data_6WV2 # _model_server_result.job_id hdkNvXQ3-3g9afPiG2nEHA _model_server_result.datetime_utc '2024-10-14 13:21:17' _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 6wv2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 6WV2 # _exptl.entry_id 6WV2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NICKEL (II) 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 6WV2 _cell.length_a 67.451 _cell.length_b 86.789 _cell.length_c 168.152 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WV2 _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 2 _struct_asym.id D _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 metalc ? metalc1 A NE2 HIS 289 A HIS 375 1_555 D NI NI . A NI 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc2 A NE2 HIS 291 A HIS 377 1_555 D NI NI . A NI 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc3 D NI NI . A NI 401 1_555 B NE2 HIS 289 B HIS 375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? metalc ? metalc4 D NI NI . A NI 401 1_555 B NE2 HIS 291 B HIS 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc5 D NI NI . A NI 401 1_555 C ND1 HIS 289 C HIS 375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.612 ? metalc ? metalc6 D NI NI . A NI 401 1_555 C NE2 HIS 291 C HIS 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? # _chem_comp.formula 'Ni 2' _chem_comp.formula_weight 58.693 _chem_comp.id NI _chem_comp.mon_nstd_flag . _chem_comp.name 'NICKEL (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6WV2 _atom_sites.fract_transf_matrix[1][1] 0.014826 _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] 0.011522 _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] 0.005947 _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 D 2 NI A 1 401 378 NI NI . E 3 HOH A 1 501 431 HOH HOH . E 3 HOH A 2 502 428 HOH HOH . E 3 HOH A 3 503 452 HOH HOH . E 3 HOH A 4 504 441 HOH HOH . E 3 HOH A 5 505 454 HOH HOH . E 3 HOH A 6 506 398 HOH HOH . E 3 HOH A 7 507 378 HOH HOH . E 3 HOH A 8 508 387 HOH HOH . E 3 HOH A 9 509 425 HOH HOH . E 3 HOH A 10 510 408 HOH HOH . E 3 HOH A 11 511 437 HOH HOH . E 3 HOH A 12 512 460 HOH HOH . E 3 HOH A 13 513 388 HOH HOH . E 3 HOH A 14 514 392 HOH HOH . E 3 HOH A 15 515 386 HOH HOH . E 3 HOH A 16 516 396 HOH HOH . E 3 HOH A 17 517 451 HOH HOH . E 3 HOH A 18 518 401 HOH HOH . E 3 HOH A 19 519 397 HOH HOH . E 3 HOH A 20 520 442 HOH HOH . E 3 HOH A 21 521 379 HOH HOH . E 3 HOH A 22 522 385 HOH HOH . E 3 HOH A 23 523 404 HOH HOH . E 3 HOH A 24 524 417 HOH HOH . E 3 HOH A 25 525 436 HOH HOH . E 3 HOH A 26 526 433 HOH HOH . E 3 HOH A 27 527 469 HOH HOH . E 3 HOH A 28 528 467 HOH HOH . E 3 HOH A 29 529 393 HOH HOH . E 3 HOH A 30 530 459 HOH HOH . E 3 HOH A 31 531 430 HOH HOH . E 3 HOH A 32 532 429 HOH HOH . E 3 HOH A 33 533 384 HOH HOH . E 3 HOH A 34 534 419 HOH HOH . E 3 HOH A 35 535 391 HOH HOH . E 3 HOH A 36 536 444 HOH HOH . E 3 HOH A 37 537 413 HOH HOH . E 3 HOH A 38 538 381 HOH HOH . E 3 HOH A 39 539 383 HOH HOH . E 3 HOH A 40 540 448 HOH HOH . E 3 HOH A 41 541 399 HOH HOH . E 3 HOH A 42 542 423 HOH HOH . E 3 HOH A 43 543 457 HOH HOH . E 3 HOH A 44 544 414 HOH HOH . E 3 HOH A 45 545 411 HOH HOH . E 3 HOH A 46 546 458 HOH HOH . E 3 HOH A 47 547 415 HOH HOH . E 3 HOH A 48 548 447 HOH HOH . E 3 HOH A 49 549 418 HOH HOH . E 3 HOH A 50 550 445 HOH HOH . E 3 HOH A 51 551 394 HOH HOH . E 3 HOH A 52 552 468 HOH HOH . E 3 HOH A 53 553 410 HOH HOH . E 3 HOH A 54 554 427 HOH HOH . E 3 HOH A 55 555 432 HOH HOH . E 3 HOH A 56 556 403 HOH HOH . E 3 HOH A 57 557 464 HOH HOH . E 3 HOH A 58 558 407 HOH HOH . E 3 HOH A 59 559 382 HOH HOH . E 3 HOH A 60 560 420 HOH HOH . E 3 HOH A 61 561 449 HOH HOH . E 3 HOH A 62 562 446 HOH HOH . E 3 HOH A 63 563 405 HOH HOH . E 3 HOH A 64 564 465 HOH HOH . E 3 HOH A 65 565 416 HOH HOH . E 3 HOH A 66 566 435 HOH HOH . E 3 HOH A 67 567 473 HOH HOH . E 3 HOH A 68 568 400 HOH HOH . E 3 HOH A 69 569 440 HOH HOH . E 3 HOH A 70 570 402 HOH HOH . E 3 HOH A 71 571 406 HOH HOH . E 3 HOH A 72 572 380 HOH HOH . E 3 HOH A 73 573 450 HOH HOH . E 3 HOH A 74 574 421 HOH HOH . E 3 HOH A 75 575 462 HOH HOH . E 3 HOH A 76 576 390 HOH HOH . E 3 HOH A 77 577 409 HOH HOH . E 3 HOH A 78 578 424 HOH HOH . E 3 HOH A 79 579 439 HOH HOH . E 3 HOH A 80 580 462 HOH HOH . E 3 HOH A 81 581 395 HOH HOH . E 3 HOH A 82 582 456 HOH HOH . E 3 HOH A 83 583 476 HOH HOH . E 3 HOH A 84 584 470 HOH HOH . E 3 HOH A 85 585 389 HOH HOH . E 3 HOH A 86 586 475 HOH HOH . E 3 HOH A 87 587 472 HOH HOH . E 3 HOH A 88 588 453 HOH HOH . E 3 HOH A 89 589 474 HOH HOH . E 3 HOH A 90 590 455 HOH HOH . E 3 HOH A 91 591 438 HOH HOH . E 3 HOH A 92 592 422 HOH HOH . E 3 HOH A 93 593 461 HOH HOH . E 3 HOH A 94 594 434 HOH HOH . E 3 HOH A 95 595 466 HOH HOH . E 3 HOH A 96 596 446 HOH HOH . E 3 HOH A 97 597 443 HOH HOH . E 3 HOH A 98 598 430 HOH HOH . E 3 HOH A 99 599 463 HOH HOH . F 3 HOH B 1 401 449 HOH HOH . F 3 HOH B 2 402 421 HOH HOH . F 3 HOH B 3 403 441 HOH HOH . F 3 HOH B 4 404 442 HOH HOH . F 3 HOH B 5 405 414 HOH HOH . F 3 HOH B 6 406 406 HOH HOH . F 3 HOH B 7 407 388 HOH HOH . F 3 HOH B 8 408 379 HOH HOH . F 3 HOH B 9 409 465 HOH HOH . F 3 HOH B 10 410 451 HOH HOH . F 3 HOH B 11 411 425 HOH HOH . F 3 HOH B 12 412 431 HOH HOH . F 3 HOH B 13 413 411 HOH HOH . F 3 HOH B 14 414 423 HOH HOH . F 3 HOH B 15 415 440 HOH HOH . F 3 HOH B 16 416 413 HOH HOH . F 3 HOH B 17 417 466 HOH HOH . F 3 HOH B 18 418 463 HOH HOH . F 3 HOH B 19 419 416 HOH HOH . F 3 HOH B 20 420 429 HOH HOH . F 3 HOH B 21 421 380 HOH HOH . F 3 HOH B 22 422 382 HOH HOH . F 3 HOH B 23 423 391 HOH HOH . F 3 HOH B 24 424 445 HOH HOH . F 3 HOH B 25 425 405 HOH HOH . F 3 HOH B 26 426 419 HOH HOH . F 3 HOH B 27 427 412 HOH HOH . F 3 HOH B 28 428 387 HOH HOH . F 3 HOH B 29 429 392 HOH HOH . F 3 HOH B 30 430 459 HOH HOH . F 3 HOH B 31 431 415 HOH HOH . F 3 HOH B 32 432 395 HOH HOH . F 3 HOH B 33 433 403 HOH HOH . F 3 HOH B 34 434 408 HOH HOH . F 3 HOH B 35 435 389 HOH HOH . F 3 HOH B 36 436 385 HOH HOH . F 3 HOH B 37 437 443 HOH HOH . F 3 HOH B 38 438 412 HOH HOH . F 3 HOH B 39 439 438 HOH HOH . F 3 HOH B 40 440 409 HOH HOH . F 3 HOH B 41 441 397 HOH HOH . F 3 HOH B 42 442 457 HOH HOH . F 3 HOH B 43 443 428 HOH HOH . F 3 HOH B 44 444 386 HOH HOH . F 3 HOH B 45 445 422 HOH HOH . F 3 HOH B 46 446 420 HOH HOH . F 3 HOH B 47 447 398 HOH HOH . F 3 HOH B 48 448 427 HOH HOH . F 3 HOH B 49 449 394 HOH HOH . F 3 HOH B 50 450 399 HOH HOH . F 3 HOH B 51 451 453 HOH HOH . F 3 HOH B 52 452 390 HOH HOH . F 3 HOH B 53 453 452 HOH HOH . F 3 HOH B 54 454 454 HOH HOH . F 3 HOH B 55 455 437 HOH HOH . F 3 HOH B 56 456 401 HOH HOH . F 3 HOH B 57 457 400 HOH HOH . F 3 HOH B 58 458 404 HOH HOH . F 3 HOH B 59 459 448 HOH HOH . F 3 HOH B 60 460 460 HOH HOH . F 3 HOH B 61 461 396 HOH HOH . F 3 HOH B 62 462 383 HOH HOH . F 3 HOH B 63 463 439 HOH HOH . F 3 HOH B 64 464 434 HOH HOH . F 3 HOH B 65 465 444 HOH HOH . F 3 HOH B 66 466 432 HOH HOH . F 3 HOH B 67 467 455 HOH HOH . F 3 HOH B 68 468 381 HOH HOH . F 3 HOH B 69 469 461 HOH HOH . F 3 HOH B 70 470 407 HOH HOH . F 3 HOH B 71 471 436 HOH HOH . F 3 HOH B 72 472 384 HOH HOH . F 3 HOH B 73 473 417 HOH HOH . F 3 HOH B 74 474 467 HOH HOH . F 3 HOH B 75 475 464 HOH HOH . F 3 HOH B 76 476 433 HOH HOH . F 3 HOH B 77 477 426 HOH HOH . F 3 HOH B 78 478 450 HOH HOH . F 3 HOH B 79 479 456 HOH HOH . F 3 HOH B 80 480 418 HOH HOH . F 3 HOH B 81 481 402 HOH HOH . F 3 HOH B 82 482 458 HOH HOH . F 3 HOH B 83 483 410 HOH HOH . F 3 HOH B 84 484 393 HOH HOH . F 3 HOH B 85 485 435 HOH HOH . F 3 HOH B 86 486 424 HOH HOH . F 3 HOH B 87 487 462 HOH HOH . F 3 HOH B 88 488 412 HOH HOH . F 3 HOH B 89 489 447 HOH HOH . G 3 HOH C 1 401 436 HOH HOH . G 3 HOH C 2 402 456 HOH HOH . G 3 HOH C 3 403 382 HOH HOH . G 3 HOH C 4 404 393 HOH HOH . G 3 HOH C 5 405 398 HOH HOH . G 3 HOH C 6 406 431 HOH HOH . G 3 HOH C 7 407 418 HOH HOH . G 3 HOH C 8 408 414 HOH HOH . G 3 HOH C 9 409 457 HOH HOH . G 3 HOH C 10 410 433 HOH HOH . G 3 HOH C 11 411 459 HOH HOH . G 3 HOH C 12 412 425 HOH HOH . G 3 HOH C 13 413 428 HOH HOH . G 3 HOH C 14 414 423 HOH HOH . G 3 HOH C 15 415 416 HOH HOH . G 3 HOH C 16 416 442 HOH HOH . G 3 HOH C 17 417 420 HOH HOH . G 3 HOH C 18 418 380 HOH HOH . G 3 HOH C 19 419 440 HOH HOH . G 3 HOH C 20 420 395 HOH HOH . G 3 HOH C 21 421 438 HOH HOH . G 3 HOH C 22 422 445 HOH HOH . G 3 HOH C 23 423 390 HOH HOH . G 3 HOH C 24 424 386 HOH HOH . G 3 HOH C 25 425 400 HOH HOH . G 3 HOH C 26 426 458 HOH HOH . G 3 HOH C 27 427 378 HOH HOH . G 3 HOH C 28 428 391 HOH HOH . G 3 HOH C 29 429 468 HOH HOH . G 3 HOH C 30 430 392 HOH HOH . G 3 HOH C 31 431 452 HOH HOH . G 3 HOH C 32 432 448 HOH HOH . G 3 HOH C 33 433 385 HOH HOH . G 3 HOH C 34 434 396 HOH HOH . G 3 HOH C 35 435 426 HOH HOH . G 3 HOH C 36 436 455 HOH HOH . G 3 HOH C 37 437 439 HOH HOH . G 3 HOH C 38 438 394 HOH HOH . G 3 HOH C 39 439 411 HOH HOH . G 3 HOH C 40 440 408 HOH HOH . G 3 HOH C 41 441 387 HOH HOH . G 3 HOH C 42 442 401 HOH HOH . G 3 HOH C 43 443 417 HOH HOH . G 3 HOH C 44 444 467 HOH HOH . G 3 HOH C 45 445 379 HOH HOH . G 3 HOH C 46 446 441 HOH HOH . G 3 HOH C 47 447 470 HOH HOH . G 3 HOH C 48 448 384 HOH HOH . G 3 HOH C 49 449 410 HOH HOH . G 3 HOH C 50 450 451 HOH HOH . G 3 HOH C 51 451 432 HOH HOH . G 3 HOH C 52 452 419 HOH HOH . G 3 HOH C 53 453 388 HOH HOH . G 3 HOH C 54 454 429 HOH HOH . G 3 HOH C 55 455 443 HOH HOH . G 3 HOH C 56 456 389 HOH HOH . G 3 HOH C 57 457 407 HOH HOH . G 3 HOH C 58 458 430 HOH HOH . G 3 HOH C 59 459 399 HOH HOH . G 3 HOH C 60 460 381 HOH HOH . G 3 HOH C 61 461 403 HOH HOH . G 3 HOH C 62 462 450 HOH HOH . G 3 HOH C 63 463 402 HOH HOH . G 3 HOH C 64 464 461 HOH HOH . G 3 HOH C 65 465 422 HOH HOH . G 3 HOH C 66 466 437 HOH HOH . G 3 HOH C 67 467 383 HOH HOH . G 3 HOH C 68 468 413 HOH HOH . G 3 HOH C 69 469 415 HOH HOH . G 3 HOH C 70 470 465 HOH HOH . G 3 HOH C 71 471 449 HOH HOH . G 3 HOH C 72 472 464 HOH HOH . G 3 HOH C 73 473 427 HOH HOH . G 3 HOH C 74 474 405 HOH HOH . G 3 HOH C 75 475 409 HOH HOH . G 3 HOH C 76 476 397 HOH HOH . G 3 HOH C 77 477 471 HOH HOH . G 3 HOH C 78 478 447 HOH HOH . G 3 HOH C 79 479 421 HOH HOH . G 3 HOH C 80 480 424 HOH HOH . G 3 HOH C 81 481 460 HOH HOH . G 3 HOH C 82 482 434 HOH HOH . G 3 HOH C 83 483 444 HOH HOH . G 3 HOH C 84 484 453 HOH HOH . G 3 HOH C 85 485 463 HOH HOH . G 3 HOH C 86 486 435 HOH HOH . G 3 HOH C 87 487 469 HOH HOH . G 3 HOH C 88 488 471 HOH HOH . G 3 HOH C 89 489 446 HOH HOH . G 3 HOH C 90 490 454 HOH HOH . G 3 HOH C 91 491 426 HOH HOH . G 3 HOH C 92 492 404 HOH HOH . G 3 HOH C 93 493 466 HOH HOH . G 3 HOH C 94 494 406 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NI _atom_site.label_atom_id NI _atom_site.label_comp_id NI _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 2 _atom_site.Cartn_x 30.844 _atom_site.Cartn_y 35.485 _atom_site.Cartn_z 139.965 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 65.83 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 401 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #