data_4XB1 # _model_server_result.job_id txRL787mhyk7G7RcuXPhTg _model_server_result.datetime_utc '2024-10-28 02:21:15' _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 4xb1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1003}' # _entry.id 4XB1 # _exptl.entry_id 4XB1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _entity.pdbx_number_of_molecules 5 _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 4XB1 _cell.length_a 112.56 _cell.length_b 112.56 _cell.length_c 95.885 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XB1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41' # _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,D,E,F,G,H,I,J,K,L,M _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 ? 4 E N N ? 4 F N N ? 4 I N N ? 4 J N N ? 4 K 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 metalc ? metalc1 A O GLU 156 A GLU 140 1_555 D NA NA . A NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.588 ? metalc ? metalc2 A OE1 GLU 156 A GLU 140 1_555 D NA NA . A NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc3 A O VAL 159 A VAL 143 1_555 D NA NA . A NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc4 A O ALA 161 A ALA 145 1_555 D NA NA . A NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc5 A O THR 163 A THR 147 1_555 D NA NA . A NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc6 B O GLU 156 B GLU 140 1_555 H NA NA . B NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.584 ? metalc ? metalc7 B OE1 GLU 156 B GLU 140 1_555 H NA NA . B NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc8 B O VAL 159 B VAL 143 1_555 H NA NA . B NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc9 B O ALA 161 B ALA 145 1_555 H NA NA . B NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? metalc ? metalc10 B O THR 163 B THR 147 1_555 H NA NA . B NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 C1 C2 MPD sing 224 n n C1 H11 MPD sing 225 n n C1 H12 MPD sing 226 n n C1 H13 MPD sing 227 n n C2 O2 MPD sing 228 n n C2 CM MPD sing 229 n n C2 C3 MPD sing 230 n n O2 HO2 MPD sing 231 n n CM HM1 MPD sing 232 n n CM HM2 MPD sing 233 n n CM HM3 MPD sing 234 n n C3 C4 MPD sing 235 n n C3 H31 MPD sing 236 n n C3 H32 MPD sing 237 n n C4 O4 MPD sing 238 n n C4 C5 MPD sing 239 n n C4 H4 MPD sing 240 n n O4 HO4 MPD sing 241 n n C5 H51 MPD sing 242 n n C5 H52 MPD sing 243 n n C5 H53 MPD sing 244 n n # _atom_sites.entry_id 4XB1 _atom_sites.fract_transf_matrix[1][1] 0.008884 _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] 0.008884 _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] 