data_1YXJ # _model_server_result.job_id 19BT0nwnNSeVBeTIKDCRIA _model_server_result.datetime_utc '2024-12-26 13:39:28' _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 1yxj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":2001}' # _entry.id 1YXJ # _exptl.entry_id 1YXJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 2 _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 90 _cell.entry_id 1YXJ _cell.length_a 62.636 _cell.length_b 68.828 _cell.length_c 79.133 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YXJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 # _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 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 3 A CYS 144 1_555 A SG CYS 14 A CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 31 A CYS 172 1_555 A SG CYS 123 A CYS 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf3 A SG CYS 102 A CYS 243 1_555 A SG CYS 115 A CYS 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 3 B CYS 144 1_555 B SG CYS 14 B CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 B SG CYS 31 B CYS 172 1_555 B SG CYS 123 B CYS 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 B SG CYS 102 B CYS 243 1_555 B SG CYS 115 B CYS 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A C MSE 1 A MSE 142 1_555 A N PRO 2 A PRO 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? covale ? covale2 A C TRP 62 A TRP 203 1_555 A N MSE 63 A MSE 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale3 A C MSE 63 A MSE 204 1_555 A N GLY 64 A GLY 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 A C LEU 82 A LEU 223 1_555 A N MSE 83 A MSE 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale5 A C MSE 83 A MSE 224 1_555 A N PRO 84 A PRO 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale6 B C TRP 62 B TRP 203 1_555 B N MSE 63 B MSE 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 B C MSE 63 B MSE 204 1_555 B N GLY 64 B GLY 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 B C LEU 82 B LEU 223 1_555 B N MSE 83 B MSE 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale9 B C MSE 83 B MSE 224 1_555 B N PRO 84 B PRO 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # 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 EDO sing 83 n n C1 C2 EDO sing 84 n n C1 H11 EDO sing 85 n n C1 H12 EDO sing 86 n n O1 HO1 EDO sing 87 n n C2 O2 EDO sing 88 n n C2 H21 EDO sing 89 n n C2 H22 EDO sing 90 n n O2 HO2 EDO sing 91 n n # _atom_sites.entry_id 1YXJ _atom_sites.fract_transf_matrix[1][1] 0.015965 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014529 _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] 0.012637 _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 C 2 EDO A 1 2002 2002 EDO EGL . D 2 EDO B 1 2001 2001 EDO EGL . E 3 HOH A 1 1001 1001 HOH HOH . E 3 HOH A 2 1008 1008 HOH HOH . E 3 HOH A 3 1009 1009 HOH HOH . E 3 HOH A 4 1010 1010 HOH HOH . E 3 HOH A 5 1012 1012 HOH HOH . E 3 HOH A 6 1013 1013 HOH HOH . E 3 HOH A 7 1015 1015 HOH HOH . E 3 HOH A 8 1020 1020 HOH HOH . E 3 HOH A 9 1022 1022 HOH HOH . E 3 HOH A 10 1023 1023 HOH HOH . E 3 HOH A 11 1024 1024 HOH HOH . E 3 HOH A 12 1027 1027 HOH HOH . E 3 HOH A 13 1029 1029 HOH HOH . E 3 HOH A 14 1031 1031 HOH HOH . E 3 HOH A 15 1034 1034 HOH HOH . E 3 HOH A 16 1036 1036 HOH HOH . E 3 HOH A 17 1038 1038 HOH HOH . E 3 HOH A 18 