data_5YNB # _model_server_result.job_id dRRsd1YpVXAskSRkpphthg _model_server_result.datetime_utc '2024-11-13 16:53:49' _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 5ynb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":201}' # _entry.id 5YNB # _exptl.entry_id 5YNB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 65.409 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ZINC ION' _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 5YNB _cell.length_a 66.325 _cell.length_b 70.206 _cell.length_c 119.198 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YNB _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 ? 4 D N N ? 4 E 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 B SG CYS 74 B CYS 74 1_555 D ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc2 B SG CYS 77 B CYS 77 1_555 D ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc3 B NE2 HIS 83 B HIS 83 1_555 D ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc4 B SG CYS 90 B CYS 90 1_555 D ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc5 B SG CYS 117 B CYS 117 1_555 E ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc6 B SG CYS 120 B CYS 120 1_555 E ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc7 B SG CYS 128 B CYS 128 1_555 E ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc8 B SG CYS 130 B CYS 130 1_555 E ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? # _chem_comp.formula 'Zn 2' _chem_comp.formula_weight 65.409 _chem_comp.id ZN _chem_comp.mon_nstd_flag . _chem_comp.name 'ZINC ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5YNB _atom_sites.fract_transf_matrix[1][1] 0.015077 _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] 0.014244 _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] 0.008389 _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 C 3 SFG A 1 401 401 SFG SFG . D 4 ZN B 1 201 998 ZN ZN . E 4 ZN B 1 202 999 ZN ZN . F 5 HOH A 1 501 42 HOH HOH . F 5 HOH A 2 502 45 HOH HOH . F 5 HOH A 3 503 64 HOH HOH . F 5 HOH A 4 504 75 HOH HOH . F 5 HOH A 5 505 100 HOH HOH . F 5 HOH A 6 506 81 HOH HOH . F 5 HOH A 7 507 167 HOH HOH . F 5 HOH A 8 508 93 HOH HOH . F 5 HOH A 9 509 79 HOH HOH . F 5 HOH A 10 510 40 HOH HOH . F 5 HOH A 11 511 36 HOH HOH . F 5 HOH A 12 512 31 HOH HOH . F 5 HOH A 13 513 41 HOH HOH . F 5 HOH A 14 514 103 HOH HOH . F 5 HOH A 15 515 58 HOH HOH . F 5 HOH A 16 516 2 HOH HOH . F 5 HOH A 17 517 122 HOH HOH . F 5 HOH A 18 518 19 HOH HOH . F 5 HOH A 19 519 61 HOH HOH . F 5 HOH A 20 520 25 HOH HOH . F 5 HOH A 21 521 176 HOH HOH . F 5 HOH A 22 522 8 HOH HOH . F 5 HOH A 23 523 1 HOH HOH . F 5 HOH A 24 524 62 HOH HOH . F 5 HOH A 25 525 15 HOH HOH . F 5 HOH A 26 526 70 HOH HOH . F 5 HOH A 27 527 3 HOH HOH . F 5 HOH A 28 528 73 HOH HOH . F 5 HOH A 29 529 34 HOH HOH . F 5 HOH A 30 530 30 HOH HOH . F 5 HOH A 31 531 29 HOH HOH . F 5 HOH A 32 532 44 HOH HOH . F 5 HOH A 33 533 111 HOH HOH . F 5 HOH A 34 534 138 HOH HOH . F 5 HOH A 35 535 27 HOH HOH . F 5 HOH A 36 536 199 HOH HOH . F 5 HOH A 37 537 32 HOH HOH . F 5 HOH A 38 538 101 HOH HOH . F 5 HOH A 39 539 60 HOH HOH . F 5 HOH A 40 540 109 HOH HOH . F 5 HOH A 41 541 13 HOH HOH . F 5 HOH A 42 542 26 HOH HOH . F 5 HOH A 43 543 102 HOH HOH . F 5 HOH A 44 544 5 HOH HOH . F 5 HOH A 45 545 147 HOH HOH . F 5 HOH A 46 546 190 HOH HOH . F 5 HOH A 47 547 96 HOH HOH . F 5 HOH A 48 548 135 HOH HOH . F 5 HOH A 49 549 7 HOH HOH . F 5 HOH A 50 550 76 HOH HOH . F 5 HOH A 51 551 91 HOH HOH . F 5 HOH A 52 552 55 HOH HOH . F 5 HOH A 53 553 59 HOH HOH . F 5 HOH A 54 554 92 HOH HOH . F 5 HOH A 55 555 95 HOH HOH . F 5 HOH A 56 556 97 HOH HOH . F 5 HOH A 57 557 21 HOH HOH . F 5 HOH A 58 558 22 HOH HOH . F 5 HOH A 59 559 161 HOH HOH . F 5 HOH A 60 560 6 HOH HOH . F 5 HOH A 61 561 77 HOH HOH . F 5 HOH A 62 562 20 HOH HOH . F 5 HOH A 63 563 74 HOH HOH . F 5 HOH A 64 564 104 HOH HOH . F 5 HOH A 65 565 65 HOH HOH . F 5 HOH A 66 566 11 HOH HOH . F 5 HOH A 67 567 38 HOH HOH . F 5 HOH A 68 568 9 HOH HOH . F 5 HOH A 69 569 89 HOH HOH . F 5 HOH A 70 570 116 HOH HOH . F 5 HOH A 71 571 162 HOH HOH . F 5 HOH A 72 572 18 HOH HOH . F 5 HOH A 73 573 82 HOH HOH . F 5 HOH A 74 574 68 HOH HOH . F 5 HOH A 75 575 143 HOH HOH . F 5 HOH A 76 576 107 HOH HOH . F 5 HOH A 77 577 78 HOH HOH . F 5 HOH A 78 578 23 HOH HOH . F 5 HOH A 79 579 145 HOH HOH . F 5 HOH A 80 580 121 HOH HOH . F 5 HOH A 81 581 46 HOH HOH . F 5 HOH A 82 582 197 HOH HOH . F 5 HOH A 83 583 69 HOH HOH . F 5 HOH A 84 584 37 HOH HOH . F 5 HOH A 85 585 88 HOH HOH . F 5 HOH A 86 586 99 HOH HOH . F 5 HOH A 87 587 183 HOH HOH . F 5 HOH A 88 588 66 HOH HOH . F 5 HOH A 89 589 35 HOH HOH . F 5 HOH A 90 590 54 HOH HOH . F 5 HOH A 91 591 117 HOH HOH . F 5 HOH A 92 592 10 HOH HOH . F 5 HOH A 93 593 105 HOH HOH . F 5 HOH A 94 594 87 HOH HOH . F 5 HOH A 95 595 49 HOH HOH . F 5 HOH A 96 596 17 HOH HOH . F 5 HOH A 97 597 85 HOH HOH . F 5 HOH A 98 598 130 HOH HOH . F 5 HOH A 99 599 125 HOH HOH . F 5 HOH A 100 600 14 HOH HOH . F 5 HOH A 101 601 168 HOH HOH . F 5 HOH A 102 602 47 HOH HOH . F 5 HOH A 103 603 188 HOH HOH . F 5 HOH A 104 604 156 HOH HOH . F 5 HOH A 105 605 24 HOH HOH . F 5 HOH A 106 606 142 HOH HOH . F 5 HOH A 107 607 56 HOH HOH . F 5 HOH A 108 608 119 HOH HOH . F 5 HOH A 109 609 67 HOH HOH . F 5 HOH A 110 610 48 HOH HOH . F 5 HOH A 111 611 57 HOH HOH . F 5 HOH A 112 612 94 HOH HOH . F 5 HOH A 113 613 191 HOH HOH . F 5 HOH A 114 614 146 HOH HOH . F 5 HOH A 115 615 33 HOH HOH . F 5 HOH A 116 616 98 HOH HOH . F 5 HOH A 117 617 16 HOH HOH . F 5 HOH A 118 618 201 HOH HOH . F 5 HOH A 119 619 128 HOH HOH . F 5 HOH A 120 620 139 HOH HOH . F 5 HOH A 121 621 133 HOH HOH . F 5 HOH A 122 622 163 HOH HOH . F 5 HOH A 123 623 51 HOH HOH . F 5 HOH A 124 624 203 HOH HOH . F 5 HOH A 125 625 144 HOH HOH . F 5 HOH A 126 626 80 HOH HOH . F 5 HOH A 127 627 172 HOH HOH . F 5 HOH A 128 628 204 HOH HOH . F 5 HOH A 129 629 150 HOH HOH . F 5 HOH A 130 630 207 HOH HOH . F 5 HOH A 131 631 192 HOH HOH . F 5 HOH A 132 632 186 HOH HOH . F 5 HOH A 133 633 160 HOH HOH . F 5 HOH A 134 634 206 HOH HOH . F 5 HOH A 135 635 182 HOH HOH . F 5 HOH A 136 636 174 HOH HOH . F 5 HOH A 137 637 177 HOH HOH . F 5 HOH A 138 638 83 HOH HOH . F 5 HOH A 139 639 171 HOH HOH . F 5 HOH A 140 640 148 HOH HOH . F 5 HOH A 141 641 50 HOH HOH . F 5 HOH A 142 642 141 HOH HOH . F 5 HOH A 143 643 149 HOH HOH . F 5 HOH A 144 644 120 HOH HOH . F 5 HOH A 145 645 185 HOH HOH . F 5 HOH A 146 646 127 HOH HOH . F 5 HOH A 147 647 28 HOH HOH . F 5 HOH A 148 648 114 HOH HOH . F 5 HOH A 149 649 196 HOH HOH . F 5 HOH A 150 650 108 HOH HOH . F 5 HOH A 151 651 169 HOH HOH . F 5 HOH A 152 652 166 HOH HOH . F 5 HOH A 153 653 134 HOH HOH . F 5 HOH A 154 654 155 HOH HOH . F 5 HOH A 155 655 175 HOH HOH . F 5 HOH A 156 656 184 HOH HOH . F 5 HOH A 157 657 164 HOH HOH . F 5 HOH A 158 658 189 HOH HOH . F 5 HOH A 159 659 140 HOH HOH . F 5 HOH A 160 660 157 HOH HOH . F 5 HOH A 161 661 4 HOH HOH . F 5 HOH A 162 662 198 HOH HOH . F 5 HOH A 163 663 205 HOH HOH . F 5 HOH A 164 664 180 HOH HOH . F 5 HOH A 165 665 71 HOH HOH . F 5 HOH A 166 666 112 HOH HOH . F 5 HOH A 167 667 181 HOH HOH . F 5 HOH A 168 668 178 HOH HOH . F 5 HOH A 169 669 208 HOH HOH . F 5 HOH A 170 670 159 HOH HOH . F 5 HOH A 171 671 39 HOH HOH . F 5 HOH A 172 672 151 HOH HOH . F 5 HOH A 173 673 154 HOH HOH . F 5 HOH A 174 674 131 HOH HOH . F 5 HOH A 175 675 170 HOH HOH . F 5 HOH A 176 676 187 HOH HOH . F 5 HOH A 177 677 202 HOH HOH . F 5 HOH A 178 678 113 HOH HOH . F 5 HOH A 179 679 173 HOH HOH . F 5 HOH A 180 680 132 HOH HOH . F 5 HOH A 181 681 152 HOH HOH . G 5 HOH B 1 301 129 HOH HOH . G 5 HOH B 2 302 43 HOH HOH . G 5 HOH B 3 303 106 HOH HOH . G 5 HOH B 4 304 153 HOH HOH . G 5 HOH B 5 305 110 HOH HOH . G 5 HOH B 6 306 115 HOH HOH . G 5 HOH B 7 307 72 HOH HOH . G 5 HOH B 8 308 52 HOH HOH . G 5 HOH B 9 309 136 HOH HOH . G 5 HOH B 10 310 63 HOH HOH . G 5 HOH B 11 311 12 HOH HOH . G 5 HOH B 12 312 118 HOH HOH . G 5 HOH B 13 313 124 HOH HOH . G 5 HOH B 14 314 84 HOH HOH . G 5 HOH B 15 315 53 HOH HOH . G 5 HOH B 16 316 90 HOH HOH . G 5 HOH B 17 317 86 HOH HOH . G 5 HOH B 18 318 123 HOH HOH . G 5 HOH B 19 319 165 HOH HOH . G 5 HOH B 20 320 126 HOH HOH . G 5 HOH B 21 321 179 HOH HOH . G 5 HOH B 22 322 158 HOH HOH . G 5 HOH B 23 323 195 HOH HOH . G 5 HOH B 24 324 200 HOH HOH . G 5 HOH B 25 325 137 HOH HOH . G 5 HOH B 26 326 193 HOH HOH . G 5 HOH B 27 327 194 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol ZN _atom_site.label_atom_id ZN _atom_site.label_comp_id ZN _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 4 _atom_site.Cartn_x 62.067 _atom_site.Cartn_y 69.213 _atom_site.Cartn_z 161.429 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 37.75 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 201 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 1 #