data_3W5J # _model_server_result.job_id iJjV4psYnoTiBWizQe8nPg _model_server_result.datetime_utc '2024-11-29 13:21:02' _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 3w5j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":302}' # _entry.id 3W5J # _exptl.entry_id 3W5J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _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 3W5J _cell.length_a 45.76 _cell.length_b 84.04 _cell.length_c 95.45 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3W5J _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 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 _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 3 _struct_asym.id D _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 161 n n C1 C2 GOL sing 162 n n C1 H11 GOL sing 163 n n C1 H12 GOL sing 164 n n O1 HO1 GOL sing 165 n n C2 O2 GOL sing 166 n n C2 C3 GOL sing 167 n n C2 H2 GOL sing 168 n n O2 HO2 GOL sing 169 n n C3 O3 GOL sing 170 n n C3 H31 GOL sing 171 n n C3 H32 GOL sing 172 n n O3 HO3 GOL sing 173 n n # _atom_sites.entry_id 3W5J _atom_sites.fract_transf_matrix[1][1] 0.021853 _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] 0.011899 _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] 0.010477 _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 GDP A 1 301 1 GDP GDP . D 3 GOL A 1 302 1 GOL GOL . E 4 SO4 B 1 301 1 SO4 SO4 . F 5 HOH A 1 401 3 HOH HOH . F 5 HOH A 2 402 6 HOH HOH . F 5 HOH A 3 403 7 HOH HOH . F 5 HOH A 4 404 8 HOH HOH . F 5 HOH A 5 405 10 HOH HOH . F 5 HOH A 6 406 14 HOH HOH . F 5 HOH A 7 407 15 HOH HOH . F 5 HOH A 8 408 16 HOH HOH . F 5 HOH A 9 409 17 HOH HOH . F 5 HOH A 10 410 21 HOH HOH . F 5 HOH A 11 411 22 HOH HOH . F 5 HOH A 12 412 30 HOH HOH . F 5 HOH A 13 413 31 HOH HOH . F 5 HOH A 14 414 35 HOH HOH . F 5 HOH A 15 415 37 HOH HOH . F 5 HOH A 16 416 41 HOH HOH . F 5 HOH A 17 417 45 HOH HOH . F 5 HOH A 18 418 46 HOH HOH . F 5 HOH A 19 419 47 HOH HOH . F 5 HOH A 20 420 49 HOH HOH . F 5 HOH A 21 421 50 HOH HOH . F 5 HOH A 22 422 52 HOH HOH . F 5 HOH A 23 423 57 HOH HOH . F 5 HOH A 24 424 58 HOH HOH . F 5 HOH A 25 425 59 HOH HOH . F 5 HOH A 26 426 60 HOH HOH . F 5 HOH A 27 427 64 HOH HOH . F 5 HOH A 28 428 65 HOH HOH . F 5 HOH A 29 429 69 HOH HOH . F 5 HOH A 30 430 74 HOH HOH . F 5 HOH A 31 431 75 HOH HOH . F 5 HOH A 32 432 76 HOH HOH . F 5 HOH A 33 433 78 HOH HOH . F 5 HOH A 34 434 79 HOH HOH . F 5 HOH A 35 435 80 HOH HOH . F 5 HOH A 36 436 81 HOH HOH . F 5 HOH A 37 437 88 HOH HOH . F 5 HOH A 38 438 89 HOH HOH . F 5 HOH A 39 439 91 HOH HOH . F 5 HOH A 40 440 93 HOH HOH . F 5 HOH A 41 441 96 HOH HOH . F 5 HOH A 42 442 97 HOH HOH . F 5 HOH A 43 443 104 HOH HOH . F 5 HOH A 44 444 105 HOH HOH . F 5 HOH A 45 445 106 HOH HOH . F 5 HOH A 46 446 109 HOH HOH . F 5 HOH A 47 447 113 HOH HOH . F 5 HOH A 48 448 117 HOH HOH . F 5 HOH A 49 449 119 HOH HOH . F 5 HOH A 50 450 121 HOH HOH . F 5 HOH A 51 451 123 HOH HOH . F 5 HOH A 52 452 127 HOH HOH . F 5 HOH A 53 453 134 HOH HOH . F 5 HOH A 54 454 137 HOH HOH . F 5 HOH A 55 455 138 HOH HOH . F 5 HOH A 56 456 141 HOH HOH . F 5 HOH A 57 457 143 HOH HOH . F 5 HOH A 58 458 149 HOH HOH . F 5 HOH A 59 459 160 HOH HOH . F 5 HOH A 60 460 161 HOH HOH . F 5 HOH A 61 461 162 HOH HOH . F 5 HOH A 62 462 164 HOH HOH . F 5 HOH A 63 463 174 HOH HOH . F 5 HOH A 64 464 176 HOH HOH . F 5 HOH A 65 465 178 HOH HOH . F 5 HOH A 66 466 179 HOH HOH . F 5 HOH A 67 467 182 HOH HOH . F 5 HOH A 68 468 188 HOH HOH . F 5 HOH A 69 469 192 HOH HOH . F 5 HOH A 70 470 195 HOH HOH . F 5 HOH A 71 471 197 HOH HOH . F 5 HOH A 72 472 199 HOH HOH . F 5 HOH A 73 473 200 HOH HOH . F 5 HOH A 74 474 209 HOH HOH . F 5 HOH A 75 475 212 HOH HOH . F 5 HOH A 76 476 215 HOH HOH . F 5 HOH A 77 477 217 HOH HOH . F 5 HOH A 78 478 218 HOH HOH . F 5 HOH A 79 479 222 HOH HOH . F 5 HOH A 80 480 224 HOH HOH . F 5 HOH A 81 481 225 HOH HOH . F 5 HOH A 82 482 234 HOH HOH . F 5 HOH A 83 483 235 HOH HOH . F 5 HOH A 84 484 237 HOH HOH . F 5 HOH A 85 485 242 HOH HOH . F 5 HOH A 86 486 246 HOH HOH . F 5 HOH A 87 487 247 HOH HOH . F 5 HOH A 88 488 249 HOH HOH . F 5 HOH A 89 489 259 HOH HOH . F 5 HOH A 90 490 262 HOH HOH . F 5 HOH A 91 491 271 HOH HOH . F 5 HOH A 92 492 274 HOH HOH . F 5 HOH A 93 493 275 HOH HOH . F 5 HOH A 94 494 276 HOH HOH . F 5 HOH A 95 495 281 HOH HOH . F 5 HOH A 96 496 294 HOH HOH . F 5 HOH A 97 497 298 HOH HOH . F 5 HOH A 98 498 327 HOH HOH . F 5 HOH A 99 499 334 HOH HOH . F 5 HOH A 100 500 352 HOH HOH . F 5 HOH A 101 501 361 HOH HOH . F 5 HOH A 102 502 384 HOH HOH . F 5 HOH A 103 503 394 HOH HOH . F 5 HOH A 104 504 426 HOH HOH . F 5 HOH A 105 505 430 HOH HOH . F 5 HOH A 106 506 486 HOH HOH . F 5 HOH A 107 507 596 HOH HOH . F 5 HOH A 108 508 597 HOH HOH . F 5 HOH A 109 509 598 HOH HOH . F 5 HOH A 110 510 599 HOH HOH . F 5 HOH A 111 511 601 HOH HOH . F 5 HOH A 112 512 602 HOH HOH . F 5 HOH A 113 513 603 HOH HOH . F 5 HOH A 114 514 605 HOH HOH . F 5 HOH A 115 515 607 HOH HOH . F 5 HOH A 116 516 609 HOH HOH . F 5 HOH A 117 517 612 HOH HOH . F 5 HOH A 118 518 613 HOH HOH . F 5 HOH A 119 519 618 HOH HOH . F 5 HOH A 120 520 619 HOH HOH . F 5 HOH A 121 521 620 HOH HOH . F 5 HOH A 122 522 622 HOH HOH . F 5 HOH A 123 523 623 HOH HOH . F 5 HOH A 124 524 624 HOH HOH . F 5 HOH A 125 525 625 HOH HOH . F 5 HOH A 126 526 626 HOH HOH . G 5 HOH B 1 401 5 HOH HOH . G 5 HOH B 2 402 13 HOH HOH . G 5 HOH B 3 403 18 HOH HOH . G 5 HOH B 4 404 20 HOH HOH . G 5 HOH B 5 405 23 HOH HOH . G 5 HOH B 6 406 25 HOH HOH . G 5 HOH B 7 407 28 HOH HOH . G 5 HOH B 8 408 29 HOH HOH . G 5 HOH B 9 409 39 HOH HOH . G 5 HOH B 10 410 40 HOH HOH . G 5 HOH B 11 411 51 HOH HOH . G 5 HOH B 12 412 55 HOH HOH . G 5 HOH B 13 413 62 HOH HOH . G 5 HOH B 14 414 63 HOH HOH . G 5 HOH B 15 415 67 HOH HOH . G 5 HOH B 16 416 68 HOH HOH . G 5 HOH B 17 417 71 HOH HOH . G 5 HOH B 18 418 72 HOH HOH . G 5 HOH B 19 419 73 HOH HOH . G 5 HOH B 20 420 83 HOH HOH . G 5 HOH B 21 421 84 HOH HOH . G 5 HOH B 22 422 85 HOH HOH . G 5 HOH B 23 423 86 HOH HOH . G 5 HOH B 24 424 87 HOH HOH . G 5 HOH B 25 425 95 HOH HOH . G 5 HOH B 26 426 102 HOH HOH . G 5 HOH B 27 427 108 HOH HOH . G 5 HOH B 28 428 111 HOH HOH . G 5 HOH B 29 429 112 HOH HOH . G 5 HOH B 30 430 114 HOH HOH . G 5 HOH B 31 431 115 HOH HOH . G 5 HOH B 32 432 124 HOH HOH . G 5 HOH B 33 433 135 HOH HOH . G 5 HOH B 34 434 142 HOH HOH . G 5 HOH B 35 435 144 HOH HOH . G 5 HOH B 36 436 146 HOH HOH . G 5 HOH B 37 437 151 HOH HOH . G 5 HOH B 38 438 155 HOH HOH . G 5 HOH B 39 439 159 HOH HOH . G 5 HOH B 40 440 165 HOH HOH . G 5 HOH B 41 441 166 HOH HOH . G 5 HOH B 42 442 171 HOH HOH . G 5 HOH B 43 443 173 HOH HOH . G 5 HOH B 44 444 175 HOH HOH . G 5 HOH B 45 445 184 HOH HOH . G 5 HOH B 46 446 189 HOH HOH . G 5 HOH B 47 447 193 HOH HOH . G 5 HOH B 48 448 204 HOH HOH . G 5 HOH B 49 449 208 HOH HOH . G 5 HOH B 50 450 211 HOH HOH . G 5 HOH B 51 451 213 HOH HOH . G 5 HOH B 52 452 220 HOH HOH . G 5 HOH B 53 453 227 HOH HOH . G 5 HOH B 54 454 230 HOH HOH . G 5 HOH B 55 455 236 HOH HOH . G 5 HOH B 56 456 239 HOH HOH . G 5 HOH B 57 457 240 HOH HOH . G 5 HOH B 58 458 241 HOH HOH . G 5 HOH B 59 459 245 HOH HOH . G 5 HOH B 60 460 251 HOH HOH . G 5 HOH B 61 461 253 HOH HOH . G 5 HOH B 62 462 254 HOH HOH . G 5 HOH B 63 463 255 HOH HOH . G 5 HOH B 64 464 258 HOH HOH . G 5 HOH B 65 465 263 HOH HOH . G 5 HOH B 66 466 266 HOH HOH . G 5 HOH B 67 467 267 HOH HOH . G 5 HOH B 68 468 268 HOH HOH . G 5 HOH B 69 469 270 HOH HOH . G 5 HOH B 70 470 272 HOH HOH . G 5 HOH B 71 471 277 HOH HOH . G 5 HOH B 72 472 279 HOH HOH . G 5 HOH B 73 473 282 HOH HOH . G 5 HOH B 74 474 292 HOH HOH . G 5 HOH B 75 475 306 HOH HOH . G 5 HOH B 76 476 308 HOH HOH . G 5 HOH B 77 477 312 HOH HOH . G 5 HOH B 78 478 318 HOH HOH . G 5 HOH B 79 479 333 HOH HOH . G 5 HOH B 80 480 339 HOH HOH . G 5 HOH B 81 481 354 HOH HOH . G 5 HOH B 82 482 392 HOH HOH . G 5 HOH B 83 483 396 HOH HOH . G 5 HOH B 84 484 408 HOH HOH . G 5 HOH B 85 485 409 HOH HOH . G 5 HOH B 86 486 424 HOH HOH . G 5 HOH B 87 487 432 HOH HOH . G 5 HOH B 88 488 445 HOH HOH . G 5 HOH B 89 489 452 HOH HOH . G 5 HOH B 90 490 526 HOH HOH . G 5 HOH B 91 491 558 HOH HOH . G 5 HOH B 92 492 561 HOH HOH . G 5 HOH B 93 493 600 HOH HOH . G 5 HOH B 94 494 604 HOH HOH . G 5 HOH B 95 495 606 HOH HOH . G 5 HOH B 96 496 608 HOH HOH . G 5 HOH B 97 497 610 HOH HOH . G 5 HOH B 98 498 611 HOH HOH . G 5 HOH B 99 499 614 HOH HOH . G 5 HOH B 100 500 615 HOH HOH . G 5 HOH B 101 501 616 HOH HOH . G 5 HOH B 102 502 617 HOH HOH . G 5 HOH B 103 503 621 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 . . . D 3 -2.507 -14.123 2.285 1 17.36 ? C1 GOL 302 A 1 HETATM 2 O O1 GOL . . . D 3 -2.877 -12.735 2.163 1 16.24 ? O1 GOL 302 A 1 HETATM 3 C C2 GOL . . . D 3 -1.316 -14.54 1.38 1 19.17 ? C2 GOL 302 A 1 HETATM 4 O O2 GOL . . . D 3 -1.572 -14.31 -0.007 1 19.75 ? O2 GOL 302 A 1 HETATM 5 C C3 GOL . . . D 3 -0.832 -15.988 1.655 1 17.41 ? C3 GOL 302 A 1 HETATM 6 O O3 GOL . . . D 3 -1.762 -17.039 1.253 1 20.29 ? O3 GOL 302 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 362 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #