data_3PYD # _model_server_result.job_id wPGLa0mi97_2JA6D3wL54Q _model_server_result.datetime_utc '2024-12-05 19:04:24' _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 3pyd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1272}' # _entry.id 3PYD # _exptl.entry_id 3PYD _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 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 90 _cell.entry_id 3PYD _cell.length_a 52.584 _cell.length_b 72.375 _cell.length_c 107.393 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PYD _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 _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _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 3PYD _atom_sites.fract_transf_matrix[1][1] 0.019017 _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] 0.013817 _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] 0.009312 _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 1272 1272 GOL GOL . C 3 HOH A 1 307 1 HOH HOH . C 3 HOH A 2 308 2 HOH HOH . C 3 HOH A 3 309 3 HOH HOH . C 3 HOH A 4 310 4 HOH HOH . C 3 HOH A 5 311 5 HOH HOH . C 3 HOH A 6 312 6 HOH HOH . C 3 HOH A 7 313 7 HOH HOH . C 3 HOH A 8 314 8 HOH HOH . C 3 HOH A 9 315 9 HOH HOH . C 3 HOH A 10 316 10 HOH HOH . C 3 HOH A 11 317 11 HOH HOH . C 3 HOH A 12 318 12 HOH HOH . C 3 HOH A 13 319 13 HOH HOH . C 3 HOH A 14 320 14 HOH HOH . C 3 HOH A 15 321 15 HOH HOH . C 3 HOH A 16 322 16 HOH HOH . C 3 HOH A 17 323 17 HOH HOH . C 3 HOH A 18 324 18 HOH HOH . C 3 HOH A 19 325 19 HOH HOH . C 3 HOH A 20 326 20 HOH HOH . C 3 HOH A 21 327 22 HOH HOH . C 3 HOH A 22 328 23 HOH HOH . C 3 HOH A 23 329 24 HOH HOH . C 3 HOH A 24 330 25 HOH HOH . C 3 HOH A 25 331 26 HOH HOH . C 3 HOH A 26 332 27 HOH HOH . C 3 HOH A 27 333 29 HOH HOH . C 3 HOH A 28 334 30 HOH HOH . C 3 HOH A 29 335 31 HOH HOH . C 3 HOH A 30 336 32 HOH HOH . C 3 HOH A 31 337 33 HOH HOH . C 3 HOH A 32 338 34 HOH HOH . C 3 HOH A 33 339 35 HOH HOH . C 3 HOH A 34 340 36 HOH HOH . C 3 HOH A 35 341 37 HOH HOH . C 3 HOH A 36 342 38 HOH HOH . C 3 HOH A 37 343 39 HOH HOH . C 3 HOH A 38 344 40 HOH HOH . C 3 HOH A 39 345 41 HOH HOH . C 3 HOH A 40 346 42 HOH HOH . C 3 HOH A 41 347 43 HOH HOH . C 3 HOH A 42 348 44 HOH HOH . C 3 HOH A 43 349 45 HOH HOH . C 3 HOH A 44 350 46 HOH HOH . C 3 HOH A 45 351 47 HOH HOH . C 3 HOH A 46 352 48 HOH HOH . C 3 HOH A 47 353 49 HOH HOH . C 3 HOH A 48 354 50 HOH HOH . C 3 HOH A 49 355 51 HOH HOH . C 3 HOH A 50 356 52 HOH HOH . C 3 HOH A 51 357 53 HOH HOH . C 3 HOH A 52 358 54 HOH HOH . C 3 HOH A 53 359 55 HOH HOH . C 3 HOH A 54 360 56 HOH HOH . C 3 HOH A 55 361 57 HOH HOH . C 3 HOH A 56 362 58 HOH HOH . C 3 HOH A 57 363 59 HOH HOH . C 3 HOH A 58 364 60 HOH HOH . C 3 HOH A 59 365 61 HOH HOH . C 3 HOH A 60 366 62 HOH HOH . C 3 HOH A 61 367 63 HOH HOH . C 3 HOH A 62 368 64 HOH HOH . C 3 HOH A 63 369 65 HOH HOH . C 3 HOH A 64 370 66 HOH HOH . C 3 HOH A 65 371 67 HOH HOH . C 3 HOH A 66 372 68 HOH HOH . C 3 HOH A 67 373 69 HOH HOH . C 3 HOH A 68 374 70 HOH HOH . C 3 HOH A 69 375 71 HOH HOH . C 3 HOH A 70 376 72 HOH HOH . C 3 HOH A 71 377 73 HOH HOH . C 3 HOH A 72 378 74 HOH HOH . C 3 HOH A 73 379 75 HOH HOH . C 3 HOH A 74 380 76 HOH HOH . C 3 HOH A 75 381 77 HOH HOH . C 3 HOH A 76 382 78 HOH HOH . C 3 HOH A 77 383 79 HOH HOH . C 3 HOH A 78 384 80 HOH HOH . C 3 HOH A 79 385 81 HOH HOH . C 3 HOH A 80 386 82 HOH HOH . C 3 HOH A 81 387 83 HOH HOH . C 3 HOH A 82 388 84 HOH HOH . C 3 HOH A 83 389 85 HOH HOH . C 3 HOH A 84 390 86 HOH HOH . C 3 HOH A 85 391 87 HOH HOH . C 3 HOH A 86 392 88 HOH HOH . C 3 HOH A 87 393 89 HOH HOH . C 3 HOH A 88 394 90 HOH HOH . C 3 HOH A 89 395 91 HOH HOH . C 3 HOH A 90 396 92 HOH HOH . C 3 HOH A 91 397 93 HOH HOH . C 3 HOH A 92 398 94 HOH HOH . C 3 HOH A 93 399 95 HOH HOH . C 3 HOH A 94 400 96 HOH HOH . C 3 HOH A 95 401 97 HOH HOH . C 3 HOH A 96 402 98 HOH HOH . C 3 HOH A 97 403 99 HOH HOH . C 3 HOH A 98 404 100 HOH HOH . C 3 HOH A 99 405 101 HOH HOH . C 3 HOH A 100 406 102 HOH HOH . C 3 HOH A 101 407 103 HOH HOH . C 3 HOH A 102 408 104 HOH HOH . C 3 HOH A 103 409 105 HOH HOH . C 3 HOH A 104 410 106 HOH HOH . C 3 HOH A 105 411 107 HOH HOH . C 3 HOH A 106 412 108 HOH HOH . C 3 HOH A 107 413 109 HOH HOH . C 3 HOH A 108 414 110 HOH HOH . C 3 HOH A 109 415 111 HOH HOH . C 3 HOH A 110 416 112 HOH HOH . C 3 HOH A 111 417 113 HOH HOH . C 3 HOH A 112 418 114 HOH HOH . C 3 HOH A 113 419 115 HOH HOH . C 3 HOH A 114 420 116 HOH HOH . C 3 HOH A 115 421 117 HOH HOH . C 3 HOH A 116 422 118 HOH HOH . C 3 HOH A 117 423 119 HOH HOH . C 3 HOH A 118 424 120 HOH HOH . C 3 HOH A 119 425 121 HOH HOH . C 3 HOH A 120 426 122 HOH HOH . C 3 HOH A 121 427 123 HOH HOH . C 3 HOH A 122 428 124 HOH HOH . C 3 HOH A 123 429 125 HOH HOH . C 3 HOH A 124 430 126 HOH HOH . C 3 HOH A 125 431 127 HOH HOH . C 3 HOH A 126 432 128 HOH HOH . C 3 HOH A 127 433 129 HOH HOH . C 3 HOH A 128 434 130 HOH HOH . C 3 HOH A 129 435 131 HOH HOH . C 3 HOH A 130 436 132 HOH HOH . C 3 HOH A 131 437 133 HOH HOH . C 3 HOH A 132 438 134 HOH HOH . C 3 HOH A 133 439 135 HOH HOH . C 3 HOH A 134 440 136 HOH HOH . C 3 HOH A 135 441 137 HOH HOH . C 3 HOH A 136 442 138 HOH HOH . C 3 HOH A 137 443 139 HOH HOH . C 3 HOH A 138 444 140 HOH HOH . C 3 HOH A 139 445 141 HOH HOH . C 3 HOH A 140 446 142 HOH HOH . C 3 HOH A 141 447 143 HOH HOH . C 3 HOH A 142 448 144 HOH HOH . C 3 HOH A 143 449 145 HOH HOH . C 3 HOH A 144 450 146 HOH HOH . C 3 HOH A 145 451 147 HOH HOH . C 3 HOH A 146 452 148 HOH HOH . C 3 HOH A 147 453 149 HOH HOH . C 3 HOH A 148 454 150 HOH HOH . C 3 HOH A 149 455 151 HOH HOH . C 3 HOH A 150 456 152 HOH HOH . C 3 HOH A 151 457 153 HOH HOH . C 3 HOH A 152 458 154 HOH HOH . C 3 HOH A 153 459 155 HOH HOH . C 3 HOH A 154 460 156 HOH HOH . C 3 HOH A 155 461 157 HOH HOH . C 3 HOH A 156 462 158 HOH HOH . C 3 HOH A 157 463 159 HOH HOH . C 3 HOH A 158 464 160 HOH HOH . C 3 HOH A 159 465 161 HOH HOH . C 3 HOH A 160 466 162 HOH HOH . C 3 HOH A 161 467 163 HOH HOH . C 3 HOH A 162 468 164 HOH HOH . C 3 HOH A 163 469 165 HOH HOH . C 3 HOH A 164 470 166 HOH HOH . C 3 HOH A 165 471 167 HOH HOH . C 3 HOH A 166 472 168 HOH HOH . C 3 HOH A 167 473 169 HOH HOH . C 3 HOH A 168 474 170 HOH HOH . C 3 HOH A 169 475 171 HOH HOH . C 3 HOH A 170 476 172 HOH HOH . C 3 HOH A 171 477 173 HOH HOH . C 3 HOH A 172 478 174 HOH HOH . C 3 HOH A 173 479 175 HOH HOH . C 3 HOH A 174 480 176 HOH HOH . C 3 HOH A 175 481 177 HOH HOH . C 3 HOH A 176 482 178 HOH HOH . C 3 HOH A 177 483 179 HOH HOH . C 3 HOH A 178 484 180 HOH HOH . C 3 HOH A 179 485 181 HOH HOH . C 3 HOH A 180 486 182 HOH HOH . C 3 HOH A 181 487 183 HOH HOH . C 3 HOH A 182 488 184 HOH HOH . C 3 HOH A 183 489 185 HOH HOH . C 3 HOH A 184 490 186 HOH HOH . C 3 HOH A 185 491 187 HOH HOH . C 3 HOH A 186 492 188 HOH HOH . C 3 HOH A 187 493 189 HOH HOH . C 3 HOH A 188 494 190 HOH HOH . C 3 HOH A 189 495 191 HOH HOH . C 3 HOH A 190 496 192 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 . . . B 2 -9.463 -10.322 6.386 1 44.77 ? C1 GOL 1272 A 1 HETATM 2 O O1 GOL . . . B 2 -9.165 -8.964 6.29 1 42.18 ? O1 GOL 1272 A 1 HETATM 3 C C2 GOL . . . B 2 -8.621 -11.186 7.331 1 46.52 ? C2 GOL 1272 A 1 HETATM 4 O O2 GOL . . . B 2 -9.332 -11.199 8.535 1 45.48 ? O2 GOL 1272 A 1 HETATM 5 C C3 GOL . . . B 2 -8.624 -12.641 6.853 1 47.16 ? C3 GOL 1272 A 1 HETATM 6 O O3 GOL . . . B 2 -7.38 -13.288 6.717 1 50.84 ? O3 GOL 1272 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 6 #