0.010429 _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 NDP A 1 1001 1001 NDP NDP . D 3 NA A 1 1002 2001 NA NA . E 4 MPD A 1 1003 3001 MPD MPD . F 4 MPD A 1 1004 3002 MPD MPD . G 2 NDP B 1 1001 1001 NDP NDP . H 3 NA B 1 1002 2001 NA NA . I 4 MPD B 1 1003 3001 MPD MPD . J 4 MPD B 1 1004 3002 MPD MPD . K 4 MPD B 1 1005 3003 MPD MPD . L 5 HOH A 1 1101 81 HOH HOH . L 5 HOH A 2 1102 198 HOH HOH . L 5 HOH A 3 1103 101 HOH HOH . L 5 HOH A 4 1104 154 HOH HOH . L 5 HOH A 5 1105 51 HOH HOH . L 5 HOH A 6 1106 95 HOH HOH . L 5 HOH A 7 1107 3 HOH HOH . L 5 HOH A 8 1108 48 HOH HOH . L 5 HOH A 9 1109 103 HOH HOH . L 5 HOH A 10 1110 78 HOH HOH . L 5 HOH A 11 1111 37 HOH HOH . L 5 HOH A 12 1112 149 HOH HOH . L 5 HOH A 13 1113 7 HOH HOH . L 5 HOH A 14 1114 16 HOH HOH . L 5 HOH A 15 1115 150 HOH HOH . L 5 HOH A 16 1116 56 HOH HOH . L 5 HOH A 17 1117 179 HOH HOH . L 5 HOH A 18 1118 148 HOH HOH . L 5 HOH A 19 1119 157 HOH HOH . L 5 HOH A 20 1120 89 HOH HOH . L 5 HOH A 21 1121 155 HOH HOH . L 5 HOH A 22 1122 4 HOH HOH . L 5 HOH A 23 1123 19 HOH HOH . L 5 HOH A 24 1124 20 HOH HOH . L 5 HOH A 25 1125 22 HOH HOH . L 5 HOH A 26 1126 23 HOH HOH . L 5 HOH A 27 1127 24 HOH HOH . L 5 HOH A 28 1128 26 HOH HOH . L 5 HOH A 29 1129 27 HOH HOH . L 5 HOH A 30 1130 28 HOH HOH . L 5 HOH A 31 1131 29 HOH HOH . L 5 HOH A 32 1132 30 HOH HOH . L 5 HOH A 33 1133 33 HOH HOH . L 5 HOH A 34 1134 35 HOH HOH . L 5 HOH A 35 1135 36 HOH HOH . L 5 HOH A 36 1136 40 HOH HOH . L 5 HOH A 37 1137 42 HOH HOH . L 5 HOH A 38 1138 46 HOH HOH . L 5 HOH A 39 1139 52 HOH HOH . L 5 HOH A 40 1140 54 HOH HOH . L 5 HOH A 41 1141 57 HOH HOH . L 5 HOH A 42 1142 58 HOH HOH . L 5 HOH A 43 1143 59 HOH HOH . L 5 HOH A 44 1144 61 HOH HOH . L 5 HOH A 45 1145 65 HOH HOH . L 5 HOH A 46 1146 66 HOH HOH . L 5 HOH A 47 1147 69 HOH HOH . L 5 HOH A 48 1148 70 HOH HOH . L 5 HOH A 49 1149 71 HOH HOH . L 5 HOH A 50 1150 72 HOH HOH . L 5 HOH A 51 1151 74 HOH HOH . L 5 HOH A 52 1152 76 HOH HOH . L 5 HOH A 53 1153 79 HOH HOH . L 5 HOH A 54 1154 83 HOH HOH . L 5 HOH A 55 1155 84 HOH HOH . L 5 HOH A 56 1156 88 HOH HOH . L 5 HOH A 57 1157 90 HOH HOH . L 5 HOH A 58 1158 91 HOH HOH . L 5 HOH A 59 1159 92 HOH HOH . L 5 HOH A 60 1160 93 HOH HOH . L 5 HOH A 61 1161 96 HOH HOH . L 5 HOH A 62 1162 97 HOH HOH . L 5 HOH A 63 1163 99 HOH HOH . L 5 HOH A 64 1164 102 HOH HOH . L 5 HOH A 65 1165 107 HOH HOH . L 5 HOH A 66 1166 108 HOH HOH . L 5 HOH A 67 1167 109 HOH HOH . L 5 HOH A 68 1168 110 HOH HOH . L 5 HOH A 69 1169 113 HOH HOH . L 5 HOH A 70 1170 115 HOH HOH . L 5 HOH A 71 1171 116 HOH HOH . L 5 HOH A 72 1172 117 HOH HOH . L 5 HOH A 73 1173 118 HOH HOH . L 5 HOH A 74 1174 119 HOH HOH . L 5 HOH A 75 1175 122 HOH HOH . L 5 HOH A 76 1176 125 HOH HOH . L 5 HOH A 77 1177 128 HOH HOH . L 5 HOH A 78 1178 130 HOH HOH . L 5 HOH A 79 1179 132 HOH HOH . L 5 HOH A 80 1180 133 HOH HOH . L 5 HOH A 81 1181 134 HOH HOH . L 5 HOH A 82 1182 135 HOH HOH . L 5 HOH A 83 1183 136 HOH HOH . L 5 HOH A 84 1184 137 HOH HOH . L 5 HOH A 85 1185 138 HOH HOH . L 5 HOH A 86 1186 139 HOH HOH . L 5 HOH A 87 1187 140 HOH HOH . L 5 HOH A 88 1188 141 HOH HOH . L 5 HOH A 89 1189 142 HOH HOH . L 5 HOH A 90 1190 143 HOH HOH . L 5 HOH A 91 1191 144 HOH HOH . L 5 HOH A 92 1192 145 HOH HOH . L 5 HOH A 93 1193 146 HOH HOH . L 5 HOH A 94 1194 147 HOH HOH . L 5 HOH A 95 1195 156 HOH HOH . L 5 HOH A 96 1196 161 HOH HOH . L 5 HOH A 97 1197 163 HOH HOH . L 5 HOH A 98 1198 164 HOH HOH . L 5 HOH A 99 1199 166 HOH HOH . L 5 HOH A 100 1200 169 HOH HOH . L 5 HOH A 101 1201 170 HOH HOH . L 5 HOH A 102 1202 171 HOH HOH . L 5 HOH A 103 1203 172 HOH HOH . L 5 HOH A 104 1204 175 HOH HOH . L 5 HOH A 105 1205 177 HOH HOH . L 5 HOH A 106 1206 178 HOH HOH . L 5 HOH A 107 1207 186 HOH HOH . L 5 HOH A 108 1208 187 HOH HOH . L 5 HOH A 109 1209 188 HOH HOH . L 5 HOH A 110 1210 189 HOH HOH . L 5 HOH A 111 1211 190 HOH HOH . L 5 HOH A 112 1212 192 HOH HOH . L 5 HOH A 113 1213 196 HOH HOH . L 5 HOH A 114 1214 197 HOH HOH . L 5 HOH A 115 1215 199 HOH HOH . L 5 HOH A 116 1216 200 HOH HOH . L 5 HOH A 117 1217 201 HOH HOH . L 5 HOH A 118 1218 206 HOH HOH . L 5 HOH A 119 1219 208 HOH HOH . L 5 HOH A 120 1220 209 HOH HOH . M 5 HOH B 1 1101 64 HOH HOH . M 5 HOH B 2 1102 94 HOH HOH . M 5 HOH B 3 1103 152 HOH HOH . M 5 HOH B 4 1104 212 HOH HOH . M 5 HOH B 5 1105 131 HOH HOH . M 5 HOH B 6 1106 207 HOH HOH . M 5 HOH B 7 1107 191 HOH HOH . M 5 HOH B 8 1108 80 HOH HOH . M 5 HOH B 9 1109 165 HOH HOH . M 5 HOH B 10 1110 173 HOH HOH . M 5 HOH B 11 1111 121 HOH HOH . M 5 HOH B 12 1112 168 HOH HOH . M 5 HOH B 13 1113 153 HOH HOH . M 5 HOH B 14 1114 174 HOH HOH . M 5 HOH B 15 1115 193 HOH HOH . M 5 HOH B 16 1116 38 HOH HOH . M 5 HOH B 17 1117 1 HOH HOH . M 5 HOH B 18 1118 2 HOH HOH . M 5 HOH B 19 1119 5 HOH HOH . M 5 HOH B 20 1120 6 HOH HOH . M 5 HOH B 21 1121 8 HOH HOH . M 5 HOH B 22 1122 9 HOH HOH . M 5 HOH B 23 1123 10 HOH HOH . M 5 HOH B 24 1124 11 HOH HOH . M 5 HOH B 25 1125 12 HOH HOH . M 5 HOH B 26 1126 13 HOH HOH . M 5 HOH B 27 1127 14 HOH HOH . M 5 HOH B 28 1128 15 HOH HOH . M 5 HOH B 29 1129 17 HOH HOH . M 5 HOH B 30 1130 18 HOH HOH . M 5 HOH B 31 1131 21 HOH HOH . M 5 HOH B 32 1132 25 HOH HOH . M 5 HOH B 33 1133 31 HOH HOH . M 5 HOH B 34 1134 32 HOH HOH . M 5 HOH B 35 1135 34 HOH HOH . M 5 HOH B 36 1136 39 HOH HOH . M 5 HOH B 37 1137 41 HOH HOH . M 5 HOH B 38 1138 43 HOH HOH . M 5 HOH B 39 1139 44 HOH HOH . M 5 HOH B 40 1140 45 HOH HOH . M 5 HOH B 41 1141 47 HOH HOH . M 5 HOH B 42 1142 49 HOH HOH . M 5 HOH B 43 1143 50 HOH HOH . M 5 HOH B 44 1144 53 HOH HOH . M 5 HOH B 45 1145 55 HOH HOH . M 5 HOH B 46 1146 60 HOH HOH . M 5 HOH B 47 1147 62 HOH HOH . M 5 HOH B 48 1148 63 HOH HOH . M 5 HOH B 49 1149 67 HOH HOH . M 5 HOH B 50 1150 68 HOH HOH . M 5 HOH B 51 1151 73 HOH HOH . M 5 HOH B 52 1152 75 HOH HOH . M 5 HOH B 53 1153 77 HOH HOH . M 5 HOH B 54 1154 82 HOH HOH . M 5 HOH B 55 1155 85 HOH HOH . M 5 HOH B 56 1156 86 HOH HOH . M 5 HOH B 57 1157 87 HOH HOH . M 5 HOH B 58 1158 98 HOH HOH . M 5 HOH B 59 1159 100 HOH HOH . M 5 HOH B 60 1160 104 HOH HOH . M 5 HOH B 61 1161 105 HOH HOH . M 5 HOH B 62 1162 106 HOH HOH . M 5 HOH B 63 1163 111 HOH HOH . M 5 HOH B 64 1164 112 HOH HOH . M 5 HOH B 65 1165 114 HOH HOH . M 5 HOH B 66 1166 120 HOH HOH . M 5 HOH B 67 1167 123 HOH HOH . M 5 HOH B 68 1168 124 HOH HOH . M 5 HOH B 69 1169 126 HOH HOH . M 5 HOH B 70 1170 127 HOH HOH . M 5 HOH B 71 1171 129 HOH HOH . M 5 HOH B 72 1172 151 HOH HOH . M 5 HOH B 73 1173 158 HOH HOH . M 5 HOH B 74 1174 159 HOH HOH . M 5 HOH B 75 1175 160 HOH HOH . M 5 HOH B 76 1176 162 HOH HOH . M 5 HOH B 77 1177 167 HOH HOH . M 5 HOH B 78 1178 176 HOH HOH . M 5 HOH B 79 1179 180 HOH HOH . M 5 HOH B 80 1180 181 HOH HOH . M 5 HOH B 81 1181 182 HOH HOH . M 5 HOH B 82 1182 183 HOH HOH . M 5 HOH B 83 1183 184 HOH HOH . M 5 HOH B 84 1184 185 HOH HOH . M 5 HOH B 85 1185 194 HOH HOH . M 5 HOH B 86 1186 195 HOH HOH . M 5 HOH B 87 1187 202 HOH HOH . M 5 HOH B 88 1188 203 HOH HOH . M 5 HOH B 89 1189 204 HOH HOH . M 5 HOH B 90 1190 205 HOH HOH . M 5 HOH B 91 1191 210 HOH HOH . M 5 HOH B 92 1192 211 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 MPD . . . I 4 3.086 67.922 -2.293 1 59.81 ? C1 MPD 1003 B 1 HETATM 2 C C2 MPD . . . I 4 3.582 68.913 -1.258 1 66.2 ? C2 MPD 1003 B 1 HETATM 3 O O2 MPD . . . I 4 4.271 68.112 -0.23 1 57.13 ? O2 MPD 1003 B 1 HETATM 4 C CM MPD . . . I 4 4.551 69.729 -2.132 1 59.79 ? CM MPD 1003 B 1 HETATM 5 C C3 MPD . . . I 4 2.543 69.966 -0.664 1 75.64 ? C3 MPD 1003 B 1 HETATM 6 C C4 MPD . . . I 4 0.97 69.78 -0.699 1 84.18 ? C4 MPD 1003 B 1 HETATM 7 O O4 MPD . . . I 4 0.366 69.793 0.635 1 65.48 ? O4 MPD 1003 B 1 HETATM 8 C C5 MPD . . . I 4 0.239 70.807 -1.629 1 74.3 ? C5 MPD 1003 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 8 #