1039 1039 HOH HOH . E 3 HOH A 19 1040 1040 HOH HOH . E 3 HOH A 20 1042 1042 HOH HOH . E 3 HOH A 21 1050 1050 HOH HOH . E 3 HOH A 22 1051 1051 HOH HOH . E 3 HOH A 23 1054 1054 HOH HOH . E 3 HOH A 24 1056 1056 HOH HOH . E 3 HOH A 25 1058 1058 HOH HOH . E 3 HOH A 26 1059 1059 HOH HOH . E 3 HOH A 27 1064 1064 HOH HOH . E 3 HOH A 28 1069 1069 HOH HOH . E 3 HOH A 29 1071 1071 HOH HOH . E 3 HOH A 30 1074 1074 HOH HOH . E 3 HOH A 31 1077 1077 HOH HOH . E 3 HOH A 32 1078 1078 HOH HOH . E 3 HOH A 33 1081 1081 HOH HOH . E 3 HOH A 34 1082 1082 HOH HOH . E 3 HOH A 35 1083 1083 HOH HOH . E 3 HOH A 36 1085 1085 HOH HOH . E 3 HOH A 37 1086 1086 HOH HOH . E 3 HOH A 38 1092 1092 HOH HOH . E 3 HOH A 39 1094 1094 HOH HOH . E 3 HOH A 40 1097 1097 HOH HOH . E 3 HOH A 41 1103 1103 HOH HOH . E 3 HOH A 42 1104 1104 HOH HOH . E 3 HOH A 43 1107 1107 HOH HOH . E 3 HOH A 44 1110 1110 HOH HOH . E 3 HOH A 45 1111 1111 HOH HOH . E 3 HOH A 46 1112 1112 HOH HOH . E 3 HOH A 47 1113 1113 HOH HOH . E 3 HOH A 48 1114 1114 HOH HOH . E 3 HOH A 49 1118 1118 HOH HOH . E 3 HOH A 50 1119 1119 HOH HOH . E 3 HOH A 51 1120 1120 HOH HOH . E 3 HOH A 52 1122 1122 HOH HOH . E 3 HOH A 53 1125 1125 HOH HOH . E 3 HOH A 54 1126 1126 HOH HOH . E 3 HOH A 55 1127 1127 HOH HOH . E 3 HOH A 56 1133 1133 HOH HOH . E 3 HOH A 57 1135 1135 HOH HOH . E 3 HOH A 58 1140 1140 HOH HOH . E 3 HOH A 59 1141 1141 HOH HOH . E 3 HOH A 60 1147 1147 HOH HOH . E 3 HOH A 61 1151 1151 HOH HOH . E 3 HOH A 62 1155 1155 HOH HOH . E 3 HOH A 63 1158 1158 HOH HOH . E 3 HOH A 64 1159 1159 HOH HOH . E 3 HOH A 65 1161 1161 HOH HOH . E 3 HOH A 66 1164 1164 HOH HOH . E 3 HOH A 67 1165 1165 HOH HOH . E 3 HOH A 68 1168 1168 HOH HOH . E 3 HOH A 69 1173 1173 HOH HOH . E 3 HOH A 70 1176 1176 HOH HOH . E 3 HOH A 71 1177 1177 HOH HOH . E 3 HOH A 72 1179 1179 HOH HOH . E 3 HOH A 73 1182 1182 HOH HOH . E 3 HOH A 74 1184 1184 HOH HOH . E 3 HOH A 75 1188 1188 HOH HOH . E 3 HOH A 76 1189 1189 HOH HOH . E 3 HOH A 77 1192 1192 HOH HOH . E 3 HOH A 78 1193 1193 HOH HOH . E 3 HOH A 79 1195 1195 HOH HOH . E 3 HOH A 80 1197 1197 HOH HOH . E 3 HOH A 81 1198 1198 HOH HOH . E 3 HOH A 82 1199 1199 HOH HOH . E 3 HOH A 83 1200 1200 HOH HOH . E 3 HOH A 84 1201 1201 HOH HOH . E 3 HOH A 85 1202 1202 HOH HOH . E 3 HOH A 86 1203 1203 HOH HOH . E 3 HOH A 87 1205 1205 HOH HOH . E 3 HOH A 88 1206 1206 HOH HOH . E 3 HOH A 89 1207 1207 HOH HOH . F 3 HOH B 1 1002 1002 HOH HOH . F 3 HOH B 2 1003 1003 HOH HOH . F 3 HOH B 3 1004 1004 HOH HOH . F 3 HOH B 4 1005 1005 HOH HOH . F 3 HOH B 5 1006 1006 HOH HOH . F 3 HOH B 6 1007 1007 HOH HOH . F 3 HOH B 7 1011 1011 HOH HOH . F 3 HOH B 8 1014 1014 HOH HOH . F 3 HOH B 9 1016 1016 HOH HOH . F 3 HOH B 10 1017 1017 HOH HOH . F 3 HOH B 11 1018 1018 HOH HOH . F 3 HOH B 12 1019 1019 HOH HOH . F 3 HOH B 13 1021 1021 HOH HOH . F 3 HOH B 14 1025 1025 HOH HOH . F 3 HOH B 15 1026 1026 HOH HOH . F 3 HOH B 16 1028 1028 HOH HOH . F 3 HOH B 17 1030 1030 HOH HOH . F 3 HOH B 18 1032 1032 HOH HOH . F 3 HOH B 19 1033 1033 HOH HOH . F 3 HOH B 20 1035 1035 HOH HOH . F 3 HOH B 21 1037 1037 HOH HOH . F 3 HOH B 22 1041 1041 HOH HOH . F 3 HOH B 23 1043 1043 HOH HOH . F 3 HOH B 24 1044 1044 HOH HOH . F 3 HOH B 25 1045 1045 HOH HOH . F 3 HOH B 26 1046 1046 HOH HOH . F 3 HOH B 27 1047 1047 HOH HOH . F 3 HOH B 28 1048 1048 HOH HOH . F 3 HOH B 29 1049 1049 HOH HOH . F 3 HOH B 30 1052 1052 HOH HOH . F 3 HOH B 31 1053 1053 HOH HOH . F 3 HOH B 32 1055 1055 HOH HOH . F 3 HOH B 33 1057 1057 HOH HOH . F 3 HOH B 34 1060 1060 HOH HOH . F 3 HOH B 35 1061 1061 HOH HOH . F 3 HOH B 36 1062 1062 HOH HOH . F 3 HOH B 37 1063 1063 HOH HOH . F 3 HOH B 38 1065 1065 HOH HOH . F 3 HOH B 39 1066 1066 HOH HOH . F 3 HOH B 40 1067 1067 HOH HOH . F 3 HOH B 41 1068 1068 HOH HOH . F 3 HOH B 42 1070 1070 HOH HOH . F 3 HOH B 43 1072 1072 HOH HOH . F 3 HOH B 44 1073 1073 HOH HOH . F 3 HOH B 45 1075 1075 HOH HOH . F 3 HOH B 46 1076 1076 HOH HOH . F 3 HOH B 47 1079 1079 HOH HOH . F 3 HOH B 48 1080 1080 HOH HOH . F 3 HOH B 49 1084 1084 HOH HOH . F 3 HOH B 50 1087 1087 HOH HOH . F 3 HOH B 51 1088 1088 HOH HOH . F 3 HOH B 52 1089 1089 HOH HOH . F 3 HOH B 53 1090 1090 HOH HOH . F 3 HOH B 54 1091 1091 HOH HOH . F 3 HOH B 55 1093 1093 HOH HOH . F 3 HOH B 56 1095 1095 HOH HOH . F 3 HOH B 57 1096 1096 HOH HOH . F 3 HOH B 58 1098 1098 HOH HOH . F 3 HOH B 59 1099 1099 HOH HOH . F 3 HOH B 60 1100 1100 HOH HOH . F 3 HOH B 61 1101 1101 HOH HOH . F 3 HOH B 62 1102 1102 HOH HOH . F 3 HOH B 63 1105 1105 HOH HOH . F 3 HOH B 64 1106 1106 HOH HOH . F 3 HOH B 65 1108 1108 HOH HOH . F 3 HOH B 66 1109 1109 HOH HOH . F 3 HOH B 67 1115 1115 HOH HOH . F 3 HOH B 68 1116 1116 HOH HOH . F 3 HOH B 69 1117 1117 HOH HOH . F 3 HOH B 70 1121 1121 HOH HOH . F 3 HOH B 71 1123 1123 HOH HOH . F 3 HOH B 72 1124 1124 HOH HOH . F 3 HOH B 73 1128 1128 HOH HOH . F 3 HOH B 74 1129 1129 HOH HOH . F 3 HOH B 75 1130 1130 HOH HOH . F 3 HOH B 76 1131 1131 HOH HOH . F 3 HOH B 77 1132 1132 HOH HOH . F 3 HOH B 78 1134 1134 HOH HOH . F 3 HOH B 79 1136 1136 HOH HOH . F 3 HOH B 80 1137 1137 HOH HOH . F 3 HOH B 81 1138 1138 HOH HOH . F 3 HOH B 82 1139 1139 HOH HOH . F 3 HOH B 83 1142 1142 HOH HOH . F 3 HOH B 84 1143 1143 HOH HOH . F 3 HOH B 85 1144 1144 HOH HOH . F 3 HOH B 86 1145 1145 HOH HOH . F 3 HOH B 87 1146 1146 HOH HOH . F 3 HOH B 88 1148 1148 HOH HOH . F 3 HOH B 89 1149 1149 HOH HOH . F 3 HOH B 90 1150 1150 HOH HOH . F 3 HOH B 91 1152 1152 HOH HOH . F 3 HOH B 92 1153 1153 HOH HOH . F 3 HOH B 93 1154 1154 HOH HOH . F 3 HOH B 94 1156 1156 HOH HOH . F 3 HOH B 95 1157 1157 HOH HOH . F 3 HOH B 96 1160 1160 HOH HOH . F 3 HOH B 97 1162 1162 HOH HOH . F 3 HOH B 98 1163 1163 HOH HOH . F 3 HOH B 99 1166 1166 HOH HOH . F 3 HOH B 100 1167 1167 HOH HOH . F 3 HOH B 101 1169 1169 HOH HOH . F 3 HOH B 102 1170 1170 HOH HOH . F 3 HOH B 103 1171 1171 HOH HOH . F 3 HOH B 104 1172 1172 HOH HOH . F 3 HOH B 105 1174 1174 HOH HOH . F 3 HOH B 106 1175 1175 HOH HOH . F 3 HOH B 107 1178 1178 HOH HOH . F 3 HOH B 108 1180 1180 HOH HOH . F 3 HOH B 109 1181 1181 HOH HOH . F 3 HOH B 110 1183 1183 HOH HOH . F 3 HOH B 111 1185 1185 HOH HOH . F 3 HOH B 112 1186 1186 HOH HOH . F 3 HOH B 113 1187 1187 HOH HOH . F 3 HOH B 114 1190 1190 HOH HOH . F 3 HOH B 115 1191 1191 HOH HOH . F 3 HOH B 116 1194 1194 HOH HOH . F 3 HOH B 117 1196 1196 HOH HOH . F 3 HOH B 118 1204 1204 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 EDO . . . D 2 39.214 42.464 31.223 1 23.83 ? C1 EDO 2001 B 1 HETATM 2 O O1 EDO . . . D 2 38.813 41.383 30.392 1 23.3 ? O1 EDO 2001 B 1 HETATM 3 C C2 EDO . . . D 2 40.329 42.001 32.175 1 22.84 ? C2 EDO 2001 B 1 HETATM 4 O O2 EDO . . . D 2 40.639 40.619 31.944 1 27.7 ? O2 EDO 2001 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 4 #