data_1QBS # _model_server_result.job_id kBfG2olzhMTSShQTQjSOWg _model_server_result.datetime_utc '2025-03-06 08:10:04' _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 1qbs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":323}' # _entry.id 1QBS # _exptl.entry_id 1QBS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 566.687 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[4-R-(-4-ALPHA,5-ALPHA,6-BETA,7-BETA)]-HEXAHYDRO-5,6-BIS(HYDROXY)-[1,3-BIS([4-HYDROXYMETHYL-PHENYL]METHYL)-4,7-BIS(PHEN YLMETHYL)]-2H-1,3-DIAZEPINONE' _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 1QBS _cell.length_a 62.8 _cell.length_b 62.8 _cell.length_c 83.5 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1QBS _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _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 _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 C _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 A C ILE 66 A ILE 66 1_555 A N CSO 67 A CSO 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? covale ? covale2 A C CSO 67 A CSO 67 1_555 A N GLY 68 A GLY 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale3 B C ILE 66 B ILE 66 1_555 B N CSO 67 B CSO 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale4 B C CSO 67 B CSO 67 1_555 B N GLY 68 B GLY 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? # _chem_comp.formula 'C35 H38 N2 O5' _chem_comp.formula_weight 566.687 _chem_comp.id DMP _chem_comp.mon_nstd_flag . _chem_comp.name '[4-R-(-4-ALPHA,5-ALPHA,6-BETA,7-BETA)]-HEXAHYDRO-5,6-BIS(HYDROXY)-[1,3-BIS([4-HYDROXYMETHYL-PHENYL]METHYL)-4,7-BIS(PHEN YLMETHYL)]-2H-1,3-DIAZEPINONE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'DMP323(INHIBITOR OF DUPONT MERCK)' # 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 N2 DMP sing 97 n n C1 N7 DMP sing 98 n n C1 O1 DMP doub 99 n n C3 C4 DMP sing 100 n n C3 C30 DMP sing 101 n n C3 N2 DMP sing 102 n n C3 H3 DMP sing 103 n n C4 C5 DMP sing 104 n n C4 O4 DMP sing 105 n n C4 H4 DMP sing 106 n n C5 C6 DMP sing 107 n n C5 O5 DMP sing 108 n n C5 H5 DMP sing 109 n n C6 C60 DMP sing 110 n n C6 N7 DMP sing 111 n n C6 H6 DMP sing 112 n n C20 C21 DMP sing 113 n n C20 N2 DMP sing 114 n n C20 H201 DMP sing 115 n n C20 H202 DMP sing 116 n n C21 C22 DMP doub 117 n y C21 C26 DMP sing 118 n y C22 C23 DMP sing 119 n y C22 H22 DMP sing 120 n n C23 C24 DMP doub 121 n y C23 H23 DMP sing 122 n n C24 C25 DMP sing 123 n y C24 C27 DMP sing 124 n n C25 C26 DMP doub 125 n y C25 H25 DMP sing 126 n n C26 H26 DMP sing 127 n n C27 O27 DMP sing 128 n n C27 H271 DMP sing 129 n n C27 H272 DMP sing 130 n n C30 C31 DMP sing 131 n n C30 H301 DMP sing 132 n n C30 H302 DMP sing 133 n n C31 C32 DMP doub 134 n y C31 C36 DMP sing 135 n y C32 C33 DMP sing 136 n y C32 H32 DMP sing 137 n n C33 C34 DMP doub 138 n y C33 H33 DMP sing 139 n n C34 C35 DMP sing 140 n y C34 H34 DMP sing 141 n n C35 C36 DMP doub 142 n y C35 H35 DMP sing 143 n n C36 H36 DMP sing 144 n n C60 C61 DMP sing 145 n n C60 H601 DMP sing 146 n n C60 H602 DMP sing 147 n n C61 C62 DMP doub 148 n y C61 C66 DMP sing 149 n y C62 C63 DMP sing 150 n y C62 H62 DMP sing 151 n n C63 C64 DMP doub 152 n y C63 H63 DMP sing 153 n n C64 C65 DMP sing 154 n y C64 H64 DMP sing 155 n n C65 C66 DMP doub 156 n y C65 H65 DMP sing 157 n n C66 H66 DMP sing 158 n n C70 C71 DMP sing 159 n n C70 N7 DMP sing 160 n n C70 H701 DMP sing 161 n n C70 H702 DMP sing 162 n n C71 C72 DMP doub 163 n y C71 C76 DMP sing 164 n y C72 C73 DMP sing 165 n y C72 H72 DMP sing 166 n n C73 C74 DMP doub 167 n y C73 H73 DMP sing 168 n n C74 C75 DMP sing 169 n y C74 C77 DMP sing 170 n n C75 C76 DMP doub 171 n y C75 H75 DMP sing 172 n n C76 H76 DMP sing 173 n n C77 O77 DMP sing 174 n n C77 H771 DMP sing 175 n n C77 H772 DMP sing 176 n n O4 HO4 DMP sing 177 n n O5 HO5 DMP sing 178 n n O27 HO27 DMP sing 179 n n O77 HO77 DMP sing 180 n n # _atom_sites.entry_id 1QBS _atom_sites.fract_transf_matrix[1][1] 0.015924 _atom_sites.fract_transf_matrix[1][2] 0.009193 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018387 _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] 0.011976 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id DMP _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 323 _pdbx_nonpoly_scheme.auth_seq_num 323 _pdbx_nonpoly_scheme.pdb_mon_id DMP _pdbx_nonpoly_scheme.auth_mon_id DMP _pdbx_nonpoly_scheme.pdb_ins_code . # 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 DMP . . . C 2 -8.824 15.289 27.796 1 14.37 ? C1 DMP 323 A 1 HETATM 2 C C3 DMP . . . C 2 -8.765 17.612 26.894 1 12.82 ? C3 DMP 323 A 1 HETATM 3 C C4 DMP . . . C 2 -10.151 18.142 27.12 1 14.57 ? C4 DMP 323 A 1 HETATM 4 C C5 DMP . . . C 2 -10.611 17.866 28.529 1 17.42 ? C5 DMP 323 A 1 HETATM 5 C C6 DMP . . . C 2 -10.873 16.392 28.778 1 15.33 ? C6 DMP 323 A 1 HETATM 6 C C20 DMP . . . C 2 -7.895 15.606 25.658 1 10.36 ? C20 DMP 323 A 1 HETATM 7 C C21 DMP . . . C 2 -8.394 16.004 24.314 1 10.95 ? C21 DMP 323 A 1 HETATM 8 C C22 DMP . . . C 2 -9.762 16.035 23.981 1 12.38 ? C22 DMP 323 A 1 HETATM 9 C C23 DMP . . . C 2 -10.175 16.342 22.667 1 13.97 ? C23 DMP 323 A 1 HETATM 10 C C24 DMP . . . C 2 -9.189 16.6 21.702 1 10.63 ? C24 DMP 323 A 1 HETATM 11 C C25 DMP . . . C 2 -7.826 16.569 22.038 1 16.92 ? C25 DMP 323 A 1 HETATM 12 C C26 DMP . . . C 2 -7.424 16.281 23.354 1 13.21 ? C26 DMP 323 A 1 HETATM 13 C C27 DMP . . . C 2 -9.583 16.878 20.299 1 11.44 ? C27 DMP 323 A 1 HETATM 14 C C30 DMP . . . C 2 -7.675 18.19 27.782 1 13.17 ? C30 DMP 323 A 1 HETATM 15 C C31 DMP . . . C 2 -6.309 18.078 27.133 1 14.75 ? C31 DMP 323 A 1 HETATM 16 C C32 DMP . . . C 2 -5.371 17.139 27.617 1 17.54 ? C32 DMP 323 A 1 HETATM 17 C C33 DMP . . . C 2 -4.115 17.017 27.002 1 16.43 ? C33 DMP 323 A 1 HETATM 18 C C34 DMP . . . C 2 -3.792 17.838 25.906 1 15.7 ? C34 DMP 323 A 1 HETATM 19 C C35 DMP . . . C 2 -4.722 18.782 25.415 1 19.98 ? C35 DMP 323 A 1 HETATM 20 C C36 DMP . . . C 2 -5.987 18.897 26.035 1 11.74 ? C36 DMP 323 A 1 HETATM 21 C C60 DMP . . . C 2 -11.989 15.736 27.935 1 17.45 ? C60 DMP 323 A 1 HETATM 22 C C61 DMP . . . C 2 -12.534 14.482 28.586 1 16.37 ? C61 DMP 323 A 1 HETATM 23 C C62 DMP . . . C 2 -13.261 14.587 29.804 1 16.2 ? C62 DMP 323 A 1 HETATM 24 C C63 DMP . . . C 2 -13.601 13.414 30.513 1 17.26 ? C63 DMP 323 A 1 HETATM 25 C C64 DMP . . . C 2 -13.239 12.152 29.996 1 13.98 ? C64 DMP 323 A 1 HETATM 26 C C65 DMP . . . C 2 -12.548 12.05 28.775 1 12.48 ? C65 DMP 323 A 1 HETATM 27 C C66 DMP . . . C 2 -12.195 13.216 28.067 1 15.36 ? C66 DMP 323 A 1 HETATM 28 C C70 DMP . . . C 2 -9.516 14.673 30.003 1 16.47 ? C70 DMP 323 A 1 HETATM 29 C C71 DMP . . . C 2 -9.618 15.285 31.376 1 19.94 ? C71 DMP 323 A 1 HETATM 30 C C72 DMP . . . C 2 -10.297 14.54 32.375 1 18.84 ? C72 DMP 323 A 1 HETATM 31 C C73 DMP . . . C 2 -10.352 15.036 33.682 1 19.21 ? C73 DMP 323 A 1 HETATM 32 C C74 DMP . . . C 2 -9.735 16.267 33.988 1 19.5 ? C74 DMP 323 A 1 HETATM 33 C C75 DMP . . . C 2 -9.07 17.022 32.989 1 19.14 ? C75 DMP 323 A 1 HETATM 34 C C76 DMP . . . C 2 -9.014 16.523 31.681 1 19.63 ? C76 DMP 323 A 1 HETATM 35 C C77 DMP . . . C 2 -9.736 16.774 35.41 1 18.38 ? C77 DMP 323 A 1 HETATM 36 N N2 DMP . . . C 2 -8.6 16.156 26.822 1 14.21 ? N2 DMP 323 A 1 HETATM 37 N N7 DMP . . . C 2 -9.694 15.505 28.807 1 17.01 ? N7 DMP 323 A 1 HETATM 38 O O1 DMP . . . C 2 -8.174 14.259 27.758 1 15.86 ? O1 DMP 323 A 1 HETATM 39 O O4 DMP . . . C 2 -10.025 19.497 26.834 1 16.16 ? O4 DMP 323 A 1 HETATM 40 O O5 DMP . . . C 2 -11.802 18.523 28.852 1 14.23 ? O5 DMP 323 A 1 HETATM 41 O O27 DMP . . . C 2 -9.017 18.125 19.92 1 14.41 ? O27 DMP 323 A 1 HETATM 42 O O77 DMP . . . C 2 -11.072 16.738 35.88 1 22.94 ? O77 DMP 323 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 42 #