 5 HOH A 74 1774 187 HOH HOH . G 5 HOH A 75 1775 198 HOH HOH . G 5 HOH A 76 1776 103 HOH HOH . G 5 HOH A 77 1777 206 HOH HOH . G 5 HOH A 78 1778 87 HOH HOH . G 5 HOH A 79 1779 15 HOH HOH . G 5 HOH A 80 1780 237 HOH HOH . G 5 HOH A 81 1781 78 HOH HOH . G 5 HOH A 82 1782 27 HOH HOH . G 5 HOH A 83 1783 232 HOH HOH . G 5 HOH A 84 1784 214 HOH HOH . G 5 HOH A 85 1785 208 HOH HOH . G 5 HOH A 86 1786 109 HOH HOH . G 5 HOH A 87 1787 175 HOH HOH . G 5 HOH A 88 1788 240 HOH HOH . G 5 HOH A 89 1789 188 HOH HOH . G 5 HOH A 90 1790 179 HOH HOH . G 5 HOH A 91 1791 177 HOH HOH . G 5 HOH A 92 1792 117 HOH HOH . G 5 HOH A 93 1793 83 HOH HOH . G 5 HOH A 94 1794 89 HOH HOH . G 5 HOH A 95 1795 194 HOH HOH . G 5 HOH A 96 1796 26 HOH HOH . G 5 HOH A 97 1797 199 HOH HOH . G 5 HOH A 98 1798 137 HOH HOH . G 5 HOH A 99 1799 91 HOH HOH . G 5 HOH A 100 1800 54 HOH HOH . G 5 HOH A 101 1801 239 HOH HOH . G 5 HOH A 102 1802 250 HOH HOH . G 5 HOH A 103 1803 164 HOH HOH . G 5 HOH A 104 1804 119 HOH HOH . G 5 HOH A 105 1805 162 HOH HOH . G 5 HOH A 106 1806 135 HOH HOH . G 5 HOH A 107 1807 158 HOH HOH . G 5 HOH A 108 1808 215 HOH HOH . G 5 HOH A 109 1809 210 HOH HOH . H 5 HOH B 1 201 226 HOH HOH . H 5 HOH B 2 202 115 HOH HOH . H 5 HOH B 3 203 12 HOH HOH . H 5 HOH B 4 204 22 HOH HOH . H 5 HOH B 5 205 6 HOH HOH . H 5 HOH B 6 206 79 HOH HOH . H 5 HOH B 7 207 229 HOH HOH . H 5 HOH B 8 208 170 HOH HOH . I 5 HOH D 1 1701 133 HOH HOH . I 5 HOH D 2 1702 153 HOH HOH . I 5 HOH D 3 1703 207 HOH HOH . I 5 HOH D 4 1704 99 HOH HOH . I 5 HOH D 5 1705 211 HOH HOH . I 5 HOH D 6 1706 245 HOH HOH . I 5 HOH D 7 1707 174 HOH HOH . I 5 HOH D 8 1708 244 HOH HOH . I 5 HOH D 9 1709 52 HOH HOH . I 5 HOH D 10 1710 102 HOH HOH . I 5 HOH D 11 1711 209 HOH HOH . I 5 HOH D 12 1712 36 HOH HOH . I 5 HOH D 13 1713 47 HOH HOH . I 5 HOH D 14 1714 233 HOH HOH . I 5 HOH D 15 1715 42 HOH HOH . I 5 HOH D 16 1716 249 HOH HOH . I 5 HOH D 17 1717 68 HOH HOH . I 5 HOH D 18 1718 251 HOH HOH . I 5 HOH D 19 1719 131 HOH HOH . I 5 HOH D 20 1720 132 HOH HOH . I 5 HOH D 21 1721 123 HOH HOH . I 5 HOH D 22 1722 161 HOH HOH . I 5 HOH D 23 1723 29 HOH HOH . I 5 HOH D 24 1724 112 HOH HOH . I 5 HOH D 25 1725 171 HOH HOH . I 5 HOH D 26 1726 173 HOH HOH . I 5 HOH D 27 1727 9 HOH HOH . I 5 HOH D 28 1728 20 HOH HOH . I 5 HOH D 29 1729 142 HOH HOH . I 5 HOH D 30 1730 129 HOH HOH . I 5 HOH D 31 1731 30 HOH HOH . I 5 HOH D 32 1732 61 HOH HOH . I 5 HOH D 33 1733 184 HOH HOH . I 5 HOH D 34 1734 63 HOH HOH . I 5 HOH D 35 1735 101 HOH HOH . I 5 HOH D 36 1736 35 HOH HOH . I 5 HOH D 37 1737 57 HOH HOH . I 5 HOH D 38 1738 7 HOH HOH . I 5 HOH D 39 1739 4 HOH HOH . I 5 HOH D 40 1740 50 HOH HOH . I 5 HOH D 41 1741 21 HOH HOH . I 5 HOH D 42 1742 134 HOH HOH . I 5 HOH D 43 1743 62 HOH HOH . I 5 HOH D 44 1744 111 HOH HOH . I 5 HOH D 45 1745 1 HOH HOH . I 5 HOH D 46 1746 121 HOH HOH . I 5 HOH D 47 1747 163 HOH HOH . I 5 HOH D 48 1748 11 HOH HOH . I 5 HOH D 49 1749 167 HOH HOH . I 5 HOH D 50 1750 64 HOH HOH . I 5 HOH D 51 1751 70 HOH HOH . I 5 HOH D 52 1752 157 HOH HOH . I 5 HOH D 53 1753 39 HOH HOH . I 5 HOH D 54 1754 72 HOH HOH . I 5 HOH D 55 1755 165 HOH HOH . I 5 HOH D 56 1756 85 HOH HOH . I 5 HOH D 57 1757 88 HOH HOH . I 5 HOH D 58 1758 41 HOH HOH . I 5 HOH D 59 1759 255 HOH HOH . I 5 HOH D 60 1760 124 HOH HOH . I 5 HOH D 61 1761 227 HOH HOH . I 5 HOH D 62 1762 176 HOH HOH . I 5 HOH D 63 1763 51 HOH HOH . I 5 HOH D 64 1764 143 HOH HOH . I 5 HOH D 65 1765 114 HOH HOH . I 5 HOH D 66 1766 247 HOH HOH . I 5 HOH D 67 1767 81 HOH HOH . I 5 HOH D 68 1768 145 HOH HOH . I 5 HOH D 69 1769 193 HOH HOH . I 5 HOH D 70 1770 16 HOH HOH . I 5 HOH D 71 1771 221 HOH HOH . I 5 HOH D 72 1772 147 HOH HOH . I 5 HOH D 73 1773 48 HOH HOH . I 5 HOH D 74 1774 33 HOH HOH . I 5 HOH D 75 1775 86 HOH HOH . I 5 HOH D 76 1776 218 HOH HOH . I 5 HOH D 77 1777 98 HOH HOH . I 5 HOH D 78 1778 190 HOH HOH . I 5 HOH D 79 1779 241 HOH HOH . I 5 HOH D 80 1780 144 HOH HOH . I 5 HOH D 81 1781 94 HOH HOH . I 5 HOH D 82 1782 186 HOH HOH . I 5 HOH D 83 1783 24 HOH HOH . I 5 HOH D 84 1784 204 HOH HOH . I 5 HOH D 85 1785 100 HOH HOH . I 5 HOH D 86 1786 77 HOH HOH . I 5 HOH D 87 1787 197 HOH HOH . I 5 HOH D 88 1788 203 HOH HOH . I 5 HOH D 89 1789 71 HOH HOH . I 5 HOH D 90 1790 223 HOH HOH . I 5 HOH D 91 1791 148 HOH HOH . I 5 HOH D 92 1792 246 HOH HOH . I 5 HOH D 93 1793 248 HOH HOH . I 5 HOH D 94 1794 95 HOH HOH . I 5 HOH D 95 1795 236 HOH HOH . I 5 HOH D 96 1796 104 HOH HOH . I 5 HOH D 97 1797 160 HOH HOH . I 5 HOH D 98 1798 23 HOH HOH . I 5 HOH D 99 1799 139 HOH HOH . I 5 HOH D 100 1800 92 HOH HOH . I 5 HOH D 101 1801 183 HOH HOH . I 5 HOH D 102 1802 224 HOH HOH . I 5 HOH D 103 1803 146 HOH HOH . I 5 HOH D 104 1804 82 HOH HOH . I 5 HOH D 105 1805 213 HOH HOH . I 5 HOH D 106 1806 59 HOH HOH . I 5 HOH D 107 1807 74 HOH HOH . I 5 HOH D 108 1808 120 HOH HOH . I 5 HOH D 109 1809 178 HOH HOH . I 5 HOH D 110 1810 151 HOH HOH . I 5 HOH D 111 1811 205 HOH HOH . I 5 HOH D 112 1812 136 HOH HOH . I 5 HOH D 113 1813 118 HOH HOH . J 5 HOH E 1 201 108 HOH HOH . J 5 HOH E 2 202 113 HOH HOH . J 5 HOH E 3 203 13 HOH HOH . J 5 HOH E 4 204 154 HOH HOH . J 5 HOH E 5 205 28 HOH HOH . J 5 HOH E 6 206 5 HOH HOH . J 5 HOH E 7 207 212 HOH HOH . J 5 HOH E 8 208 217 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 C C1 GOL . . . F 4 25.505 -39.268 29.492 1 60.74 ? C1 GOL 1601 D 1 HETATM 2 O O1 GOL . . . F 4 25.767 -39.534 30.836 1 66.56 ? O1 GOL 1601 D 1 HETATM 3 C C2 GOL . . . F 4 24.548 -38.054 29.44 1 53.38 ? C2 GOL 1601 D 1 HETATM 4 O O2 GOL . . . F 4 23.245 -38.42 29.366 1 49.94 ? O2 GOL 1601 D 1 HETATM 5 C C3 GOL . . . F 4 24.858 -37.222 30.711 1 67.27 ? C3 GOL 1601 D 1 HETATM 6 O O3 GOL . . . F 4 24.178 -36.004 30.572 1 64.48 ? O3 GOL 1601 D 1 # _model_server_stats.io_time_ms 75 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 23 _model_server_stats.element_count 6 #