data_5YKP
#
_model_server_result.job_id            01-QEJphxWE-zQLiZrVHsw 
_model_server_result.datetime_utc      '2024-11-05 23:55:32' 
_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          5ykp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":402}' 
#
_entry.id    5YKP 
#
_exptl.entry_id    5YKP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              58.933 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'COBALT (II) ION' 
_entity.pdbx_number_of_molecules    3 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          91.62 
_cell.angle_gamma         90 
_cell.entry_id            5YKP 
_cell.length_a            47.713 
_cell.length_b            77.398 
_cell.length_c            47.489 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YKP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_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,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 
#
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 
? 2 D 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 OE2 GLU 40 A GLU 128 1_555 D CO CO . A CO 403 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.192 ? 
metalc ? metalc2 A OH TYR 107 A TYR 195 1_555 D CO CO . A CO 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? 
metalc ? metalc3 A O SER 117 A SER 205 1_555 E K K . A K 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.929 ? 
metalc ? metalc4 A O ASN 119 A ASN 207 1_555 E K K . A K 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.831 ? 
metalc ? metalc5 A O VAL 121 A VAL 209 1_555 E K K . A K 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? 
metalc ? metalc6 A OD1 ASP 141 A ASP 229 1_555 C CO CO . A CO 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? 
metalc ? metalc7 A OD2 ASP 141 A ASP 229 1_555 C CO CO . A CO 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? 
metalc ? metalc8 A OD2 ASP 152 A ASP 240 1_555 B CO CO . A CO 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
metalc ? metalc9 A OD1 ASP 152 A ASP 240 1_555 C CO CO . A CO 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? 
metalc ? metalc10 A NE2 HIS 215 A HIS 303 1_555 B CO CO . A CO 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? 
metalc ? metalc11 A NE2 HIS 222 A HIS 310 1_555 D CO CO . A CO 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? 
metalc ? metalc12 A OE1 GLU 248 A GLU 336 1_555 B CO CO . A CO 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? 
metalc ? metalc13 A O SER 275 A SER 363 1_555 E K K . A K 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? 
metalc ? metalc14 A OE2 GLU 279 A GLU 367 1_555 B CO CO . A CO 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? 
metalc ? metalc15 A OE1 GLU 279 A GLU 367 1_555 C CO CO . A CO 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? 
metalc ? metalc16 B CO CO . A CO 401 1_555 G O HOH . A HOH 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? 
metalc ? metalc17 C CO CO . A CO 402 1_555 G O HOH . A HOH 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.983 ? 
metalc ? metalc18 C CO CO . A CO 402 1_555 G O HOH . A HOH 594 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? 
metalc ? metalc19 D CO CO . A CO 403 1_555 G O HOH . A HOH 597 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? 
metalc ? metalc20 E K K . A K 404 1_555 G O HOH . A HOH 683 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.753 ? 
#
_chem_comp.formula           'Co 2' 
_chem_comp.formula_weight    58.933 
_chem_comp.id                CO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'COBALT (II) ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     5YKP 
_atom_sites.fract_transf_matrix[1][1]    0.020959 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000593 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01292 
_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]    0.021066 
_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 CO A 1 401 401 CO CO . 
C 2 CO A 1 402 402 CO CO . 
D 2 CO A 1 403 403 CO CO . 
E 3 K A 1 404 404 K K . 
F 4 OVA A 1 405 405 OVA OVA . 
G 5 HOH A 1 501 530 HOH HOH . 
G 5 HOH A 2 502 474 HOH HOH . 
G 5 HOH A 3 503 545 HOH HOH . 
G 5 HOH A 4 504 567 HOH HOH . 
G 5 HOH A 5 505 556 HOH HOH . 
G 5 HOH A 6 506 579 HOH HOH . 
G 5 HOH A 7 507 580 HOH HOH . 
G 5 HOH A 8 508 553 HOH HOH . 
G 5 HOH A 9 509 449 HOH HOH . 
G 5 HOH A 10 510 558 HOH HOH . 
G 5 HOH A 11 511 608 HOH HOH . 
G 5 HOH A 12 512 484 HOH HOH . 
G 5 HOH A 13 513 432 HOH HOH . 
G 5 HOH A 14 514 605 HOH HOH . 
G 5 HOH A 15 515 526 HOH HOH . 
G 5 HOH A 16 516 574 HOH HOH . 
G 5 HOH A 17 517 490 HOH HOH . 
G 5 HOH A 18 518 514 HOH HOH . 
G 5 HOH A 19 519 415 HOH HOH . 
G 5 HOH A 20 520 528 HOH HOH . 
G 5 HOH A 21 521 508 HOH HOH . 
G 5 HOH A 22 522 615 HOH HOH . 
G 5 HOH A 23 523 525 HOH HOH . 
G 5 HOH A 24 524 536 HOH HOH . 
G 5 HOH A 25 525 444 HOH HOH . 
G 5 HOH A 26 526 436 HOH HOH . 
G 5 HOH A 27 527 433 HOH HOH . 
G 5 HOH A 28 528 535 HOH HOH . 
G 5 HOH A 29 529 562 HOH HOH . 
G 5 HOH A 30 530 412 HOH HOH . 
G 5 HOH A 31 531 485 HOH HOH . 
G 5 HOH A 32 532 614 HOH HOH . 
G 5 HOH A 33 533 551 HOH HOH . 
G 5 HOH A 34 534 520 HOH HOH . 
G 5 HOH A 35 535 463 HOH HOH . 
G 5 HOH A 36 536 523 HOH HOH . 
G 5 HOH A 37 537 453 HOH HOH . 
G 5 HOH A 38 538 452 HOH HOH . 
G 5 HOH A 39 539 570 HOH HOH . 
G 5 HOH A 40 540 529 HOH HOH . 
G 5 HOH A 41 541 527 HOH HOH . 
G 5 HOH A 42 542 569 HOH HOH . 
G 5 HOH A 43 543 499 HOH HOH . 
G 5 HOH A 44 544 442 HOH HOH . 
G 5 HOH A 45 545 519 HOH HOH . 
G 5 HOH A 46 546 411 HOH HOH . 
G 5 HOH A 47 547 438 HOH HOH . 
G 5 HOH A 48 548 445 HOH HOH . 
G 5 HOH A 49 549 489 HOH HOH . 
G 5 HOH A 50 550 591 HOH HOH . 
G 5 HOH A 51 551 414 HOH HOH . 
G 5 HOH A 52 552 417 HOH HOH . 
G 5 HOH A 53 553 494 HOH HOH . 
G 5 HOH A 54 554 472 HOH HOH . 
G 5 HOH A 55 555 488 HOH HOH . 
G 5 HOH A 56 556 439 HOH HOH . 
G 5 HOH A 57 557 416 HOH HOH . 
G 5 HOH A 58 558 587 HOH HOH . 
G 5 HOH A 59 559 443 HOH HOH . 
G 5 HOH A 60 560 413 HOH HOH . 
G 5 HOH A 61 561 480 HOH HOH . 
G 5 HOH A 62 562 455 HOH HOH . 
G 5 HOH A 63 563 482 HOH HOH . 
G 5 HOH A 64 564 421 HOH HOH . 
G 5 HOH A 65 565 611 HOH HOH . 
G 5 HOH A 66 566 437 HOH HOH . 
G 5 HOH A 67 567 537 HOH HOH . 
G 5 HOH A 68 568 419 HOH HOH . 
G 5 HOH A 69 569 468 HOH HOH . 
G 5 HOH A 70 570 441 HOH HOH . 
G 5 HOH A 71 571 517 HOH HOH . 
G 5 HOH A 72 572 552 HOH HOH . 
G 5 HOH A 73 573 493 HOH HOH . 
G 5 HOH A 74 574 521 HOH HOH . 
G 5 HOH A 75 575 456 HOH HOH . 
G 5 HOH A 76 576 425 HOH HOH . 
G 5 HOH A 77 577 428 HOH HOH . 
G 5 HOH A 78 578 500 HOH HOH . 
G 5 HOH A 79 579 431 HOH HOH . 
G 5 HOH A 80 580 583 HOH HOH . 
G 5 HOH A 81 581 458 HOH HOH . 
G 5 HOH A 82 582 497 HOH HOH . 
G 5 HOH A 83 583 546 HOH HOH . 
G 5 HOH A 84 584 594 HOH HOH . 
G 5 HOH A 85 585 496 HOH HOH . 
G 5 HOH A 86 586 478 HOH HOH . 
G 5 HOH A 87 587 451 HOH HOH . 
G 5 HOH A 88 588 577 HOH HOH . 
G 5 HOH A 89 589 502 HOH HOH . 
G 5 HOH A 90 590 446 HOH HOH . 
G 5 HOH A 91 591 576 HOH HOH . 
G 5 HOH A 92 592 465 HOH HOH . 
G 5 HOH A 93 593 440 HOH HOH . 
G 5 HOH A 94 594 448 HOH HOH . 
G 5 HOH A 95 595 513 HOH HOH . 
G 5 HOH A 96 596 429 HOH HOH . 
G 5 HOH A 97 597 597 HOH HOH . 
G 5 HOH A 98 598 509 HOH HOH . 
G 5 HOH A 99 599 538 HOH HOH . 
G 5 HOH A 100 600 532 HOH HOH . 
G 5 HOH A 101 601 565 HOH HOH . 
G 5 HOH A 102 602 524 HOH HOH . 
G 5 HOH A 103 603 616 HOH HOH . 
G 5 HOH A 104 604 510 HOH HOH . 
G 5 HOH A 105 605 475 HOH HOH . 
G 5 HOH A 106 606 515 HOH HOH . 
G 5 HOH A 107 607 581 HOH HOH . 
G 5 HOH A 108 608 607 HOH HOH . 
G 5 HOH A 109 609 600 HOH HOH . 
G 5 HOH A 110 610 426 HOH HOH . 
G 5 HOH A 111 611 422 HOH HOH . 
G 5 HOH A 112 612 590 HOH HOH . 
G 5 HOH A 113 613 554 HOH HOH . 
G 5 HOH A 114 614 531 HOH HOH . 
G 5 HOH A 115 615 487 HOH HOH . 
G 5 HOH A 116 616 588 HOH HOH . 
G 5 HOH A 117 617 491 HOH HOH . 
G 5 HOH A 118 618 460 HOH HOH . 
G 5 HOH A 119 619 424 HOH HOH . 
G 5 HOH A 120 620 522 HOH HOH . 
G 5 HOH A 121 621 492 HOH HOH . 
G 5 HOH A 122 622 534 HOH HOH . 
G 5 HOH A 123 623 477 HOH HOH . 
G 5 HOH A 124 624 473 HOH HOH . 
G 5 HOH A 125 625 589 HOH HOH . 
G 5 HOH A 126 626 483 HOH HOH . 
G 5 HOH A 127 627 430 HOH HOH . 
G 5 HOH A 128 628 511 HOH HOH . 
G 5 HOH A 129 629 459 HOH HOH . 
G 5 HOH A 130 630 533 HOH HOH . 
G 5 HOH A 131 631 582 HOH HOH . 
G 5 HOH A 132 632 464 HOH HOH . 
G 5 HOH A 133 633 573 HOH HOH . 
G 5 HOH A 134 634 481 HOH HOH . 
G 5 HOH A 135 635 504 HOH HOH . 
G 5 HOH A 136 636 593 HOH HOH . 
G 5 HOH A 137 637 547 HOH HOH . 
G 5 HOH A 138 638 610 HOH HOH . 
G 5 HOH A 139 639 471 HOH HOH . 
G 5 HOH A 140 640 479 HOH HOH . 
G 5 HOH A 141 641 518 HOH HOH . 
G 5 HOH A 142 642 447 HOH HOH . 
G 5 HOH A 143 643 469 HOH HOH . 
G 5 HOH A 144 644 541 HOH HOH . 
G 5 HOH A 145 645 595 HOH HOH . 
G 5 HOH A 146 646 427 HOH HOH . 
G 5 HOH A 147 647 486 HOH HOH . 
G 5 HOH A 148 648 495 HOH HOH . 
G 5 HOH A 149 649 420 HOH HOH . 
G 5 HOH A 150 650 498 HOH HOH . 
G 5 HOH A 151 651 609 HOH HOH . 
G 5 HOH A 152 652 476 HOH HOH . 
G 5 HOH A 153 653 418 HOH HOH . 
G 5 HOH A 154 654 467 HOH HOH . 
G 5 HOH A 155 655 454 HOH HOH . 
G 5 HOH A 156 656 584 HOH HOH . 
G 5 HOH A 157 657 575 HOH HOH . 
G 5 HOH A 158 658 435 HOH HOH . 
G 5 HOH A 159 659 603 HOH HOH . 
G 5 HOH A 160 660 512 HOH HOH . 
G 5 HOH A 161 661 506 HOH HOH . 
G 5 HOH A 162 662 434 HOH HOH . 
G 5 HOH A 163 663 462 HOH HOH . 
G 5 HOH A 164 664 505 HOH HOH . 
G 5 HOH A 165 665 601 HOH HOH . 
G 5 HOH A 166 666 503 HOH HOH . 
G 5 HOH A 167 667 516 HOH HOH . 
G 5 HOH A 168 668 566 HOH HOH . 
G 5 HOH A 169 669 571 HOH HOH . 
G 5 HOH A 170 670 450 HOH HOH . 
G 5 HOH A 171 671 470 HOH HOH . 
G 5 HOH A 172 672 602 HOH HOH . 
G 5 HOH A 173 673 539 HOH HOH . 
G 5 HOH A 174 674 592 HOH HOH . 
G 5 HOH A 175 675 548 HOH HOH . 
G 5 HOH A 176 676 572 HOH HOH . 
G 5 HOH A 177 677 457 HOH HOH . 
G 5 HOH A 178 678 564 HOH HOH . 
G 5 HOH A 179 679 543 HOH HOH . 
G 5 HOH A 180 680 550 HOH HOH . 
G 5 HOH A 181 681 604 HOH HOH . 
G 5 HOH A 182 682 568 HOH HOH . 
G 5 HOH A 183 683 423 HOH HOH . 
G 5 HOH A 184 684 549 HOH HOH . 
G 5 HOH A 185 685 585 HOH HOH . 
G 5 HOH A 186 686 578 HOH HOH . 
G 5 HOH A 187 687 599 HOH HOH . 
G 5 HOH A 188 688 466 HOH HOH . 
G 5 HOH A 189 689 559 HOH HOH . 
G 5 HOH A 190 690 501 HOH HOH . 
G 5 HOH A 191 691 563 HOH HOH . 
G 5 HOH A 192 692 613 HOH HOH . 
G 5 HOH A 193 693 555 HOH HOH . 
G 5 HOH A 194 694 542 HOH HOH . 
G 5 HOH A 195 695 560 HOH HOH . 
G 5 HOH A 196 696 507 HOH HOH . 
G 5 HOH A 197 697 561 HOH HOH . 
G 5 HOH A 198 698 557 HOH HOH . 
G 5 HOH A 199 699 540 HOH HOH . 
G 5 HOH A 200 700 461 HOH HOH . 
G 5 HOH A 201 701 586 HOH HOH . 
G 5 HOH A 202 702 598 HOH HOH . 
G 5 HOH A 203 703 596 HOH HOH . 
G 5 HOH A 204 704 544 HOH HOH . 
G 5 HOH A 205 705 612 HOH HOH . 
G 5 HOH A 206 706 606 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           CO 
_atom_site.label_atom_id         CO 
_atom_site.label_comp_id         CO 
_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       2 
_atom_site.Cartn_x               8.279 
_atom_site.Cartn_y               0.677 
_atom_site.Cartn_z               23.197 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        21.55 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          CO 
_atom_site.auth_comp_id          CO 
_atom_site.auth_seq_id           402 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           30 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           1 
#