data_3DKV # _model_server_result.job_id ya8_8Oxh8KsRgjRnReX3WQ _model_server_result.datetime_utc '2024-11-15 09:42:49' _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 3dkv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":221}' # _entry.id 3DKV # _exptl.entry_id 3DKV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 3 _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 3DKV _cell.length_a 44.624 _cell.length_b 62.056 _cell.length_c 86.995 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3DKV _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 PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 5 E N N ? 5 F N N ? 5 G 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 SG CYS 130 A CYS 130 1_555 B ZN ZN . A ZN 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc2 A SG CYS 133 A CYS 133 1_555 B ZN ZN . A ZN 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc3 A SG CYS 150 A CYS 150 1_555 B ZN ZN . A ZN 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc4 A OD2 ASP 153 A ASP 153 1_555 B ZN ZN . A ZN 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc5 C MG MG . A MG 219 1_555 D O2B AP5 . A AP5 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc6 C MG MG . A MG 219 1_555 D O2G AP5 . A AP5 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc7 C MG MG . A MG 219 1_555 G O1 EDO . A EDO 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc8 C MG MG . A MG 219 1_555 G O2 EDO . A EDO 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc9 C MG MG . A MG 219 1_555 H O HOH . A HOH 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc10 C MG MG . A MG 219 1_555 H O HOH . A HOH 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.516 ? # _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 174 n n C1 C2 EDO sing 175 n n C1 H11 EDO sing 176 n n C1 H12 EDO sing 177 n n O1 HO1 EDO sing 178 n n C2 O2 EDO sing 179 n n C2 H21 EDO sing 180 n n C2 H22 EDO sing 181 n n O2 HO2 EDO sing 182 n n # _atom_sites.entry_id 3DKV _atom_sites.fract_transf_matrix[1][1] 0.022409 _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] 0.016114 _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] 0.011495 _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 B 2 ZN A 1 218 1 ZN ZN . C 3 MG A 1 219 2 MG MG . D 4 AP5 A 1 220 3 AP5 AP5 . E 5 EDO A 1 221 200 EDO EDO . F 5 EDO A 1 222 201 EDO EDO . G 5 EDO A 1 223 202 EDO EDO . H 6 HOH A 1 224 2 HOH HOH . H 6 HOH A 2 225 3 HOH HOH . H 6 HOH A 3 226 4 HOH HOH . H 6 HOH A 4 227 5 HOH HOH . H 6 HOH A 5 228 6 HOH HOH . H 6 HOH A 6 229 7 HOH HOH . H 6 HOH A 7 230 8 HOH HOH . H 6 HOH A 8 231 9 HOH HOH . H 6 HOH A 9 232 10 HOH HOH . H 6 HOH A 10 233 11 HOH HOH . H 6 HOH A 11 234 12 HOH HOH . H 6 HOH A 12 235 13 HOH HOH . H 6 HOH A 13 236 15 HOH HOH . H 6 HOH A 14 237 16 HOH HOH . H 6 HOH A 15 238 17 HOH HOH . H 6 HOH A 16 239 18 HOH HOH . H 6 HOH A 17 240 19 HOH HOH . H 6 HOH A 18 241 20 HOH HOH . H 6 HOH A 19 242 24 HOH HOH . H 6 HOH A 20 243 25 HOH HOH . H 6 HOH A 21 244 26 HOH HOH . H 6 HOH A 22 245 27 HOH HOH . H 6 HOH A 23 246 29 HOH