data_3LWD # _model_server_result.job_id GfqVAME_cndsJBmVCEcleQ _model_server_result.datetime_utc '2024-12-21 14:17:14' _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 3lwd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":227}' # _entry.id 3LWD # _exptl.entry_id 3LWD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 120 _cell.entry_id 3LWD _cell.length_a 60.647 _cell.length_b 60.647 _cell.length_c 133.089 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LWD _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 133.089 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C 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 covale ? covale1 A C GLY 132 A GLY 131 1_555 A N MSE 133 A MSE 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale2 A C MSE 133 A MSE 132 1_555 A N GLY 134 A GLY 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? metalc ? metalc1 A O ALA 164 A ALA 163 1_555 D NA NA . A NA 228 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc2 A O VAL 167 A VAL 166 1_555 D NA NA . A NA 228 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc3 D NA NA . A NA 228 1_555 E O HOH . A HOH 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? metalc ? metalc4 D NA NA . A NA 228 1_555 E O HOH . A HOH 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc5 D NA NA . A NA 228 1_555 E O HOH . A HOH 374 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc6 D NA NA . A NA 228 1_555 E O HOH . A HOH 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.659 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 3LWD _atom_sites.fract_transf_matrix[1][1] 0.016489 _atom_sites.fract_transf_matrix[1][2] 0.00952 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01904 _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] 0.007514 _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 GOL A 1 226 1 GOL GOL . C 2 GOL A 1 227 2 GOL GOL . D 3 NA A 1 228 3 NA NA . E 4 HOH A 1 229 229 HOH HOH . E 4 HOH A 2 230 230 HOH HOH . E 4 HOH A 3 231 231 HOH HOH . E 4 HOH A 4 232 232 HOH HOH . E 4 HOH A 5 233 233 HOH HOH . E 4 HOH A 6 234 234 HOH HOH . E 4 HOH A 7 235 235 HOH HOH . E 4 HOH A 8 236 236 HOH HOH . E 4 HOH A 9 237 237 HOH HOH . E 4 HOH A 10 238 238 HOH HOH . E 4 HOH A 11 239 239 HOH HOH . E 4 HOH A 12 240 240 HOH HOH . E 4 HOH A 13 241 241 HOH HOH . E 4 HOH A 14 242 242 HOH HOH . E 4 HOH A 15 243 243 HOH HOH . E 4 HOH A 16 244 244 HOH HOH . E 4 HOH A 17 245 245 HOH HOH . E 4 HOH A 18 246 246 HOH HOH . E 4 HOH A 19 247 247 HOH HOH . E 4 HOH A 20 248 248 HOH HOH . E 4 HOH A 21 249 249 HOH HOH . E 4 HOH A 22 250 250 HOH HOH . E 4 HOH A 23 251 251 HOH HOH . E 4 HOH A 24 252 4 HOH HOH . E 4 HOH A 25 253 5 HOH HOH . E 4 HOH A 26 254 6 HOH HOH . E 4 HOH A 27 255 7 HOH HOH . E 4 HOH A 28 256 8 HOH HOH . E 4 HOH A 29 257 9 HOH HOH . E 4 HOH A 30 258 10 HOH HOH . E 4 HOH A 31 259 11 HOH HOH . E 4 HOH A 32 260 12 HOH HOH . E 4 HOH A 33 261 13 HOH HOH . E 4 HOH A 34 262 14 HOH HOH . E 4 HOH A 35 263 15 HOH HOH . E 4 HOH A 36 264 16 HOH HOH . E 4 HOH A 37 265 17 HOH HOH . E 4 HOH A 38 266 18 HOH HOH . E 4 HOH A 39 267 19 HOH HOH . E 4 HOH A 40 268 20 HOH HOH . E 4 HOH A 41 269 21 HOH HOH . E 4 HOH A 42 270 22 HOH HOH . E 4 HOH A 43 271 23 HOH HOH . E 4 HOH A 44 272 24 HOH HOH . E 4 HOH A 45 273 25 HOH HOH . E 4 HOH A 46 274 26 HOH HOH . E 4 HOH A 47 275 27 HOH HOH . E 4 HOH A 48 276 28 HOH HOH . E 4 HOH A 49 277 29 HOH HOH . E 4 HOH A 50 278 30 HOH HOH . E 4 HOH A 51 279 31 HOH HOH . E 4 HOH A 52 280 32 HOH HOH . E 4 HOH A 53 281 33 HOH HOH . E 4 HOH A 54 282 34 HOH HOH . E 4 HOH A 55 283 35 HOH HOH . E 4 HOH A 56 284 36 HOH HOH . E 4 HOH A 57 285 37 HOH HOH . E 4 HOH A 58 286 38 HOH HOH . E 4 HOH A 59 287 39 HOH HOH . E 4 HOH A 60 288 40 HOH HOH . E 4 HOH A 61 289 41 HOH HOH . E 4 HOH A 62 290 42 HOH HOH . E 4 HOH A 63 291 43 HOH HOH . E 4 HOH A 64 292 44 HOH HOH . E 4 HOH A 65 293 45 HOH HOH . E 4 HOH A 66 294 46 HOH HOH . E 4 HOH A 67 295 47 HOH HOH . E 4 HOH A 68 296 48 HOH HOH . E 4 HOH A 69 297 49 HOH HOH . E 4 HOH A 70 298 50 HOH HOH . E 4 HOH A 71 299 51 HOH HOH . E 4 HOH A 72 300 52 HOH HOH . E 4 HOH A 73 301 53 HOH HOH . E 4 HOH A 74 302 54 HOH HOH . E 4 HOH A 75 303 55 HOH HOH . E 4 HOH A 76 304 56 HOH HOH . E 4 HOH A 77 305 57 HOH HOH . E 4 HOH A 78 306 58 HOH HOH . E 4 HOH A 79 307 59 HOH HOH . E 4 HOH A 80 308 60 HOH HOH . E 4 HOH A 81 309 61 HOH HOH . E 4 HOH A 82 310 62 HOH HOH . E 4 HOH A 83 311 63 HOH HOH . E 4 HOH A 84 312 64 HOH HOH . E 4 HOH A 85 313 65 HOH HOH . E 4 HOH A 86 314 66 HOH HOH . E 4 HOH A 87 315 67 HOH HOH . E 4 HOH A 88 316 68 HOH HOH . E 4 HOH A 89 317 69 HOH HOH . E 4 HOH A 90 318 70 HOH HOH . E 4 HOH A 91 319 71 HOH HOH . E 4 HOH A 92 320 72 HOH HOH . E 4 HOH A 93 321 73 HOH HOH . E 4 HOH A 94 322 74 HOH HOH . E 4 HOH A 95 323 75 HOH HOH . E 4 HOH A 96 324 76 HOH HOH . E 4 HOH A 97 325 77 HOH HOH . E 4 HOH A 98 326 78 HOH HOH . E 4 HOH A 99 327 79 HOH HOH . E 4 HOH A 100 328 80 HOH HOH . E 4 HOH A 101 329 81 HOH HOH . E 4 HOH A 102 330 82 HOH HOH . E 4 HOH A 103 331 83 HOH HOH . E 4 HOH A 104 332 84 HOH HOH . E 4 HOH A 105 333 85 HOH HOH . E 4 HOH A 106 334 86 HOH HOH . E 4 HOH A 107 335 87 HOH HOH . E 4 HOH A 108 336 88 HOH HOH . E 4 HOH A 109 337 89 HOH HOH . E 4 HOH A 110 338 90 HOH HOH . E 4 HOH A 111 339 91 HOH HOH . E 4 HOH A 112 340 92 HOH HOH . E 4 HOH A 113 341 93 HOH HOH . E 4 HOH A 114 342 94 HOH HOH . E 4 HOH A 115 343 95 HOH HOH . E 4 HOH A 116 344 96 HOH HOH . E 4 HOH A 117 345 97 HOH HOH . E 4 HOH A 118 346 98 HOH HOH . E 4 HOH A 119 347 99 HOH HOH . E 4 HOH A 120 348 100 HOH HOH . E 4 HOH A 121 349 101 HOH HOH . E 4 HOH A 122 350 102 HOH HOH . E 4 HOH A 123 351 103 HOH HOH . E 4 HOH A 124 352 104 HOH HOH . E 4 HOH A 125 353 105 HOH HOH . E 4 HOH A 126 354 106 HOH HOH . E 4 HOH A 127 355 107 HOH HOH . E 4 HOH A 128 356 108 HOH HOH . E 4 HOH A 129 357 109 HOH HOH . E 4 HOH A 130 358 110 HOH HOH . E 4 HOH A 131 359 111 HOH HOH . E 4 HOH A 132 360 112 HOH HOH . E 4 HOH A 133 361 113 HOH HOH . E 4 HOH A 134 362 114 HOH HOH . E 4 HOH A 135 363 115 HOH HOH . E 4 HOH A 136 364 116 HOH HOH . E 4 HOH A 137 365 117 HOH HOH . E 4 HOH A 138 366 118 HOH HOH . E 4 HOH A 139 367 119 HOH HOH . E 4 HOH A 140 368 120 HOH HOH . E 4 HOH A 141 369 121 HOH HOH . E 4 HOH A 142 370 122 HOH HOH . E 4 HOH A 143 371 123 HOH HOH . E 4 HOH A 144 372 124 HOH HOH . E 4 HOH A 145 373 125 HOH HOH . E 4 HOH A 146 374 126 HOH HOH . E 4 HOH A 147 375 127 HOH HOH . E 4 HOH A 148 376 128 HOH HOH . E 4 HOH A 149 377 129 HOH HOH . E 4 HOH A 150 378 130 HOH HOH . E 4 HOH A 151 379 131 HOH HOH . E 4 HOH A 152 380 132 HOH HOH . E 4 HOH A 153 381 133 HOH HOH . E 4 HOH A 154 382 134 HOH HOH . E 4 HOH A 155 383 135 HOH HOH . E 4 HOH A 156 384 136 HOH HOH . E 4 HOH A 157 385 137 HOH HOH . E 4 HOH A 158 386 138 HOH HOH . E 4 HOH A 159 387 139 HOH HOH . E 4 HOH A 160 388 140 HOH HOH . E 4 HOH A 161 389 141 HOH HOH . E 4 HOH A 162 390 142 HOH HOH . E 4 HOH A 163 391 143 HOH HOH . E 4 HOH A 164 392 144 HOH HOH . E 4 HOH A 165 393 145 HOH HOH . E 4 HOH A 166 394 146 HOH HOH . E 4 HOH A 167 395 147 HOH HOH . E 4 HOH A 168 396 148 HOH HOH . E 4 HOH A 169 397 149 HOH HOH . E 4 HOH A 170 398 150 HOH HOH . E 4 HOH A 171 399 151 HOH HOH . E 4 HOH A 172 400 152 HOH HOH . E 4 HOH A 173 401 153 HOH HOH . E 4 HOH A 174 402 154 HOH HOH . E 4 HOH A 175 403 155 HOH HOH . E 4 HOH A 176 404 156 HOH HOH . E 4 HOH A 177 405 157 HOH HOH . E 4 HOH A 178 406 158 HOH HOH . E 4 HOH A 179 407 159 HOH HOH . E 4 HOH A 180 408 160 HOH HOH . E 4 HOH A 181 409 161 HOH HOH . E 4 HOH A 182 410 162 HOH HOH . E 4 HOH A 183 411 163 HOH HOH . E 4 HOH A 184 412 164 HOH HOH . E 4 HOH A 185 413 165 HOH