data_7LRL # _model_server_result.job_id MSUuGrwGRm5UhJwdRegeBA _model_server_result.datetime_utc '2024-11-25 22:19:20' _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 7lrl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 7LRL # _exptl.entry_id 7LRL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 373.448 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[4-oxidanyl-4-(phenylmethyl)piperidin-1-yl]-(2-pyridin-4-ylpyridin-3-yl)methanone' _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 7LRL _cell.length_a 58.241 _cell.length_b 63.532 _cell.length_c 123.749 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LRL _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 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 _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 3 _struct_asym.id C _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 SG CYS 417 A CYS 437 1_555 B FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc2 B FE HEM . A HEM 501 1_555 C N26 YBS . A YBS 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? # _chem_comp.formula 'C23 H23 N3 O2' _chem_comp.formula_weight 373.448 _chem_comp.id YBS _chem_comp.mon_nstd_flag . _chem_comp.name '[4-oxidanyl-4-(phenylmethyl)piperidin-1-yl]-(2-pyridin-4-ylpyridin-3-yl)methanone' _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 O16 C15 YBS doub 458 n n C19 C18 YBS doub 459 n y C19 C20 YBS sing 460 n y C24 C25 YBS doub 461 n y C24 C23 YBS sing 462 n y C18 C17 YBS sing 463 n y C20 N21 YBS doub 464 n y C17 C15 YBS sing 465 n n C17 C22 YBS doub 466 n y C25 N26 YBS sing 467 n y C15 N12 YBS sing 468 n n N21 C22 YBS sing 469 n y C22 C23 YBS sing 470 n n C23 C28 YBS doub 471 n y N26 C27 YBS doub 472 n y C28 C27 YBS sing 473 n y C8 C7 YBS doub 474 n y C8 C9 YBS sing 475 n y C7 C6 YBS sing 476 n y N12 C11 YBS sing 477 n n N12 C13 YBS sing 478 n n C11 C10 YBS sing 479 n n C9 C4 YBS doub 480 n y C6 C5 YBS doub 481 n y C10 C2 YBS sing 482 n n C13 C14 YBS sing 483 n n C4 C5 YBS sing 484 n y C4 C3 YBS sing 485 n n C14 C2 YBS sing 486 n n C2 C3 YBS sing 487 n n C2 O1 YBS sing 488 n n C5 H1 YBS sing 489 n n C6 H2 YBS sing 490 n n C7 H3 YBS sing 491 n n C8 H4 YBS sing 492 n n C10 H5 YBS sing 493 n n C10 H6 YBS sing 494 n n C13 H7 YBS sing 495 n n C13 H8 YBS sing 496 n n C20 H9 YBS sing 497 n n C24 H10 YBS sing 498 n n C28 H11 YBS sing 499 n n O1 H12 YBS sing 500 n n C3 H13 YBS sing 501 n n C3 H14 YBS sing 502 n n C9 H15 YBS sing 503 n n C11 H16 YBS sing 504 n n C11 H17 YBS sing 505 n n C14 H18 YBS sing 506 n n C14 H19 YBS sing 507 n n C18 H20 YBS sing 508 n n C19 H21 YBS sing 509 n n C25 H22 YBS sing 510 n n C27 H23 YBS sing 511 n n # _atom_sites.entry_id 7LRL _atom_sites.fract_transf_matrix[1][1] 0.01717 _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] 0.01574 _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] 0.008081 _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 HEM A 1 501 602 HEM HEM . C 3 YBS A 1 502 901 YBS LIG . D 4 HOH A 1 601 81 HOH HOH . D 4 HOH A 2 602 167 HOH HOH . D 4 HOH A 3 603 108 HOH HOH . D 4 HOH A 4 604 154 HOH HOH . D 4 HOH A 5 605 78 HOH HOH . D 4 HOH A 6 606 186 HOH HOH . D 4 HOH A 7 607 33 HOH HOH . D 4 HOH A 8 608 151 HOH HOH . D 4 HOH A 9 609 61 HOH HOH . D 4 HOH A 10 610 130 HOH HOH . D 4 HOH A 11 611 215 HOH HOH . D 4 HOH A 12 612 176 HOH HOH . D 4 HOH A 13 613 148 HOH HOH . D 4 HOH A 14 614 183 HOH HOH . D 4 HOH A 15 615 193 HOH HOH . D 4 HOH A 16 616 94 HOH HOH . D 4 HOH A 17 617 72 HOH HOH . D 4 HOH A 18 618 169 HOH HOH . D 4 HOH A 19 619 15 HOH HOH . D 4 HOH A 20 620 50 HOH HOH . D 4 HOH A 21 621 60 HOH HOH . D 4 HOH A 22 622 17 HOH HOH . D 4 HOH A 23 623 222 HOH HOH . D 4 HOH A 24 624 29 HOH HOH . D 4 HOH A 25 625 184 HOH HOH . D 4 HOH A 26 626 38 HOH HOH . D 4 HOH A 27 627 161 HOH HOH . D 4 HOH A 28 628 5 HOH HOH . D 4 HOH A 29 629 162 HOH HOH . D 4 HOH A 30 630 174 HOH HOH . D 4 HOH A 31 631 44 HOH HOH . D 4 HOH A 32 632 40 HOH HOH . D 4 HOH A 33 633 53 HOH HOH . D 4 HOH A 34 634 124 HOH HOH . D 4 HOH A 35 635 187 HOH HOH . D 4 HOH A 36 636 11 HOH HOH . D 4 HOH A 37 637 205 HOH HOH . D 4 HOH A 38 638 2 HOH HOH . D 4 HOH A 39 639 18 HOH HOH . D 4 HOH A 40 640 143 HOH HOH . D 4 HOH A 41 641 173 HOH HOH . D 4 HOH A 42 642 30 HOH HOH . D 4 HOH A 43 643 27 HOH HOH . D 4 HOH A 44 644 65 HOH HOH . D 4 HOH A 45 645 100 HOH HOH . D 4 HOH A 46 646 118 HOH HOH . D 4 HOH A 47 647 85 HOH HOH . D 4 HOH A 48 648 56 HOH HOH . D 4 HOH A 49 649 66 HOH HOH . D 4 HOH A 50 650 163 HOH HOH . D 4 HOH A 51 651 219 HOH HOH . D 4 HOH A 52 652 168 HOH HOH . D 4 HOH A 53 653 106 HOH HOH . D 4 HOH A 54 654 37 HOH HOH . D 4 HOH A 55 655 196 HOH HOH . D 4 HOH A 56 656 207 HOH HOH . D 4 HOH A 57 657 178 HOH HOH . D 4 HOH A 58 658 57 HOH HOH . D 4 HOH A 59 659 12 HOH HOH . D 4 HOH A 60 660 76 HOH HOH . D 4 HOH A 61 661 123 HOH HOH . D 4 HOH A 62 662 79 HOH HOH . D 4 HOH A 63 663 7 HOH HOH . D 4 HOH A 64 664 139 HOH HOH . D 4 HOH A 65 665 209 HOH HOH . D 4 HOH A 66 666 67 HOH HOH . D 4 HOH A 67 667 127 HOH HOH . D 4 HOH A 68 668 13 HOH HOH . D 4 HOH A 69 669 54 HOH HOH . D 4 HOH A 70 670 59 HOH HOH . D 4 HOH A 71 671 82 HOH HOH . D 4 HOH A 72 672 101 HOH HOH . D 4 HOH A 73 673 218 HOH HOH . D 4 HOH A 74 674 58 HOH HOH . D 4 HOH A 75 675 120 HOH HOH . D 4 HOH A 76 676 21 HOH HOH . D 4 HOH A 77 677 20 HOH HOH . D 4 HOH A 78 678 128 HOH HOH . D 4 HOH A 79 679 26 HOH HOH . D 4 HOH A 80 680 134 HOH HOH . D 4 HOH A 81 681 165 HOH HOH . D 4 HOH A 82 682 98 HOH HOH . D 4 HOH A 83 683 8 HOH HOH . D 4 HOH A 84 684 188 HOH HOH . D 4 HOH A 85 685 51 HOH HOH . D 4 HOH A 86 686 62 HOH HOH . D 4 HOH A 87 687 117 HOH HOH . D 4 HOH A 88 688 22 HOH HOH . D 4 HOH A 89 689 172 HOH HOH . D 4 HOH A 90 690 109 HOH HOH . D 4 HOH A 91 691 122 HOH HOH . D 4 HOH A 92 692 19 HOH HOH . D 4 HOH A 93 693 10 HOH HOH . D 4 HOH A 94 694 32 HOH HOH . D 4 HOH A 95 695 6 HOH HOH . D 4 HOH A 96 696 63 HOH HOH . D 4 HOH A 97 697 113 HOH HOH . D 4 HOH A 98 698 31 HOH HOH . D 4 HOH A 99 699 103 HOH HOH . D 4 HOH A 100 700 69 HOH HOH . D 4 HOH A 101 701 111 HOH HOH . D 4 HOH A 102 702 24 HOH HOH . D 4 HOH A 103 703 48 HOH HOH . D 4 HOH A 104 704 199 HOH HOH . D 4 HOH A 105 705 136 HOH HOH . D 4 HOH A 106 706 52 HOH HOH . D 4 HOH A 107 707 166 HOH HOH . D 4 HOH A 108 708 129 HOH HOH . D 4 HOH A 109 709 87 HOH HOH . D 4 HOH A 110 710 198 HOH HOH . D 4 HOH A 111 711 110 HOH HOH . D 4 HOH A 112 712 43 HOH HOH . D 4 HOH A 113 713 104 HOH HOH . D 4 HOH A 114 714 137 HOH HOH . D 4 HOH A 115 715 191 HOH HOH . D 4 HOH A 116 716 90 HOH HOH . D 4 HOH A 117 717 45 HOH HOH . D 4 HOH A 118 718 28 HOH HOH . D 4 HOH A 119 719 217 HOH HOH . D 4 HOH A 120 720 194 HOH HOH . D 4 HOH A 121 721 47 HOH HOH . D 4 HOH A 122 722 73 HOH HOH . D 4 HOH A 123 723 189 HOH HOH . D 4 HOH A 124 724 132 HOH HOH . D 4 HOH A 125 725 25 HOH HOH . D 4 HOH A 126 726 114 HOH HOH . D 4 HOH A 127 727 80 HOH HOH . D 4 HOH A 128 728 34 HOH HOH . D 4 HOH A 129 729 49 HOH HOH . D 4 HOH A 130 730 185 HOH HOH . D 4 HOH A 131 731 84 HOH HOH . D 4 HOH A 132 732 206 HOH HOH . D 4 HOH A 133 733 201 HOH HOH . D 4 HOH A 134 734 138 HOH HOH . D 4 HOH A 135 735 95 HOH HOH . D 4 HOH A 136 736 107 HOH HOH . D 4 HOH A 137 737 214 HOH HOH . D 4 HOH A 138 738 116 HOH HOH . D 4 HOH A 139 739 35 HOH HOH . D 4 HOH A 140 740 4 HOH HOH . D 4 HOH A 141 741 220 HOH HOH . D 4 HOH A 142 742 135 HOH HOH . D 4 HOH A 143 743 171 HOH HOH . D 4 HOH A 144 744 96 HOH HOH . D 4 HOH A 145 745 75 HOH HOH . D 4 HOH A 146 746 210 HOH HOH . D 4 HOH A 147 747 179 HOH HOH . D 4 HOH A 148 748 208 HOH HOH . D 4 HOH A 149 749 55 HOH HOH . D 4 HOH A 150 750 160 HOH HOH . D 4 HOH A 151 751 212 HOH HOH . D 4 HOH A 152 752 70 HOH HOH . D 4 HOH A 153 753 144 HOH HOH . D 4 HOH A 154 754 86 HOH HOH . D 4 HOH A 155 755 105 HOH HOH . D 4 HOH A 156 756 9 HOH HOH . D 4 HOH A 157 757 150 HOH HOH . D 4 HOH A 158 758 36 HOH HOH . D 4 HOH A 159 759 140 HOH HOH . D 4 HOH A 160 760 46 HOH HOH . D 4 HOH A 161 761 216 HOH HOH . D 4 HOH A 162 762 221 HOH HOH . D 4 HOH A 163 763 89 HOH HOH . D 4 HOH A 164 764 39 HOH HOH . D 4 HOH A 165 765 41 HOH HOH . D 4 HOH A 166 766 42 HOH HOH . D 4 HOH A 167 767 77 HOH HOH . D 4 HOH A 168 768 182 HOH HOH . D 4 HOH A 169 769 125 HOH HOH . D 4 HOH A 170 770 159 HOH HOH . D 4 HOH A 171 771 93 HOH HOH . D 4 HOH A 172 772 170 HOH HOH . D 4 HOH A 173 773 133 HOH HOH . D 4 HOH A 174 774 97 HOH HOH . D 4 HOH A 175 775 204 HOH HOH . D 4 HOH A 176 776 3 HOH HOH . D 4 HOH A 177 777 16 HOH HOH . D 4 HOH A 178 778 142 HOH HOH . D 4 HOH A 179 779 224 HOH HOH . D 4 HOH A 180 780 181 HOH HOH . D 4 HOH A 181 781 152 HOH HOH . D 4 HOH A 182 782 23 HOH HOH . D 4 HOH A 183 783 146 HOH HOH . D 4 HOH A 184 784 68 HOH HOH . D 4 HOH A 185 785 102 HOH HOH . D 4 HOH A 186 786 211 HOH HOH . D 4 HOH A 187 787 119 HOH HOH . D 4 HOH A 188 788 83 HOH HOH . D 4 HOH A 189 789 153 HOH HOH . D 4 HOH A 190 790 74 HOH HOH . D 4 HOH A 191 791 88 HOH HOH . D 4 HOH A 192 792 99 HOH HOH . D 4 HOH A 193 793 126 HOH HOH . D 4 HOH A 194 794 149 HOH HOH . D 4 HOH A 195 795 195 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 C C4 YBS . . . C 3 20.238 3.474 -20.086 1 19.3 0 C4 YBS 502 A 1 HETATM 2 C C5 YBS . . . C 3 21.319 2.611 -20.049 1 20.08 0 C5 YBS 502 A 1 HETATM 3 C C6 YBS . . . C 3 22.391 2.781 -20.904 1 18.55 0 C6 YBS 502 A 1 HETATM 4 C C7 YBS . . . C 3 22.396 3.851 -21.792 1 20.65 0 C7 YBS 502 A 1 HETATM 5 C C8 YBS . . . C 3 21.328 4.728 -21.822 1 18.6 0 C8 YBS 502 A 1 HETATM 6 C C10 YBS . . . C 3 17.631 2.622 -20.549 1 16.32 0 C10 YBS 502 A 1 HETATM 7 N N12 YBS . . . C 3 17.089 0.461 -21.611 1 14.13 0 N12 YBS 502 A 1 HETATM 8 C C13 YBS . . . C 3 17.399 -0.208 -20.361 1 12.22 0 C13 YBS 502 A 1 HETATM 9 C C15 YBS . . . C 3 17.335 -0.136 -22.81 1 14.49 0 C15 YBS 502 A 1 HETATM 10 C C17 YBS . . . C 3 17.824 -1.537 -22.847 1 11.63 0 C17 YBS 502 A 1 HETATM 11 C C20 YBS . . . C 3 18.742 -4.101 -22.897 1 10.94 0 C20 YBS 502 A 1 HETATM 12 C C22 YBS . . . C 3 16.932 -2.634 -22.716 1 10.42 0 C22 YBS 502 A 1 HETATM 13 C C24 YBS . . . C 3 14.734 -1.369 -23.013 1 10.4 0 C24 YBS 502 A 1 HETATM 14 C C28 YBS . . . C 3 14.681 -3.522 -21.968 1 10.84 0 C28 YBS 502 A 1 HETATM 15 O O1 YBS . . . C 3 16.892 2.124 -18.629 1 16.71 0 O1 YBS 502 A 1 HETATM 16 C C2 YBS . . . C 3 18.189 2.004 -19.209 1 16.36 0 C2 YBS 502 A 1 HETATM 17 C C3 YBS . . . C 3 19.051 3.313 -19.158 1 16.98 0 C3 YBS 502 A 1 HETATM 18 C C9 YBS . . . C 3 20.263 4.544 -20.967 1 19.36 0 C9 YBS 502 A 1 HETATM 19 C C11 YBS . . . C 3 16.617 1.847 -21.448 1 14.33 0 C11 YBS 502 A 1 HETATM 20 C C14 YBS . . . C 3 18.581 0.652 -19.871 1 13.95 0 C14 YBS 502 A 1 HETATM 21 O O16 YBS . . . C 3 17.123 0.437 -23.858 1 12.81 0 O16 YBS 502 A 1 HETATM 22 C C18 YBS . . . C 3 19.2 -1.775 -23.007 1 11.58 0 C18 YBS 502 A 1 HETATM 23 C C19 YBS . . . C 3 19.662 -3.082 -23.042 1 8.2 0 C19 YBS 502 A 1 HETATM 24 N N21 YBS . . . C 3 17.448 -3.864 -22.748 1 11.08 0 N21 YBS 502 A 1 HETATM 25 C C23 YBS . . . C 3 15.441 -2.493 -22.553 1 10.67 0 C23 YBS 502 A 1 HETATM 26 C C25 YBS . . . C 3 13.352 -1.33 -22.836 1 10.95 0 C25 YBS 502 A 1 HETATM 27 N N26 YBS . . . C 3 12.682 -2.313 -22.242 1 8.37 0 N26 YBS 502 A 1 HETATM 28 C C27 YBS . . . C 3 13.3 -3.409 -21.83 1 10.45 0 C27 YBS 502 A 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 28 #