data_3PK4
#
_model_server_result.job_id            JyN-AfftzyghP1Ye8w8J3Q 
_model_server_result.datetime_utc      '2024-11-15 02:59:26' 
_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          3pk4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":303}' 
#
_entry.id    3PK4 
#
_exptl.entry_id    3PK4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              22.99 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'SODIUM ION' 
_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            3PK4 
_cell.length_a            80.405 
_cell.length_b            96.311 
_cell.length_c            105.593 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3PK4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 80.405 96.311 0 
3 'crystal symmetry operation' 3_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 80.405 0 105.593 
4 'crystal symmetry operation' 4_566 x,-y+1,-z+1 1 0 0 0 -1 0 0 0 -1 0 96.311 105.593 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 ACE 1 A ACE 0 1_555 A N SER 2 A SER 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? 
metalc ? metalc1 A O ILE 89 A ILE 88 1_555 C NA NA . A NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? 
metalc ? metalc2 A O TYR 92 A TYR 91 1_555 C NA NA . A NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.516 ? 
metalc ? metalc3 A O ILE 95 A ILE 94 1_555 C NA NA . A NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? 
metalc ? metalc4 A OE1 GLU 137 A GLU 136 1_555 C NA NA . A NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? 
metalc ? metalc5 C NA NA . A NA 303 1_555 F O HOH . A HOH 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? 
#
_chem_comp.formula           'Na 1' 
_chem_comp.formula_weight    22.99 
_chem_comp.id                NA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'SODIUM ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     3PK4 
_atom_sites.fract_transf_matrix[1][1]    0.012437 
_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]    0.010383 
_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]    0.00947 
_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 AZA A 1 302 302 AZA AZA . 
C 3 NA A 1 303 303 NA NA . 
D 4 XE A 1 801 801 XE XE . 
E 4 XE A 1 802 802 XE XE . 
F 5 HOH A 1 401 301 HOH HOH . 
F 5 HOH A 2 402 302 HOH HOH . 
F 5 HOH A 3 403 303 HOH HOH . 
F 5 HOH A 4 404 304 HOH HOH . 
F 5 HOH A 5 405 305 HOH HOH . 
F 5 HOH A 6 406 306 HOH HOH . 
F 5 HOH A 7 407 307 HOH HOH . 
F 5 HOH A 8 408 308 HOH HOH . 
F 5 HOH A 9 409 309 HOH HOH . 
F 5 HOH A 10 410 310 HOH HOH . 
F 5 HOH A 11 411 311 HOH HOH . 
F 5 HOH A 12 412 312 HOH HOH . 
F 5 HOH A 13 413 313 HOH HOH . 
F 5 HOH A 14 414 314 HOH HOH . 
F 5 HOH A 15 415 315 HOH HOH . 
F 5 HOH A 16 416 316 HOH HOH . 
F 5 HOH A 17 417 317 HOH HOH . 
F 5 HOH A 18 418 318 HOH HOH . 
F 5 HOH A 19 419 319 HOH HOH . 
F 5 HOH A 20 420 320 HOH HOH . 
F 5 HOH A 21 421 321 HOH HOH . 
F 5 HOH A 22 422 322 HOH HOH . 
F 5 HOH A 23 423 323 HOH HOH . 
F 5 HOH A 24 424 324 HOH HOH . 
F 5 HOH A 25 425 325 HOH HOH . 
F 5 HOH A 26 426 326 HOH HOH . 
F 5 HOH A 27 427 327 HOH HOH . 
F 5 HOH A 28 428 328 HOH HOH . 
F 5 HOH A 29 429 329 HOH HOH . 
F 5 HOH A 30 430 330 HOH HOH . 
F 5 HOH A 31 431 331 HOH HOH . 
F 5 HOH A 32 432 332 HOH HOH . 
F 5 HOH A 33 433 333 HOH HOH . 
F 5 HOH A 34 434 334 HOH HOH . 
F 5 HOH A 35 435 335 HOH HOH . 
F 5 HOH A 36 436 336 HOH HOH . 
F 5 HOH A 37 437 337 HOH HOH . 
F 5 HOH A 38 438 338 HOH HOH . 
F 5 HOH A 39 439 339 HOH HOH . 
F 5 HOH A 40 440 340 HOH HOH . 
F 5 HOH A 41 441 341 HOH HOH . 
F 5 HOH A 42 442 342 HOH HOH . 
F 5 HOH A 43 443 343 HOH HOH . 
F 5 HOH A 44 444 344 HOH HOH . 
F 5 HOH A 45 445 345 HOH HOH . 
F 5 HOH A 46 446 346 HOH HOH . 
F 5 HOH A 47 447 347 HOH HOH . 
F 5 HOH A 48 448 348 HOH HOH . 
F 5 HOH A 49 449 349 HOH HOH . 
F 5 HOH A 50 450 350 HOH HOH . 
F 5 HOH A 51 451 351 HOH HOH . 
F 5 HOH A 52 452 352 HOH HOH . 
F 5 HOH A 53 453 353 HOH HOH . 
F 5 HOH A 54 454 354 HOH HOH . 
F 5 HOH A 55 455 355 HOH HOH . 
F 5 HOH A 56 456 356 HOH HOH . 
F 5 HOH A 57 457 357 HOH HOH . 
F 5 HOH A 58 458 358 HOH HOH . 
F 5 HOH A 59 459 359 HOH HOH . 
F 5 HOH A 60 460 360 HOH HOH . 
F 5 HOH A 61 461 361 HOH HOH . 
F 5 HOH A 62 462 362 HOH HOH . 
F 5 HOH A 63 463 363 HOH HOH . 
F 5 HOH A 64 464 364 HOH HOH . 
F 5 HOH A 65 465 365 HOH HOH . 
F 5 HOH A 66 466 366 HOH HOH . 
F 5 HOH A 67 467 367 HOH HOH . 
F 5 HOH A 68 468 368 HOH HOH . 
F 5 HOH A 69 469 369 HOH HOH . 
F 5 HOH A 70 470 370 HOH HOH . 
F 5 HOH A 71 471 371 HOH HOH . 
F 5 HOH A 72 472 372 HOH HOH . 
F 5 HOH A 73 473 373 HOH HOH . 
F 5 HOH A 74 474 374 HOH HOH . 
F 5 HOH A 75 475 375 HOH HOH . 
F 5 HOH A 76 476 376 HOH HOH . 
F 5 HOH A 77 477 377 HOH HOH . 
F 5 HOH A 78 478 378 HOH HOH . 
F 5 HOH A 79 479 380 HOH HOH . 
F 5 HOH A 80 480 381 HOH HOH . 
F 5 HOH A 81 481 382 HOH HOH . 
F 5 HOH A 82 482 383 HOH HOH . 
F 5 HOH A 83 483 384 HOH HOH . 
F 5 HOH A 84 484 385 HOH HOH . 
F 5 HOH A 85 485 386 HOH HOH . 
F 5 HOH A 86 486 387 HOH HOH . 
F 5 HOH A 87 487 388 HOH HOH . 
F 5 HOH A 88 488 389 HOH HOH . 
F 5 HOH A 89 489 390 HOH HOH . 
F 5 HOH A 90 490 391 HOH HOH . 
F 5 HOH A 91 491 392 HOH HOH . 
F 5 HOH A 92 492 393 HOH HOH . 
F 5 HOH A 93 493 394 HOH HOH . 
F 5 HOH A 94 494 395 HOH HOH . 
F 5 HOH A 95 495 396 HOH HOH . 
F 5 HOH A 96 496 397 HOH HOH . 
F 5 HOH A 97 497 398 HOH HOH . 
F 5 HOH A 98 498 399 HOH HOH . 
F 5 HOH A 99 499 400 HOH HOH . 
F 5 HOH A 100 500 401 HOH HOH . 
F 5 HOH A 101 501 402 HOH HOH . 
F 5 HOH A 102 502 403 HOH HOH . 
F 5 HOH A 103 503 404 HOH HOH . 
F 5 HOH A 104 504 406 HOH HOH . 
F 5 HOH A 105 505 407 HOH HOH . 
F 5 HOH A 106 506 409 HOH HOH . 
F 5 HOH A 107 507 410 HOH HOH . 
F 5 HOH A 108 508 411 HOH HOH . 
F 5 HOH A 109 509 412 HOH HOH . 
F 5 HOH A 110 510 413 HOH HOH . 
F 5 HOH A 111 511 414 HOH HOH . 
F 5 HOH A 112 512 416 HOH HOH . 
F 5 HOH A 113 513 418 HOH HOH . 
F 5 HOH A 114 514 419 HOH HOH . 
F 5 HOH A 115 515 420 HOH HOH . 
F 5 HOH A 116 516 421 HOH HOH . 
F 5 HOH A 117 517 422 HOH HOH . 
F 5 HOH A 118 518 423 HOH HOH . 
F 5 HOH A 119 519 424 HOH HOH . 
F 5 HOH A 120 520 425 HOH HOH . 
F 5 HOH A 121 521 426 HOH HOH . 
F 5 HOH A 122 522 427 HOH HOH . 
F 5 HOH A 123 523 428 HOH HOH . 
F 5 HOH A 124 524 429 HOH HOH . 
F 5 HOH A 125 525 431 HOH HOH . 
F 5 HOH A 126 526 432 HOH HOH . 
F 5 HOH A 127 527 433 HOH HOH . 
F 5 HOH A 128 528 435 HOH HOH . 
F 5 HOH A 129 529 436 HOH HOH . 
F 5 HOH A 130 530 438 HOH HOH . 
F 5 HOH A 131 531 439 HOH HOH . 
F 5 HOH A 132 532 440 HOH HOH . 
F 5 HOH A 133 533 441 HOH HOH . 
F 5 HOH A 134 534 442 HOH HOH . 
F 5 HOH A 135 535 443 HOH HOH . 
F 5 HOH A 136 536 444 HOH HOH . 
F 5 HOH A 137 537 445 HOH HOH . 
F 5 HOH A 138 538 446 HOH HOH . 
F 5 HOH A 139 539 447 HOH HOH . 
F 5 HOH A 140 540 454 HOH HOH . 
F 5 HOH A 141 541 455 HOH HOH . 
F 5 HOH A 142 542 458 HOH HOH . 
F 5 HOH A 143 543 462 HOH HOH . 
F 5 HOH A 144 544 464 HOH HOH . 
F 5 HOH A 145 545 468 HOH HOH . 
F 5 HOH A 146 546 470 HOH HOH . 
F 5 HOH A 147 547 471 HOH HOH . 
F 5 HOH A 148 548 474 HOH HOH . 
F 5 HOH A 149 549 479 HOH HOH . 
F 5 HOH A 150 550 480 HOH HOH . 
F 5 HOH A 151 551 481 HOH HOH . 
F 5 HOH A 152 552 484 HOH HOH . 
F 5 HOH A 153 553 487 HOH HOH . 
F 5 HOH A 154 554 489 HOH HOH . 
F 5 HOH A 155 555 490 HOH HOH . 
F 5 HOH A 156 556 491 HOH HOH . 
F 5 HOH A 157 557 494 HOH HOH . 
F 5 HOH A 158 558 498 HOH HOH . 
F 5 HOH A 159 559 511 HOH HOH . 
F 5 HOH A 160 560 561 HOH HOH . 
F 5 HOH A 161 561 564 HOH HOH . 
F 5 HOH A 162 562 570 HOH HOH . 
F 5 HOH A 163 563 601 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           NA 
_atom_site.label_atom_id         NA 
_atom_site.label_comp_id         NA 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         C 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               37.407 
_atom_site.Cartn_y               71.295 
_atom_site.Cartn_z               22.185 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        29.59 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NA 
_atom_site.auth_comp_id          NA 
_atom_site.auth_seq_id           303 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           253 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           1 
#