data_8ZUL # _model_server_result.job_id MYwKnrwyxrkS40CxaI_YJw _model_server_result.datetime_utc '2025-07-30 21:47:27' _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 8zul # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 8ZUL # _exptl.entry_id 8ZUL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 417.503 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-azanyl-5-[2-[(3~{R})-3-azanylpyrrolidin-1-yl]pyridin-4-yl]-3-(2,6-dimethyl-3-oxidanyl-phenyl)benzamide _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 8ZUL _cell.length_a 99.801 _cell.length_b 55.834 _cell.length_c 58.633 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8ZUL _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab' _symmetry.space_group_name_H-M 'P 21 21 2' # _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 _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C24 H27 N5 O2' _chem_comp.formula_weight 417.503 _chem_comp.id A1D84 _chem_comp.mon_nstd_flag . _chem_comp.name 2-azanyl-5-[2-[(3~{R})-3-azanylpyrrolidin-1-yl]pyridin-4-yl]-3-(2,6-dimethyl-3-oxidanyl-phenyl)benzamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C19 C20 A1D84 sing 1 n n C19 C18 A1D84 sing 2 n n C20 N5 A1D84 sing 3 n n C20 C21 A1D84 sing 4 n n C18 N2 A1D84 sing 5 n n N2 C21 A1D84 sing 6 n n N2 C10 A1D84 sing 7 n n N1 C10 A1D84 doub 8 n y N1 C9 A1D84 sing 9 n y C10 C11 A1D84 sing 10 n y C24 C13 A1D84 sing 11 n n C14 C13 A1D84 doub 12 n y C14 C15 A1D84 sing 13 n y C9 C8 A1D84 doub 14 n y C11 C7 A1D84 doub 15 n y C13 C12 A1D84 sing 16 n y C15 C16 A1D84 doub 17 n y C8 C7 A1D84 sing 18 n y C7 C4 A1D84 sing 19 n n C5 C4 A1D84 doub 20 n y C5 C6 A1D84 sing 21 n y C12 C17 A1D84 doub 22 n y C12 C6 A1D84 sing 23 n n C16 C17 A1D84 sing 24 n y C16 O2 A1D84 sing 25 n n C4 C3 A1D84 sing 26 n y C17 C23 A1D84 sing 27 n n C6 C1 A1D84 doub 28 n y C3 C2 A1D84 doub 29 n y C1 C2 A1D84 sing 30 n y C1 N3 A1D84 sing 31 n n C2 C22 A1D84 sing 32 n n C22 O1 A1D84 doub 33 n n C22 N4 A1D84 sing 34 n n N3 H1 A1D84 sing 35 n n N3 H2 A1D84 sing 36 n n C5 H3 A1D84 sing 37 n n C8 H4 A1D84 sing 38 n n C15 H5 A1D84 sing 39 n n C20 H6 A1D84 sing 40 n n C21 H7 A1D84 sing 41 n n C21 H8 A1D84 sing 42 n n C24 H9 A1D84 sing 43 n n C24 H10 A1D84 sing 44 n n C24 H11 A1D84 sing 45 n n C3 H12 A1D84 sing 46 n n C9 H13 A1D84 sing 47 n n C11 H14 A1D84 sing 48 n n C14 H15 A1D84 sing 49 n n C18 H16 A1D84 sing 50 n n C18 H17 A1D84 sing 51 n n C19 H18 A1D84 sing 52 n n C19 H19 A1D84 sing 53 n n N4 H20 A1D84 sing 54 n n N4 H21 A1D84 sing 55 n n O2 H22 A1D84 sing 56 n n C23 H23 A1D84 sing 57 n n C23 H24 A1D84 sing 58 n n C23 H25 A1D84 sing 59 n n N5 H26 A1D84 sing 60 n n N5 H27 A1D84 sing 61 n n # _atom_sites.entry_id 8ZUL _atom_sites.fract_transf_matrix[1][1] 0.01002 _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] 0.01791 _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] 0.017055 _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 A1D84 A 1 401 401 A1D84 LIG . C 3 HOH A 1 501 59 HOH HOH . C 3 HOH A 2 502 40 HOH HOH . C 3 HOH A 3 503 174 HOH HOH . C 3 HOH A 4 504 113 HOH HOH . C 3 HOH A 5 505 45 HOH HOH . C 3 HOH A 6 506 36 HOH HOH . C 3 HOH A 7 507 181 HOH HOH . C 3 HOH A 8 508 104 HOH HOH . C 3 HOH A 9 509 84 HOH HOH . C 3 HOH A 10 510 176 HOH HOH . C 3 HOH A 11 511 147 HOH HOH . C 3 HOH A 12 512 83 HOH HOH . C 3 HOH A 13 513 124 HOH HOH . C 3 HOH A 14 514 81 HOH HOH . C 3 HOH A 15 515 15 HOH HOH . C 3 HOH A 16 516 19 HOH HOH . C 3 HOH A 17 517 1 HOH HOH . C 3 HOH A 18 518 38 HOH HOH . C 3 HOH A 19 519 140 HOH HOH . C 3 HOH A 20 520 91 HOH HOH . C 3 HOH A 21 521 52 HOH HOH . C 3 HOH A 22 522 94 HOH HOH . C 3 HOH A 23 523 103 HOH HOH . C 3 HOH A 24 524 211 HOH HOH . C 3 HOH A 25 525 195 HOH HOH . C 3 HOH A 26 526 30 HOH HOH . C 3 HOH A 27 527 213 HOH HOH . C 3 HOH A 28 528 107 HOH HOH . C 3 HOH A 29 529 100 HOH HOH . C 3 HOH A 30 530 115 HOH HOH . C 3 HOH A 31 531 202 HOH HOH . C 3 HOH A 32 532 210 HOH HOH . C 3 HOH A 33 533 50 HOH HOH . C 3 HOH A 34 534 2 HOH HOH . C 3 HOH A 35 535 135 HOH HOH . C 3 HOH A 36 536 22 HOH HOH . C 3 HOH A 37 537 87 HOH HOH . C 3 HOH A 38 538 149 HOH HOH . C 3 HOH A 39 539 61 HOH HOH . C 3 HOH A 40 540 14 HOH HOH . C 3 HOH A 41 541 208 HOH HOH . C 3 HOH A 42 542 163 HOH HOH . C 3 HOH A 43 543 56 HOH HOH . C 3 HOH A 44 544 120 HOH HOH . C 3 HOH A 45 545 27 HOH HOH . C 3 HOH A 46 546 66 HOH HOH . C 3 HOH A 47 547 24 HOH HOH . C 3 HOH A 48 548 48 HOH HOH . C 3 HOH A 49 549 54 HOH HOH . C 3 HOH A 50 550 32 HOH HOH . C 3 HOH A 51 551 167 HOH HOH . C 3 HOH A 52 552 142 HOH HOH . C 3 HOH A 53 553 23 HOH HOH . C 3 HOH A 54 554 68 HOH HOH . C 3 HOH A 55 555 35 HOH HOH . C 3 HOH A 56 556 64 HOH HOH . C 3 HOH A 57 557 7 HOH HOH . C 3 HOH A 58 558 134 HOH HOH . C 3 HOH A 59 559 53 HOH HOH . C 3 HOH A 60 560 60 HOH HOH . C 3 HOH A 61 561 168 HOH HOH . C 3 HOH A 62 562 16 HOH HOH . C 3 HOH A 63 563 41 HOH HOH . C 3 HOH A 64 564 25 HOH HOH . C 3 HOH A 65 565 13 HOH HOH . C 3 HOH A 66 566 10 HOH HOH . C 3 HOH A 67 567 11 HOH HOH . C 3 HOH A 68 568 117 HOH HOH . C 3 HOH A 69 569 93 HOH HOH . C 3 HOH A 70 570 165 HOH HOH . C 3 HOH A 71 571 44 HOH HOH . C 3 HOH A 72 572 6 HOH HOH . C 3 HOH A 73 573 197 HOH HOH . C 3 HOH A 74 574 26 HOH HOH . C 3 HOH A 75 575 139 HOH HOH . C 3 HOH A 76 576 159 HOH HOH . C 3 HOH A 77 577 33 HOH HOH . C 3 HOH A 78 578 42 HOH HOH . C 3 HOH A 79 579 180 HOH HOH . C 3 HOH A 80 580 49 HOH HOH . C 3 HOH A 81 581 47 HOH HOH . C 3 HOH A 82 582 17 HOH HOH . C 3 HOH A 83 583 146 HOH HOH . C 3 HOH A 84 584 73 HOH HOH . C 3 HOH A 85 585 111 HOH HOH . C 3 HOH A 86 586 144 HOH HOH . C 3 HOH A 87 587 4 HOH HOH . C 3 HOH A 88 588 8 HOH HOH . C 3 HOH A 89 589 28 HOH HOH . C 3 HOH A 90 590 105 HOH HOH . C 3 HOH A 91 591 89 HOH HOH . C 3 HOH A 92 592 9 HOH HOH . C 3 HOH A 93 593 109 HOH HOH . C 3 HOH A 94 594 71 HOH HOH . C 3 HOH A 95 595 125 HOH HOH . C 3 HOH A 96 596 67 HOH HOH . C 3 HOH A 97 597 3 HOH HOH . C 3 HOH A 98 598 179 HOH HOH . C 3 HOH A 99 599 79 HOH HOH . C 3 HOH A 100 600 62 HOH HOH . C 3 HOH A 101 601 203 HOH HOH . C 3 HOH A 102 602 63 HOH HOH . C 3 HOH A 103 603 116 HOH HOH . C 3 HOH A 104 604 108 HOH HOH . C 3 HOH A 105 605 12 HOH HOH . C 3 HOH A 106 606 121 HOH HOH . C 3 HOH A 107 607 209 HOH HOH . C 3 HOH A 108 608 5 HOH HOH . C 3 HOH A 109 609 99 HOH HOH . C 3 HOH A 110 610 127 HOH HOH . C 3 HOH A 111 611 90 HOH HOH . C 3 HOH A 112 612 95 HOH HOH . C 3 HOH A 113 613 46 HOH HOH . C 3 HOH A 114 614 158 HOH HOH . C 3 HOH A 115 615 43 HOH HOH . C 3 HOH A 116 616 21 HOH HOH . C 3 HOH A 117 617 145 HOH HOH . C 3 HOH A 118 618 96 HOH HOH . C 3 HOH A 119 619 205 HOH HOH . C 3 HOH A 120 620 188 HOH HOH . C 3 HOH A 121 621 153 HOH HOH . C 3 HOH A 122 622 74 HOH HOH . C 3 HOH A 123 623 187 HOH HOH . C 3 HOH A 124 624 129 HOH HOH . C 3 HOH A 125 625 186 HOH HOH . C 3 HOH A 126 626 133 HOH HOH . C 3 HOH A 127 627 143 HOH HOH . C 3 HOH A 128 628 166 HOH HOH . C 3 HOH A 129 629 206 HOH HOH . C 3 HOH A 130 630 82 HOH HOH . C 3 HOH A 131 631 34 HOH HOH . C 3 HOH A 132 632 70 HOH HOH . C 3 HOH A 133 633 196 HOH HOH . C 3 HOH A 134 634 31 HOH HOH . C 3 HOH A 135 635 190 HOH HOH . C 3 HOH A 136 636 39 HOH HOH . C 3 HOH A 137 637 182 HOH HOH . C 3 HOH A 138 638 77 HOH HOH . C 3 HOH A 139 639 114 HOH HOH . C 3 HOH A 140 640 171 HOH HOH . C 3 HOH A 141 641 118 HOH HOH . C 3 HOH A 142 642 92 HOH HOH . C 3 HOH A 143 643 55 HOH HOH . C 3 HOH A 144 644 126 HOH HOH . C 3 HOH A 145 645 130 HOH HOH . C 3 HOH A 146 646 128 HOH HOH . C 3 HOH A 147 647 200 HOH HOH . C 3 HOH A 148 648 136 HOH HOH . C 3 HOH A 149 649 101 HOH HOH . C 3 HOH A 150 650 177 HOH HOH . C 3 HOH A 151 651 193 HOH HOH . C 3 HOH A 152 652 80 HOH HOH . C 3 HOH A 153 653 164 HOH HOH . C 3 HOH A 154 654 175 HOH HOH . C 3 HOH A 155 655 122 HOH HOH . C 3 HOH A 156 656 154 HOH HOH . C 3 HOH A 157 657 157 HOH HOH . C 3 HOH A 158 658 131 HOH HOH . C 3 HOH A 159 659 184 HOH HOH . C 3 HOH A 160 660 192 HOH HOH . C 3 HOH A 161 661 199 HOH HOH . C 3 HOH A 162 662 189 HOH HOH . C 3 HOH A 163 663 152 HOH HOH . C 3 HOH A 164 664 207 HOH HOH . C 3 HOH A 165 665 72 HOH HOH . C 3 HOH A 166 666 112 HOH HOH . C 3 HOH A 167 667 214 HOH HOH . C 3 HOH A 168 668 155 HOH HOH . C 3 HOH A 169 669 65 HOH HOH . C 3 HOH A 170 670 102 HOH HOH . C 3 HOH A 171 671 69 HOH HOH . C 3 HOH A 172 672 191 HOH HOH . C 3 HOH A 173 673 58 HOH HOH . C 3 HOH A 174 674 162 HOH HOH . C 3 HOH A 175 675 20 HOH HOH . C 3 HOH A 176 676 51 HOH HOH . C 3 HOH A 177 677 132 HOH HOH . C 3 HOH A 178 678 123 HOH HOH . C 3 HOH A 179 679 170 HOH HOH . C 3 HOH A 180 680 119 HOH HOH . C 3 HOH A 181 681 160 HOH HOH . C 3 HOH A 182 682 172 HOH HOH . C 3 HOH A 183 683 173 HOH HOH . C 3 HOH A 184 684 106 HOH HOH . C 3 HOH A 185 685 198 HOH HOH . C 3 HOH A 186 686 141 HOH HOH . C 3 HOH A 187 687 78 HOH HOH . C 3 HOH A 188 688 85 HOH HOH . C 3 HOH A 189 689 178 HOH HOH . C 3 HOH A 190 690 204 HOH HOH . C 3 HOH A 191 691 88 HOH HOH . C 3 HOH A 192 692 97 HOH HOH . C 3 HOH A 193 693 76 HOH HOH . C 3 HOH A 194 694 212 HOH HOH . C 3 HOH A 195 695 183 HOH HOH . C 3 HOH A 196 696 150 HOH HOH . C 3 HOH A 197 697 18 HOH HOH . C 3 HOH A 198 698 194 HOH HOH . C 3 HOH A 199 699 29 HOH HOH . C 3 HOH A 200 700 151 HOH HOH . C 3 HOH A 201 701 57 HOH HOH . C 3 HOH A 202 702 185 HOH HOH . C 3 HOH A 203 703 201 HOH HOH . C 3 HOH A 204 704 161 HOH HOH . C 3 HOH A 205 705 137 HOH HOH . C 3 HOH A 206 706 138 HOH HOH . C 3 HOH A 207 707 148 HOH HOH . C 3 HOH A 208 708 156 HOH HOH . C 3 HOH A 209 709 169 HOH HOH . C 3 HOH A 210 710 98 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 N N1 A1D84 . . . B 2 -8.756 4.431 -18.999 1 32.51 ? N1 A1D84 401 A 1 HETATM 2 N N3 A1D84 . . . B 2 -11.019 11.674 -15.268 1 16.6 ? N3 A1D84 401 A 1 HETATM 3 C C4 A1D84 . . . B 2 -9.776 8.167 -17.22 1 21.29 ? C4 A1D84 401 A 1 HETATM 4 C C5 A1D84 . . . B 2 -11.012 8.773 -17.576 1 17.74 ? C5 A1D84 401 A 1 HETATM 5 C C6 A1D84 . . . B 2 -11.402 9.97 -16.927 1 15.44 ? C6 A1D84 401 A 1 HETATM 6 C C7 A1D84 . . . B 2 -9.368 6.863 -17.879 1 24.11 ? C7 A1D84 401 A 1 HETATM 7 C C8 A1D84 . . . B 2 -8.053 6.45 -17.994 1 26.61 ? C8 A1D84 401 A 1 HETATM 8 C C10 A1D84 . . . B 2 -10.026 4.767 -18.882 1 31.29 ? C10 A1D84 401 A 1 HETATM 9 C C13 A1D84 . . . B 2 -12.789 11.649 -18.296 1 20.1 ? C13 A1D84 401 A 1 HETATM 10 C C15 A1D84 . . . B 2 -15.2 11.51 -18.288 1 18.05 ? C15 A1D84 401 A 1 HETATM 11 C C17 A1D84 . . . B 2 -13.922 9.958 -16.942 1 17.91 ? C17 A1D84 401 A 1 HETATM 12 C C20 A1D84 . . . B 2 -13.239 3.29 -19.931 1 54.4 ? C20 A1D84 401 A 1 HETATM 13 C C21 A1D84 . . . B 2 -12.634 3.909 -18.949 1 53.19 ? C21 A1D84 401 A 1 HETATM 14 C C22 A1D84 . . . B 2 -8.522 10.488 -14.475 1 20.15 ? C22 A1D84 401 A 1 HETATM 15 C C24 A1D84 . . . B 2 -11.495 12.338 -18.797 1 20.52 ? C24 A1D84 401 A 1 HETATM 16 C C1 A1D84 . . . B 2 -10.631 10.506 -15.926 1 17.05 ? C1 A1D84 401 A 1 HETATM 17 C C2 A1D84 . . . B 2 -9.406 9.875 -15.575 1 17.73 ? C2 A1D84 401 A 1 HETATM 18 C C3 A1D84 . . . B 2 -8.994 8.716 -16.231 1 18.42 ? C3 A1D84 401 A 1 HETATM 19 C C9 A1D84 . . . B 2 -7.764 5.21 -18.587 1 29.79 ? C9 A1D84 401 A 1 HETATM 20 C C11 A1D84 . . . B 2 -10.405 5.992 -18.317 1 22.74 ? C11 A1D84 401 A 1 HETATM 21 C C12 A1D84 . . . B 2 -12.734 10.562 -17.385 1 15.98 ? C12 A1D84 401 A 1 HETATM 22 C C14 A1D84 . . . B 2 -13.997 12.109 -18.728 1 20.38 ? C14 A1D84 401 A 1 HETATM 23 C C16 A1D84 . . . B 2 -15.134 10.415 -17.383 1 16.99 ? C16 A1D84 401 A 1 HETATM 24 N N2 A1D84 . . . B 2 -11.062 3.843 -19.347 1 41.16 ? N2 A1D84 401 A 1 HETATM 25 C C18 A1D84 . . . B 2 -10.879 2.621 -19.758 1 45.25 ? C18 A1D84 401 A 1 HETATM 26 C C19 A1D84 . . . B 2 -12.201 2.298 -20.518 1 66.17 ? C19 A1D84 401 A 1 HETATM 27 N N4 A1D84 . . . B 2 -7.501 9.679 -13.928 1 21.72 ? N4 A1D84 401 A 1 HETATM 28 O O1 A1D84 . . . B 2 -8.679 11.652 -14.065 1 22.27 ? O1 A1D84 401 A 1 HETATM 29 O O2 A1D84 . . . B 2 -16.354 9.814 -16.928 1 17.68 ? O2 A1D84 401 A 1 HETATM 30 C C23 A1D84 . . . B 2 -13.868 8.794 -15.962 1 20.64 ? C23 A1D84 401 A 1 HETATM 31 N N5 A1D84 . . . B 2 -14.46 2.566 -19.407 1 46.85 ? N5 A1D84 401 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 332 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #