data_5Y3E
#
_model_server_result.job_id            ocF9-3z5uVoy-p7ZkSRhyQ 
_model_server_result.datetime_utc      '2024-10-24 22:28:54' 
_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          5y3e 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":406}' 
#
_entry.id    5Y3E 
#
_exptl.entry_id    5Y3E 
_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    5 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          124.98 
_cell.angle_gamma         90 
_cell.entry_id            5Y3E 
_cell.length_a            151.179 
_cell.length_b            33.357 
_cell.length_c            90.89 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5Y3E 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K 
_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
? 3 C N N 
? 3 D N N 
? 3 E N N 
? 3 F N N 
? 3 G 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
disulf ? disulf1 A SG CYS 271 A CYS 271 1_555 A SG CYS 271 A CYS 271 2_558 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? 
metalc ? metalc1 A OH TYR 72 A TYR 72 1_555 F NA NA . A NA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.742 ? 
metalc ? metalc2 A OG SER 115 A SER 115 1_555 E NA NA . A NA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.92 ? 
metalc ? metalc3 A O SER 116 A SER 116 1_555 D NA NA . A NA 403 1_555 ? A ? ? ? ? ? ? ? ? ? ? 3.082 ? 
metalc ? metalc4 A OG SER 116 A SER 116 1_555 D NA NA . A NA 403 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.727 ? 
metalc ? metalc5 A O ALA 132 A ALA 132 1_555 F NA NA . A NA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.907 ? 
metalc ? metalc6 A SG CYS 190 A CYS 190 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? 
metalc ? metalc7 A SG CYS 193 A CYS 193 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? 
metalc ? metalc8 A O VAL 206 A VAL 206 1_555 G NA NA . A NA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.849 ? 
metalc ? metalc9 A O LYS 218 A LYS 218 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.633 ? 
metalc ? metalc10 A SG CYS 225 A CYS 225 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? 
metalc ? metalc11 A SG CYS 227 A CYS 227 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? 
metalc ? metalc12 A O LEU 235 A LEU 235 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.673 ? 
metalc ? metalc13 A O MET 244 A MET 244 1_555 G NA NA . A NA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.912 ? 
metalc ? metalc14 A OD1 ASN 263 A ASN 263 1_555 D NA NA . A NA 403 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.329 ? 
metalc ? metalc15 A O ILE 286 A ILE 286 1_555 E NA NA . A NA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.972 ? 
metalc ? metalc16 A OH TYR 311 A TYR 311 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.769 ? 
metalc ? metalc17 A OG1 THR 313 A THR 313 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.72 ? 
metalc ? metalc18 E NA NA . A NA 404 1_555 K O HOH . A HOH 530 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.949 ? 
metalc ? metalc19 F NA NA . A NA 405 1_555 K O HOH . A HOH 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? 
#
_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                     5Y3E 
_atom_sites.fract_transf_matrix[1][1]    0.006615 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004628 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.029979 
_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]    0.013427 
_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 ZN A 1 401 1 ZN ZN . 
C 3 NA A 1 402 1 NA NA . 
D 3 NA A 1 403 2 NA NA . 
E 3 NA A 1 404 3 NA NA . 
F 3 NA A 1 405 4 NA NA . 
G 3 NA A 1 406 5 NA NA . 
H 4 GOL A 1 407 2 GOL GOL . 
I 4 GOL A 1 408 3 GOL GOL . 
J 4 GOL A 1 409 4 GOL GOL . 
K 5 HOH A 1 501 211 HOH HOH . 
K 5 HOH A 2 502 209 HOH HOH . 
K 5 HOH A 3 503 65 HOH HOH . 
K 5 HOH A 4 504 134 HOH HOH . 
K 5 HOH A 5 505 182 HOH HOH . 
K 5 HOH A 6 506 118 HOH HOH . 
K 5 HOH A 7 507 100 HOH HOH . 
K 5 HOH A 8 508 116 HOH HOH . 
K 5 HOH A 9 509 135 HOH HOH . 
K 5 HOH A 10 510 139 HOH HOH . 
K 5 HOH A 11 511 183 HOH HOH . 
K 5 HOH A 12 512 28 HOH HOH . 
K 5 HOH A 13 513 33 HOH HOH . 
K 5 HOH A 14 514 196 HOH HOH . 
K 5 HOH A 15 515 187 HOH HOH . 
K 5 HOH A 16 516 8 HOH HOH . 
K 5 HOH A 17 517 84 HOH HOH . 
K 5 HOH A 18 518 90 HOH HOH . 
K 5 HOH A 19 519 69 HOH HOH . 
K 5 HOH A 20 520 74 HOH HOH . 
K 5 HOH A 21 521 173 HOH HOH . 
K 5 HOH A 22 522 97 HOH HOH . 
K 5 HOH A 23 523 154 HOH HOH . 
K 5 HOH A 24 524 83 HOH HOH . 
K 5 HOH A 25 525 125 HOH HOH . 
K 5 HOH A 26 526 213 HOH HOH . 
K 5 HOH A 27 527 101 HOH HOH . 
K 5 HOH A 28 528 56 HOH HOH . 
K 5 HOH A 29 529 106 HOH HOH . 
K 5 HOH A 30 530 104 HOH HOH . 
K 5 HOH A 31 531 85 HOH HOH . 
K 5 HOH A 32 532 15 HOH HOH . 
K 5 HOH A 33 533 161 HOH HOH . 
K 5 HOH A 34 534 145 HOH HOH . 
K 5 HOH A 35 535 174 HOH HOH . 
K 5 HOH A 36 536 79 HOH HOH . 
K 5 HOH A 37 537 156 HOH HOH . 
K 5 HOH A 38 538 76 HOH HOH . 
K 5 HOH A 39 539 1 HOH HOH . 
K 5 HOH A 40 540 47 HOH HOH . 
K 5 HOH A 41 541 41 HOH HOH . 
K 5 HOH A 42 542 54 HOH HOH . 
K 5 HOH A 43 543 117 HOH HOH . 
K 5 HOH A 44 544 95 HOH HOH . 
K 5 HOH A 45 545 49 HOH HOH . 
K 5 HOH A 46 546 120 HOH HOH . 
K 5 HOH A 47 547 164 HOH HOH . 
K 5 HOH A 48 548 123 HOH HOH . 
K 5 HOH A 49 549 169 HOH HOH . 
K 5 HOH A 50 550 108 HOH HOH . 
K 5 HOH A 51 551 30 HOH HOH . 
K 5 HOH A 52 552 162 HOH HOH . 
K 5 HOH A 53 553 142 HOH HOH . 
K 5 HOH A 54 554 44 HOH HOH . 
K 5 HOH A 55 555 131 HOH HOH . 
K 5 HOH A 56 556 186 HOH HOH . 
K 5 HOH A 57 557 20 HOH HOH . 
K 5 HOH A 58 558 25 HOH HOH . 
K 5 HOH A 59 559 78 HOH HOH . 
K 5 HOH A 60 560 216 HOH HOH . 
K 5 HOH A 61 561 14 HOH HOH . 
K 5 HOH A 62 562 197 HOH HOH . 
K 5 HOH A 63 563 31 HOH HOH . 
K 5 HOH A 64 564 122 HOH HOH . 
K 5 HOH A 65 565 107 HOH HOH . 
K 5 HOH A 66 566 53 HOH HOH . 
K 5 HOH A 67 567 24 HOH HOH . 
K 5 HOH A 68 568 150 HOH HOH . 
K 5 HOH A 69 569 16 HOH HOH . 
K 5 HOH A 70 570 9 HOH HOH . 
K 5 HOH A 71 571 109 HOH HOH . 
K 5 HOH A 72 572 147 HOH HOH . 
K 5 HOH A 73 573 63 HOH HOH . 
K 5 HOH A 74 574 128 HOH HOH . 
K 5 HOH A 75 575 144 HOH HOH . 
K 5 HOH A 76 576 210 HOH HOH . 
K 5 HOH A 77 577 171 HOH HOH . 
K 5 HOH A 78 578 212 HOH HOH . 
K 5 HOH A 79 579 155 HOH HOH . 
K 5 HOH A 80 580 77 HOH HOH . 
K 5 HOH A 81 581 91 HOH HOH . 
K 5 HOH A 82 582 111 HOH HOH . 
K 5 HOH A 83 583 168 HOH HOH . 
K 5 HOH A 84 584 18 HOH HOH . 
K 5 HOH A 85 585 32 HOH HOH . 
K 5 HOH A 86 586 86 HOH HOH . 
K 5 HOH A 87 587 39 HOH HOH . 
K 5 HOH A 88 588 80 HOH HOH . 
K 5 HOH A 89 589 6 HOH HOH . 
K 5 HOH A 90 590 188 HOH HOH . 
K 5 HOH A 91 591 19 HOH HOH . 
K 5 HOH A 92 592 35 HOH HOH . 
K 5 HOH A 93 593 170 HOH HOH . 
K 5 HOH A 94 594 130 HOH HOH . 
K 5 HOH A 95 595 158 HOH HOH . 
K 5 HOH A 96 596 98 HOH HOH . 
K 5 HOH A 97 597 151 HOH HOH . 
K 5 HOH A 98 598 199 HOH HOH . 
K 5 HOH A 99 599 178 HOH HOH . 
K 5 HOH A 100 600 112 HOH HOH . 
K 5 HOH A 101 601 71 HOH HOH . 
K 5 HOH A 102 602 42 HOH HOH . 
K 5 HOH A 103 603 59 HOH HOH . 
K 5 HOH A 104 604 57 HOH HOH . 
K 5 HOH A 105 605 93 HOH HOH . 
K 5 HOH A 106 606 198 HOH HOH . 
K 5 HOH A 107 607 141 HOH HOH . 
K 5 HOH A 108 608 99 HOH HOH . 
K 5 HOH A 109 609 143 HOH HOH . 
K 5 HOH A 110 610 132 HOH HOH . 
K 5 HOH A 111 611 88 HOH HOH . 
K 5 HOH A 112 612 103 HOH HOH . 
K 5 HOH A 113 613 180 HOH HOH . 
K 5 HOH A 114 614 61 HOH HOH . 
K 5 HOH A 115 615 13 HOH HOH . 
K 5 HOH A 116 616 22 HOH HOH . 
K 5 HOH A 117 617 11 HOH HOH . 
K 5 HOH A 118 618 36 HOH HOH . 
K 5 HOH A 119 619 159 HOH HOH . 
K 5 HOH A 120 620 113 HOH HOH . 
K 5 HOH A 121 621 105 HOH HOH . 
K 5 HOH A 122 622 214 HOH HOH . 
K 5 HOH A 123 623 87 HOH HOH . 
K 5 HOH A 124 624 126 HOH HOH . 
K 5 HOH A 125 625 45 HOH HOH . 
K 5 HOH A 126 626 192 HOH HOH . 
K 5 HOH A 127 627 67 HOH HOH . 
K 5 HOH A 128 628 10 HOH HOH . 
K 5 HOH A 129 629 60 HOH HOH . 
K 5 HOH A 130 630 3 HOH HOH . 
K 5 HOH A 131 631 66 HOH HOH . 
K 5 HOH A 132 632 121 HOH HOH . 
K 5 HOH A 133 633 55 HOH HOH . 
K 5 HOH A 134 634 38 HOH HOH . 
K 5 HOH A 135 635 43 HOH HOH . 
K 5 HOH A 136 636 137 HOH HOH . 
K 5 HOH A 137 637 58 HOH HOH . 
K 5 HOH A 138 638 46 HOH HOH . 
K 5 HOH A 139 639 29 HOH HOH . 
K 5 HOH A 140 640 110 HOH HOH . 
K 5 HOH A 141 641 167 HOH HOH . 
K 5 HOH A 142 642 129 HOH HOH . 
K 5 HOH A 143 643 72 HOH HOH . 
K 5 HOH A 144 644 193 HOH HOH . 
K 5 HOH A 145 645 50 HOH HOH . 
K 5 HOH A 146 646 40 HOH HOH . 
K 5 HOH A 147 647 37 HOH HOH . 
K 5 HOH A 148 648 146 HOH HOH . 
K 5 HOH A 149 649 7 HOH HOH . 
K 5 HOH A 150 650 5 HOH HOH . 
K 5 HOH A 151 651 181 HOH HOH . 
K 5 HOH A 152 652 133 HOH HOH . 
K 5 HOH A 153 653 127 HOH HOH . 
K 5 HOH A 154 654 92 HOH HOH . 
K 5 HOH A 155 655 27 HOH HOH . 
K 5 HOH A 156 656 189 HOH HOH . 
K 5 HOH A 157 657 2 HOH HOH . 
K 5 HOH A 158 658 153 HOH HOH . 
K 5 HOH A 159 659 157 HOH HOH . 
K 5 HOH A 160 660 136 HOH HOH . 
K 5 HOH A 161 661 148 HOH HOH . 
K 5 HOH A 162 662 23 HOH HOH . 
K 5 HOH A 163 663 96 HOH HOH . 
K 5 HOH A 164 664 34 HOH HOH . 
K 5 HOH A 165 665 190 HOH HOH . 
K 5 HOH A 166 666 21 HOH HOH . 
K 5 HOH A 167 667 81 HOH HOH . 
K 5 HOH A 168 668 51 HOH HOH . 
K 5 HOH A 169 669 12 HOH HOH . 
K 5 HOH A 170 670 177 HOH HOH . 
K 5 HOH A 171 671 152 HOH HOH . 
K 5 HOH A 172 672 176 HOH HOH . 
K 5 HOH A 173 673 124 HOH HOH . 
K 5 HOH A 174 674 17 HOH HOH . 
K 5 HOH A 175 675 166 HOH HOH . 
K 5 HOH A 176 676 179 HOH HOH . 
K 5 HOH A 177 677 203 HOH HOH . 
K 5 HOH A 178 678 200 HOH HOH . 
K 5 HOH A 179 679 149 HOH HOH . 
K 5 HOH A 180 680 140 HOH HOH . 
K 5 HOH A 181 681 70 HOH HOH . 
K 5 HOH A 182 682 194 HOH HOH . 
K 5 HOH A 183 683 102 HOH HOH . 
K 5 HOH A 184 684 206 HOH HOH . 
K 5 HOH A 185 685 48 HOH HOH . 
K 5 HOH A 186 686 184 HOH HOH . 
K 5 HOH A 187 687 52 HOH HOH . 
K 5 HOH A 188 688 207 HOH HOH . 
K 5 HOH A 189 689 73 HOH HOH . 
K 5 HOH A 190 690 138 HOH HOH . 
K 5 HOH A 191 691 64 HOH HOH . 
K 5 HOH A 192 692 26 HOH HOH . 
K 5 HOH A 193 693 175 HOH HOH . 
K 5 HOH A 194 694 68 HOH HOH . 
K 5 HOH A 195 695 208 HOH HOH . 
K 5 HOH A 196 696 163 HOH HOH . 
K 5 HOH A 197 697 201 HOH HOH . 
K 5 HOH A 198 698 215 HOH HOH . 
K 5 HOH A 199 699 75 HOH HOH . 
K 5 HOH A 200 700 185 HOH HOH . 
K 5 HOH A 201 701 205 HOH HOH . 
K 5 HOH A 202 702 62 HOH HOH . 
K 5 HOH A 203 703 191 HOH HOH . 
K 5 HOH A 204 704 160 HOH HOH . 
K 5 HOH A 205 705 172 HOH HOH . 
K 5 HOH A 206 706 119 HOH HOH . 
K 5 HOH A 207 707 115 HOH HOH . 
K 5 HOH A 208 708 89 HOH HOH . 
K 5 HOH A 209 709 204 HOH HOH . 
K 5 HOH A 210 710 202 HOH HOH . 
K 5 HOH A 211 711 4 HOH HOH . 
K 5 HOH A 212 712 94 HOH HOH . 
K 5 HOH A 213 713 165 HOH HOH . 
K 5 HOH A 214 714 195 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         G 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               -52.628 
_atom_site.Cartn_y               -7.574 
_atom_site.Cartn_z               115.167 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        26.85 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NA 
_atom_site.auth_comp_id          NA 
_atom_site.auth_seq_id           406 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           241 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           1 
#