data_1MES # _model_server_result.job_id vKOi2fcui9-00qRwLvu-8w _model_server_result.datetime_utc '2024-11-22 05:49:55' _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 1mes # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":323}' # _entry.id 1MES # _exptl.entry_id 1MES _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 1MES _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 1MES _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 # _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 83 n n C1 N7 DMP sing 84 n n C1 O1 DMP doub 85 n n C3 C4 DMP sing 86 n n C3 C30 DMP sing 87 n n C3 N2 DMP sing 88 n n C3 H3 DMP sing 89 n n C4 C5 DMP sing 90 n n C4 O4 DMP sing 91 n n C4 H4 DMP sing 92 n n C5 C6 DMP sing 93 n n C5 O5 DMP sing 94 n n C5 H5 DMP sing 95 n n C6 C60 DMP sing 96 n n C6 N7 DMP sing 97 n n C6 H6 DMP sing 98 n n C20 C21 DMP sing 99 n n C20 N2 DMP sing 100 n n C20 H201 DMP sing 101 n n C20 H202 DMP sing 102 n n C21 C22 DMP doub 103 n y C21 C26 DMP sing 104 n y C22 C23 DMP sing 105 n y C22 H22 DMP sing 106 n n C23 C24 DMP doub 107 n y C23 H23 DMP sing 108 n n C24 C25 DMP sing 109 n y C24 C27 DMP sing 110 n n C25 C26 DMP doub 111 n y C25 H25 DMP sing 112 n n C26 H26 DMP sing 113 n n C27 O27 DMP sing 114 n n C27 H271 DMP sing 115 n n C27 H272 DMP sing 116 n n C30 C31 DMP sing 117 n n C30 H301 DMP sing 118 n n C30 H302 DMP sing 119 n n C31 C32 DMP doub 120 n y C31 C36 DMP sing 121 n y C32 C33 DMP sing 122 n y C32 H32 DMP sing 123 n n C33 C34 DMP doub 124 n y C33 H33 DMP sing 125 n n C34 C35 DMP sing 126 n y C34 H34 DMP sing 127 n n C35 C36 DMP doub 128 n y C35 H35 DMP sing 129 n n C36 H36 DMP sing 130 n n C60 C61 DMP sing 131 n n C60 H601 DMP sing 132 n n C60 H602 DMP sing 133 n n C61 C62 DMP doub 134 n y C61 C66 DMP sing 135 n y C62 C63 DMP sing 136 n y C62 H62 DMP sing 137 n n C63 C64 DMP doub 138 n y C63 H63 DMP sing 139 n n C64 C65 DMP sing 140 n y C64 H64 DMP sing 141 n n C65 C66 DMP doub 142 n y C65 H65 DMP sing 143 n n C66 H66 DMP sing 144 n n C70 C71 DMP sing 145 n n C70 N7 DMP sing 146 n n C70 H701 DMP sing 147 n n C70 H702 DMP sing 148 n n C71 C72 DMP doub 149 n y C71 C76 DMP sing 150 n y C72 C73 DMP sing 151 n y C72 H72 DMP sing 152 n n C73 C74 DMP doub 153 n y C73 H73 DMP sing 154 n n C74 C75 DMP sing 155 n y C74 C77 DMP sing 156 n n C75 C76 DMP doub 157 n y C75 H75 DMP sing 158 n n C76 H76 DMP sing 159 n n C77 O77 DMP sing 160 n n C77 H771 DMP sing 161 n n C77 H772 DMP sing 162 n n O4 HO4 DMP sing 163 n n O5 HO5 DMP sing 164 n n O27 HO27 DMP sing 165 n n O77 HO77 DMP sing 166 n n # _atom_sites.entry_id 1MES _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 B _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 -8.869 15.378 27.964 1 19.13 ? C1 DMP 323 B 1 HETATM 2 C C3 DMP . . . C 2 -8.815 17.672 26.96 1 16.84 ? C3 DMP 323 B 1 HETATM 3 C C4 DMP . . . C 2 -10.199 18.248 27.179 1 19.81 ? C4 DMP 323 B 1 HETATM 4 C C5 DMP . . . C 2 -10.669 18.006 28.598 1 18.83 ? C5 DMP 323 B 1 HETATM 5 C C6 DMP . . . C 2 -10.909 16.541 28.885 1 18.62 ? C6 DMP 323 B 1 HETATM 6 C C20 DMP . . . C 2 -8.011 15.606 25.77 1 13.89 ? C20 DMP 323 B 1 HETATM 7 C C21 DMP . . . C 2 -8.474 16.051 24.425 1 14.56 ? C21 DMP 323 B 1 HETATM 8 C C22 DMP . . . C 2 -9.836 16.282 24.13 1 16.64 ? C22 DMP 323 B 1 HETATM 9 C C23 DMP . . . C 2 -10.205 16.636 22.813 1 17.98 ? C23 DMP 323 B 1 HETATM 10 C C24 DMP . . . C 2 -9.205 16.757 21.817 1 16.95 ? C24 DMP 323 B 1 HETATM 11 C C25 DMP . . . C 2 -7.848 16.523 22.138 1 21.43 ? C25 DMP 323 B 1 HETATM 12 C C26 DMP . . . C 2 -7.476 16.178 23.446 1 17.23 ? C26 DMP 323 B 1 HETATM 13 C C27 DMP . . . C 2 -9.586 17.104 20.397 1 17.47 ? C27 DMP 323 B 1 HETATM 14 C C30 DMP . . . C 2 -7.704 18.279 27.841 1 19.94 ? C30 DMP 323 B 1 HETATM 15 C C31 DMP . . . C 2 -6.332 18.12 27.213 1 23.12 ? C31 DMP 323 B 1 HETATM 16 C C32 DMP . . . C 2 -5.346 17.347 27.863 1 19.48 ? C32 DMP 323 B 1 HETATM 17 C C33 DMP . . . C 2 -4.094 17.168 27.25 1 18.8 ? C33 DMP 323 B 1 HETATM 18 C C34 DMP . . . C 2 -3.833 17.755 25.994 1 19.4 ? C34 DMP 323 B 1 HETATM 19 C C35 DMP . . . C 2 -4.812 18.529 25.342 1 19.21 ? C35 DMP 323 B 1 HETATM 20 C C36 DMP . . . C 2 -6.063 18.717 25.954 1 19.44 ? C36 DMP 323 B 1 HETATM 21 C C60 DMP . . . C 2 -12.011 15.876 28.025 1 19.68 ? C60 DMP 323 B 1 HETATM 22 C C61 DMP . . . C 2 -12.57 14.622 28.66 1 22.6 ? C61 DMP 323 B 1 HETATM 23 C C62 DMP . . . C 2 -12.208 13.354 28.147 1 19.69 ? C62 DMP 323 B 1 HETATM 24 C C63 DMP . . . C 2 -12.684 12.184 28.778 1 21.45 ? C63 DMP 323 B 1 HETATM 25 C C64 DMP . . . C 2 -13.511 12.29 29.917 1 20.99 ? C64 DMP 323 B 1 HETATM 26 C C65 DMP . . . C 2 -13.876 13.56 30.425 1 22.64 ? C65 DMP 323 B 1 HETATM 27 C C66 DMP . . . C 2 -13.409 14.733 29.798 1 20.52 ? C66 DMP 323 B 1 HETATM 28 C C70 DMP . . . C 2 -9.629 14.753 30.114 1 16.33 ? C70 DMP 323 B 1 HETATM 29 C C71 DMP . . . C 2 -9.72 15.363 31.47 1 16.15 ? C71 DMP 323 B 1 HETATM 30 C C72 DMP . . . C 2 -10.366 14.576 32.435 1 18.65 ? C72 DMP 323 B 1 HETATM 31 C C73 DMP . . . C 2 -10.417 15.025 33.755 1 19.18 ? C73 DMP 323 B 1 HETATM 32 C C74 DMP . . . C 2 -9.839 16.267 34.111 1 16.42 ? C74 DMP 323 B 1 HETATM 33 C C75 DMP . . . C 2 -9.197 17.061 33.131 1 15.47 ? C75 DMP 323 B 1 HETATM 34 C C76 DMP . . . C 2 -9.143 16.612 31.798 1 15.8 ? C76 DMP 323 B 1 HETATM 35 C C77 DMP . . . C 2 -9.89 16.729 35.545 1 14.31 ? C77 DMP 323 B 1 HETATM 36 N N2 DMP . . . C 2 -8.658 16.207 26.925 1 17.45 ? N2 DMP 323 B 1 HETATM 37 N N7 DMP . . . C 2 -9.736 15.638 28.963 1 18.76 ? N7 DMP 323 B 1 HETATM 38 O O1 DMP . . . C 2 -8.248 14.324 27.998 1 20.84 ? O1 DMP 323 B 1 HETATM 39 O O4 DMP . . . C 2 -10.073 19.626 26.903 1 19.5 ? O4 DMP 323 B 1 HETATM 40 O O5 DMP . . . C 2 -11.889 18.659 28.831 1 16.47 ? O5 DMP 323 B 1 HETATM 41 O O27 DMP . . . C 2 -8.734 18.127 19.862 1 17.71 ? O27 DMP 323 B 1 HETATM 42 O O77 DMP . . . C 2 -11.195 16.517 36.103 1 13.9 ? O77 DMP 323 B 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 42 #