HOH . E 4 HOH A 186 414 166 HOH HOH . E 4 HOH A 187 415 167 HOH HOH . E 4 HOH A 188 416 168 HOH HOH . E 4 HOH A 189 417 169 HOH HOH . E 4 HOH A 190 418 170 HOH HOH . E 4 HOH A 191 419 171 HOH HOH . E 4 HOH A 192 420 172 HOH HOH . E 4 HOH A 193 421 173 HOH HOH . E 4 HOH A 194 422 174 HOH HOH . E 4 HOH A 195 423 175 HOH HOH . E 4 HOH A 196 424 176 HOH HOH . E 4 HOH A 197 425 177 HOH HOH . E 4 HOH A 198 426 178 HOH HOH . E 4 HOH A 199 427 179 HOH HOH . E 4 HOH A 200 428 180 HOH HOH . E 4 HOH A 201 429 181 HOH HOH . E 4 HOH A 202 430 182 HOH HOH . E 4 HOH A 203 431 183 HOH HOH . E 4 HOH A 204 432 184 HOH HOH . E 4 HOH A 205 433 185 HOH HOH . E 4 HOH A 206 434 186 HOH HOH . E 4 HOH A 207 435 187 HOH HOH . E 4 HOH A 208 436 188 HOH HOH . E 4 HOH A 209 437 189 HOH HOH . E 4 HOH A 210 438 190 HOH HOH . E 4 HOH A 211 439 191 HOH HOH . E 4 HOH A 212 440 192 HOH HOH . E 4 HOH A 213 441 193 HOH HOH . E 4 HOH A 214 442 194 HOH HOH . E 4 HOH A 215 443 195 HOH HOH . E 4 HOH A 216 444 196 HOH HOH . E 4 HOH A 217 445 197 HOH HOH . E 4 HOH A 218 446 198 HOH HOH . E 4 HOH A 219 447 199 HOH HOH . E 4 HOH A 220 448 200 HOH HOH . E 4 HOH A 221 449 201 HOH HOH . E 4 HOH A 222 450 202 HOH HOH . E 4 HOH A 223 451 203 HOH HOH . E 4 HOH A 224 452 204 HOH HOH . E 4 HOH A 225 453 205 HOH HOH . E 4 HOH A 226 454 206 HOH HOH . E 4 HOH A 227 455 207 HOH HOH . E 4 HOH A 228 456 208 HOH HOH . E 4 HOH A 229 457 209 HOH HOH . E 4 HOH A 230 458 210 HOH HOH . E 4 HOH A 231 459 211 HOH HOH . E 4 HOH A 232 460 212 HOH HOH . E 4 HOH A 233 461 213 HOH HOH . E 4 HOH A 234 462 214 HOH HOH . E 4 HOH A 235 463 215 HOH HOH . E 4 HOH A 236 464 216 HOH HOH . E 4 HOH A 237 465 217 HOH HOH . E 4 HOH A 238 466 218 HOH HOH . E 4 HOH A 239 467 219 HOH HOH . E 4 HOH A 240 468 220 HOH HOH . E 4 HOH A 241 469 221 HOH HOH . E 4 HOH A 242 470 222 HOH HOH . E 4 HOH A 243 471 223 HOH HOH . E 4 HOH A 244 472 224 HOH HOH . E 4 HOH A 245 473 225 HOH HOH . E 4 HOH A 246 474 226 HOH HOH . E 4 HOH A 247 475 227 HOH HOH . E 4 HOH A 248 476 228 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 GOL . . . C 2 8.06 24.301 31.528 1 50.15 ? C1 GOL 227 A 1 HETATM 2 O O1 GOL . . . C 2 7.905 24.825 30.222 1 52.24 ? O1 GOL 227 A 1 HETATM 3 C C2 GOL . . . C 2 6.848 23.43 31.868 1 50.19 ? C2 GOL 227 A 1 HETATM 4 O O2 GOL . . . C 2 5.663 24.043 31.434 1 47.42 ? O2 GOL 227 A 1 HETATM 5 C C3 GOL . . . C 2 6.732 23.22 33.361 1 49.7 ? C3 GOL 227 A 1 HETATM 6 O O3 GOL . . . C 2 6.738 24.477 33.973 1 48.77 ? O3 GOL 227 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 6 #