HOH . H 6 HOH A 24 247 30 HOH HOH . H 6 HOH A 25 248 31 HOH HOH . H 6 HOH A 26 249 32 HOH HOH . H 6 HOH A 27 250 33 HOH HOH . H 6 HOH A 28 251 34 HOH HOH . H 6 HOH A 29 252 35 HOH HOH . H 6 HOH A 30 253 36 HOH HOH . H 6 HOH A 31 254 37 HOH HOH . H 6 HOH A 32 255 38 HOH HOH . H 6 HOH A 33 256 39 HOH HOH . H 6 HOH A 34 257 40 HOH HOH . H 6 HOH A 35 258 41 HOH HOH . H 6 HOH A 36 259 42 HOH HOH . H 6 HOH A 37 260 43 HOH HOH . H 6 HOH A 38 261 44 HOH HOH . H 6 HOH A 39 262 45 HOH HOH . H 6 HOH A 40 263 46 HOH HOH . H 6 HOH A 41 264 47 HOH HOH . H 6 HOH A 42 265 48 HOH HOH . H 6 HOH A 43 266 49 HOH HOH . H 6 HOH A 44 267 50 HOH HOH . H 6 HOH A 45 268 51 HOH HOH . H 6 HOH A 46 269 52 HOH HOH . H 6 HOH A 47 270 53 HOH HOH . H 6 HOH A 48 271 54 HOH HOH . H 6 HOH A 49 272 55 HOH HOH . H 6 HOH A 50 273 56 HOH HOH . H 6 HOH A 51 274 57 HOH HOH . H 6 HOH A 52 275 58 HOH HOH . H 6 HOH A 53 276 59 HOH HOH . H 6 HOH A 54 277 60 HOH HOH . H 6 HOH A 55 278 61 HOH HOH . H 6 HOH A 56 279 62 HOH HOH . H 6 HOH A 57 280 63 HOH HOH . H 6 HOH A 58 281 64 HOH HOH . H 6 HOH A 59 282 65 HOH HOH . H 6 HOH A 60 283 66 HOH HOH . H 6 HOH A 61 284 67 HOH HOH . H 6 HOH A 62 285 68 HOH HOH . H 6 HOH A 63 286 69 HOH HOH . H 6 HOH A 64 287 70 HOH HOH . H 6 HOH A 65 288 71 HOH HOH . H 6 HOH A 66 289 72 HOH HOH . H 6 HOH A 67 290 73 HOH HOH . H 6 HOH A 68 291 74 HOH HOH . H 6 HOH A 69 292 75 HOH HOH . H 6 HOH A 70 293 76 HOH HOH . H 6 HOH A 71 294 77 HOH HOH . H 6 HOH A 72 295 78 HOH HOH . H 6 HOH A 73 296 79 HOH HOH . H 6 HOH A 74 297 80 HOH HOH . H 6 HOH A 75 298 81 HOH HOH . H 6 HOH A 76 299 82 HOH HOH . H 6 HOH A 77 300 83 HOH HOH . H 6 HOH A 78 301 84 HOH HOH . H 6 HOH A 79 302 85 HOH HOH . H 6 HOH A 80 303 86 HOH HOH . H 6 HOH A 81 304 87 HOH HOH . H 6 HOH A 82 305 88 HOH HOH . H 6 HOH A 83 306 90 HOH HOH . H 6 HOH A 84 307 91 HOH HOH . H 6 HOH A 85 308 92 HOH HOH . H 6 HOH A 86 309 93 HOH HOH . H 6 HOH A 87 310 94 HOH HOH . H 6 HOH A 88 311 95 HOH HOH . H 6 HOH A 89 312 96 HOH HOH . H 6 HOH A 90 313 97 HOH HOH . H 6 HOH A 91 314 98 HOH HOH . H 6 HOH A 92 315 99 HOH HOH . H 6 HOH A 93 316 100 HOH HOH . H 6 HOH A 94 317 101 HOH HOH . H 6 HOH A 95 318 102 HOH HOH . H 6 HOH A 96 319 103 HOH HOH . H 6 HOH A 97 320 104 HOH HOH . H 6 HOH A 98 321 105 HOH HOH . H 6 HOH A 99 322 106 HOH HOH . H 6 HOH A 100 323 107 HOH HOH . H 6 HOH A 101 324 108 HOH HOH . H 6 HOH A 102 325 109 HOH HOH . H 6 HOH A 103 326 110 HOH HOH . H 6 HOH A 104 327 111 HOH HOH . H 6 HOH A 105 328 112 HOH HOH . H 6 HOH A 106 329 113 HOH HOH . H 6 HOH A 107 330 114 HOH HOH . H 6 HOH A 108 331 115 HOH HOH . H 6 HOH A 109 332 116 HOH HOH . H 6 HOH A 110 333 117 HOH HOH . H 6 HOH A 111 334 118 HOH HOH . H 6 HOH A 112 335 119 HOH HOH . H 6 HOH A 113 336 120 HOH HOH . H 6 HOH A 114 337 121 HOH HOH . H 6 HOH A 115 338 122 HOH HOH . H 6 HOH A 116 339 123 HOH HOH . H 6 HOH A 117 340 124 HOH HOH . H 6 HOH A 118 341 125 HOH HOH . H 6 HOH A 119 342 126 HOH HOH . H 6 HOH A 120 343 127 HOH HOH . H 6 HOH A 121 344 128 HOH HOH . H 6 HOH A 122 345 129 HOH HOH . H 6 HOH A 123 346 130 HOH HOH . H 6 HOH A 124 347 131 HOH HOH . H 6 HOH A 125 348 132 HOH HOH . H 6 HOH A 126 349 133 HOH HOH . H 6 HOH A 127 350 135 HOH HOH . H 6 HOH A 128 351 136 HOH HOH . H 6 HOH A 129 352 137 HOH HOH . H 6 HOH A 130 353 138 HOH HOH . H 6 HOH A 131 354 139 HOH HOH . H 6 HOH A 132 355 140 HOH HOH . H 6 HOH A 133 356 141 HOH HOH . H 6 HOH A 134 357 142 HOH HOH . H 6 HOH A 135 358 143 HOH HOH . H 6 HOH A 136 359 144 HOH HOH . H 6 HOH A 137 360 145 HOH HOH . H 6 HOH A 138 361 146 HOH HOH . H 6 HOH A 139 362 147 HOH HOH . H 6 HOH A 140 363 148 HOH HOH . H 6 HOH A 141 364 149 HOH HOH . H 6 HOH A 142 365 150 HOH HOH . H 6 HOH A 143 366 151 HOH HOH . H 6 HOH A 144 367 152 HOH HOH . H 6 HOH A 145 368 153 HOH HOH . H 6 HOH A 146 369 154 HOH HOH . H 6 HOH A 147 370 155 HOH HOH . H 6 HOH A 148 371 156 HOH HOH . H 6 HOH A 149 372 157 HOH HOH . H 6 HOH A 150 373 158 HOH HOH . H 6 HOH A 151 374 159 HOH HOH . H 6 HOH A 152 375 160 HOH HOH . H 6 HOH A 153 376 161 HOH HOH . H 6 HOH A 154 377 162 HOH HOH . H 6 HOH A 155 378 163 HOH HOH . H 6 HOH A 156 379 164 HOH HOH . H 6 HOH A 157 380 165 HOH HOH . H 6 HOH A 158 381 166 HOH HOH . H 6 HOH A 159 382 167 HOH HOH . H 6 HOH A 160 383 168 HOH HOH . H 6 HOH A 161 384 169 HOH HOH . H 6 HOH A 162 385 170 HOH HOH . H 6 HOH A 163 386 171 HOH HOH . H 6 HOH A 164 387 172 HOH HOH . H 6 HOH A 165 388 173 HOH HOH . H 6 HOH A 166 389 174 HOH HOH . H 6 HOH A 167 390 175 HOH HOH . H 6 HOH A 168 391 176 HOH HOH . H 6 HOH A 169 392 177 HOH HOH . H 6 HOH A 170 393 178 HOH HOH . H 6 HOH A 171 394 180 HOH HOH . H 6 HOH A 172 395 181 HOH HOH . H 6 HOH A 173 396 182 HOH HOH . H 6 HOH A 174 397 183 HOH HOH . H 6 HOH A 175 398 184 HOH HOH . H 6 HOH A 176 399 185 HOH HOH . H 6 HOH A 177 400 186 HOH HOH . H 6 HOH A 178 401 187 HOH HOH . H 6 HOH A 179 402 188 HOH HOH . H 6 HOH A 180 403 189 HOH HOH . H 6 HOH A 181 404 190 HOH HOH . H 6 HOH A 182 405 191 HOH HOH . H 6 HOH A 183 406 192 HOH HOH . H 6 HOH A 184 407 193 HOH HOH . H 6 HOH A 185 408 194 HOH HOH . H 6 HOH A 186 409 195 HOH HOH . H 6 HOH A 187 410 196 HOH HOH . H 6 HOH A 188 411 197 HOH HOH . H 6 HOH A 189 412 198 HOH HOH . H 6 HOH A 190 413 199 HOH HOH . H 6 HOH A 191 414 200 HOH HOH . H 6 HOH A 192 415 201 HOH HOH . H 6 HOH A 193 416 202 HOH HOH . H 6 HOH A 194 417 203 HOH HOH . H 6 HOH A 195 418 204 HOH HOH . H 6 HOH A 196 419 205 HOH HOH . H 6 HOH A 197 420 206 HOH HOH . H 6 HOH A 198 421 207 HOH HOH . H 6 HOH A 199 422 208 HOH HOH . H 6 HOH A 200 423 209 HOH HOH . H 6 HOH A 201 424 210 HOH HOH . H 6 HOH A 202 425 212 HOH HOH . H 6 HOH A 203 426 213 HOH HOH . H 6 HOH A 204 427 214 HOH HOH . H 6 HOH A 205 428 215 HOH HOH . H 6 HOH A 206 429 216 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 . . . E 5 -26.784 -1.52 -21.782 1 29.28 ? C1 EDO 221 A 1 HETATM 2 O O1 EDO . . . E 5 -27.859 -2.128 -21.056 1 29.7 ? O1 EDO 221 A 1 HETATM 3 C C2 EDO . . . E 5 -27.268 -1.012 -23.138 1 31.69 ? C2 EDO 221 A 1 HETATM 4 O O2 EDO . . . E 5 -28.417 -0.186 -22.893 1 34.03 ? O2 EDO 221 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 4 #