data_3V8Z # _model_server_result.job_id CCS_9bxS5FM45C-lxDjo2A _model_server_result.datetime_utc '2025-04-11 08:46:41' _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 3v8z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 3V8Z # _exptl.entry_id 3V8Z _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 90 _cell.entry_id 3V8Z _cell.length_a 56.94 _cell.length_b 105.17 _cell.length_c 120.54 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3V8Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA tetrameric 4 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G 1 1,2 A,B,C,D,E,F,G 2 1,2,3,4 # 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' 2_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 0 -105.17 0 3 'crystal symmetry operation' 3_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 0 0 120.54 4 'crystal symmetry operation' 4_546 x,-y-1,-z+1 1 0 0 0 -1 0 0 0 -1 0 -105.17 120.54 # 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 metalc ? metalc1 A OD2 ASP 122 A ASP 101 1_555 E MN MN . A MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc2 A OD1 ASP 124 A ASP 103 1_555 E MN MN . A MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc3 A OD2 ASP 124 A ASP 103 1_555 E MN MN . A MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc4 A NE2 HIS 232 A HIS 211 1_555 E MN MN . A MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc5 E MN MN . A MN 304 1_555 F O2B UDP . A UDP 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc6 E MN MN . A MN 304 1_555 F O2A UDP . A UDP 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? # _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 3V8Z _atom_sites.fract_transf_matrix[1][1] 0.017562 _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] 0.009508 _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] 0.008296 _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 1 301 264 GOL GOL . C 2 GOL A 1 302 265 GOL GOL . D 3 CL A 1 303 266 CL CL . E 4 MN A 1 304 267 MN MN . F 5 UDP A 1 305 268 UDP UDP . G 6 HOH A 1 401 269 HOH HOH . G 6 HOH A 2 402 270 HOH HOH . G 6 HOH A 3 403 271 HOH HOH . G 6 HOH A 4 404 272 HOH HOH . G 6 HOH A 5 405 273 HOH HOH . G 6 HOH A 6 406 274 HOH HOH . G 6 HOH A 7 407 275 HOH HOH . G 6 HOH A 8 408 276 HOH HOH . G 6 HOH A 9 409 277 HOH HOH . G 6 HOH A 10 410 278 HOH HOH . G 6 HOH A 11 411 279 HOH HOH . G 6 HOH A 12 412 280 HOH HOH . G 6 HOH A 13 413 281 HOH HOH . G 6 HOH A 14 414 282 HOH HOH . G 6 HOH A 15 415 283 HOH HOH . G 6 HOH A 16 416 284 HOH HOH . G 6 HOH A 17 417 285 HOH HOH . G 6 HOH A 18 418 286 HOH HOH . G 6 HOH A 19 419 287 HOH HOH . G 6 HOH A 20 420 288 HOH HOH . G 6 HOH A 21 421 289 HOH HOH . G 6 HOH A 22 422 290 HOH HOH . G 6 HOH A 23 423 291 HOH HOH . G 6 HOH A 24 424 292 HOH HOH . G 6 HOH A 25 425 293 HOH HOH . G 6 HOH A 26 426 294 HOH HOH . G 6 HOH A 27 427 295 HOH HOH . G 6 HOH A 28 428 296 HOH HOH . G 6 HOH A 29 429 297 HOH HOH . G 6 HOH A 30 430 298 HOH HOH . G 6 HOH A 31 431 299 HOH HOH . G 6 HOH A 32 432 300 HOH HOH . G 6 HOH A 33 433 301 HOH HOH . G 6 HOH A 34 434 302 HOH HOH . G 6 HOH A 35 435 303 HOH HOH . G 6 HOH A 36 436 304 HOH HOH . G 6 HOH A 37 437 305 HOH HOH . G 6 HOH A 38 438 306 HOH HOH . G 6 HOH A 39 439 307 HOH HOH . G 6 HOH A 40 440 308 HOH HOH . G 6 HOH A 41 441 309 HOH HOH . G 6 HOH A 42 442 310 HOH HOH . G 6 HOH A 43 443 311 HOH HOH . G 6 HOH A 44 444 312 HOH HOH . G 6 HOH A 45 445 313 HOH HOH . G 6 HOH A 46 446 314 HOH HOH . G 6 HOH A 47 447 315 HOH HOH . G 6 HOH A 48 448 316 HOH HOH . G 6 HOH A 49 449 317 HOH HOH . G 6 HOH A 50 450 318 HOH HOH . G 6 HOH A 51 451 319 HOH HOH . G 6 HOH A 52 452 320 HOH HOH . G 6 HOH A 53 453 321 HOH HOH . G 6 HOH A 54 454 322 HOH HOH . G 6 HOH A 55 455 323 HOH HOH . G 6 HOH A 56 456 324 HOH HOH . G 6 HOH A 57 457 325 HOH HOH . G 6 HOH A 58 458 326 HOH HOH . G 6 HOH A 59 459 327 HOH HOH . G 6 HOH A 60 460 328 HOH HOH . G 6 HOH A 61 461 329 HOH HOH . G 6 HOH A 62 462 330 HOH HOH . G 6 HOH A 63 463 331 HOH HOH . G 6 HOH A 64 464 332 HOH HOH . G 6 HOH A 65 465 333 HOH HOH . G 6 HOH A 66 466 334 HOH HOH . G 6 HOH A 67 467 335 HOH HOH . G 6 HOH A 68 468 336 HOH HOH . G 6 HOH A 69 469 337 HOH HOH . G 6 HOH A 70 470 338 HOH HOH . G 6 HOH A 71 471 339 HOH HOH . G 6 HOH A 72 472 340 HOH HOH . G 6 HOH A 73 473 341 HOH HOH . G 6 HOH A 74 474 342 HOH HOH . G 6 HOH A 75 475 343 HOH HOH . G 6 HOH A 76 476 344 HOH HOH . G 6 HOH A 77 477 345 HOH HOH . G 6 HOH A 78 478 346 HOH HOH . G 6 HOH A 79 479 347 HOH HOH . G 6 HOH A 80 480 348 HOH HOH . G 6 HOH A 81 481 349 HOH HOH . G 6 HOH A 82 482 350 HOH HOH . G 6 HOH A 83 483 351 HOH HOH . G 6 HOH A 84 484 352 HOH HOH . G 6 HOH A 85 485 353 HOH HOH . G 6 HOH A 86 486 354 HOH HOH . G 6 HOH A 87 487 355 HOH HOH . G 6 HOH A 88 488 356 HOH HOH . G 6 HOH A 89 489 357 HOH HOH . G 6 HOH A 90 490 358 HOH HOH . G 6 HOH A 91 491 359 HOH HOH . G 6 HOH A 92 492 360 HOH HOH . G 6 HOH A 93 493 361 HOH HOH . G 6 HOH A 94 494 362 HOH HOH . G 6 HOH A 95 495 363 HOH HOH . G 6 HOH A 96 496 364 HOH HOH . G 6 HOH A 97 497 365 HOH HOH . G 6 HOH A 98 498 366 HOH HOH . G 6 HOH A 99 499 367 HOH HOH . G 6 HOH A 100 500 368 HOH HOH . G 6 HOH A 101 501 369 HOH HOH . G 6 HOH A 102 502 370 HOH HOH . G 6 HOH A 103 503 371 HOH HOH . G 6 HOH A 104 504 372 HOH HOH . G 6 HOH A 105 505 373 HOH HOH . G 6 HOH A 106 506 374 HOH HOH . G 6 HOH A 107 507 375 HOH HOH . G 6 HOH A 108 508 376 HOH HOH . G 6 HOH A 109 509 377 HOH HOH . G 6 HOH A 110 510 378 HOH HOH . G 6 HOH A 111 511 379 HOH HOH . G 6 HOH A 112 512 380 HOH HOH . G 6 HOH A 113 513 381 HOH HOH . G 6 HOH A 114 514 382 HOH HOH . G 6 HOH A 115 515 383 HOH HOH . G 6 HOH A 116 516 384 HOH HOH . G 6 HOH A 117 517 385 HOH HOH . G 6 HOH A 118 518 386 HOH HOH . G 6 HOH A 119 519 387 HOH HOH . G 6 HOH A 120 520 388 HOH HOH . G 6 HOH A 121 521 389 HOH HOH . G 6 HOH A 122 522 390 HOH HOH . G 6 HOH A 123 523 391 HOH HOH . G 6 HOH A 124 524 392 HOH HOH . G 6 HOH A 125 525 393 HOH HOH . G 6 HOH A 126 526 394 HOH HOH . G 6 HOH A 127 527 395 HOH HOH . G 6 HOH A 128 528 396 HOH HOH . G 6 HOH A 129 529 397 HOH HOH . G 6 HOH A 130 530 398 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 -46.316 73.466 1 31.27 ? C1 GOL 302 A 1 HETATM 2 O O1 GOL . . . C 2 -9.186 -47.073 73.351 1 31.51 ? O1 GOL 302 A 1 HETATM 3 C C2 GOL . . . C 2 -8.278 -44.889 73.023 1 32.15 ? C2 GOL 302 A 1 HETATM 4 O O2 GOL . . . C 2 -8.339 -44.838 71.609 1 31.89 ? O2 GOL 302 A 1 HETATM 5 C C3 GOL . . . C 2 -7.174 -43.971 73.545 1 30.24 ? C3 GOL 302 A 1 HETATM 6 O O3 GOL . . . C 2 -7.345 -42.681 73 1 27.93 ? O3 GOL 302 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 6 #