data_VL9 # _chem_comp.id VL9 _chem_comp.name "[(1~{S})-2-[3,5-bis(chloranyl)-1-oxidanyl-pyridin-4-yl]-1-(3,4-dimethoxyphenyl)ethyl] 5-[[[(1~{R})-2-[[(3~{R})-1-azabicyclo[2.2.2]octan-3-yl]oxy]-2-oxidanylidene-1-phenyl-ethyl]amino]methyl]thiophene-2-carboxylate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C36 H38 Cl2 N3 O7 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-03-10 _chem_comp.pdbx_modified_date 2023-04-21 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 727.674 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VL9 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag Y _chem_comp.pdbx_model_coordinates_db_code 8OEG _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal VL9 O2 O1 O 0 1 N N N 37.987 22.412 -11.610 ? ? ? O2 VL9 1 VL9 C22 C1 C 0 1 N N N 40.739 21.337 -14.073 ? ? ? C22 VL9 2 VL9 C1 C2 C 0 1 Y N N 38.809 16.560 -3.606 ? ? ? C1 VL9 3 VL9 C C3 C 0 1 Y N N 38.362 17.314 -4.673 ? ? ? C VL9 4 VL9 N2 N1 N 0 1 N N N 40.079 23.826 -13.911 ? ? ? N2 VL9 5 VL9 C21 C4 C 0 1 N N N 40.820 22.749 -14.757 ? ? ? C21 VL9 6 VL9 O1 O2 O 0 1 N N N 34.849 19.389 -4.485 ? ? ? O1 VL9 7 VL9 N N2 N 0 1 Y N N 30.369 20.688 -2.846 ? ? ? N VL9 8 VL9 C2 C5 C 0 1 Y N N 38.057 16.508 -2.468 ? ? ? C2 VL9 9 VL9 C3 C6 C 0 1 Y N N 36.900 17.232 -2.323 ? ? ? C3 VL9 10 VL9 C7 C7 C 0 1 N N N 33.872 18.132 -2.733 ? ? ? C7 VL9 11 VL9 N1 N3 N 0 1 N N N 34.907 23.858 -9.977 ? ? ? N1 VL9 12 VL9 C6 C8 C 0 1 N N S 35.208 18.870 -3.190 ? ? ? C6 VL9 13 VL9 C5 C9 C 0 1 Y N N 37.219 18.076 -4.551 ? ? ? C5 VL9 14 VL9 C4 C10 C 0 1 Y N N 36.450 18.057 -3.380 ? ? ? C4 VL9 15 VL9 C8 C11 C 0 1 Y N N 32.677 19.005 -2.826 ? ? ? C8 VL9 16 VL9 C9 C12 C 0 1 Y N N 31.729 18.928 -3.843 ? ? ? C9 VL9 17 VL9 C14 C13 C 0 1 Y N N 34.619 21.128 -6.100 ? ? ? C14 VL9 18 VL9 C13 C14 C 0 1 N N N 34.887 20.736 -4.690 ? ? ? C13 VL9 19 VL9 C12 C15 C 0 1 Y N N 32.320 19.917 -1.747 ? ? ? C12 VL9 20 VL9 C11 C16 C 0 1 Y N N 31.216 20.703 -1.798 ? ? ? C11 VL9 21 VL9 C10 C17 C 0 1 Y N N 30.624 19.819 -3.858 ? ? ? C10 VL9 22 VL9 O O3 O 0 1 N N N 29.125 21.606 -2.963 ? ? ? O VL9 23 VL9 C15 C18 C 0 1 Y N N 34.238 22.743 -8.028 ? ? ? C15 VL9 24 VL9 C20 C19 C 0 1 N N N 38.601 23.367 -13.850 ? ? ? C20 VL9 25 VL9 C19 C20 C 0 1 N N R 38.548 22.093 -12.942 ? ? ? C19 VL9 26 VL9 C18 C21 C 0 1 N N N 36.673 22.986 -11.288 ? ? ? C18 VL9 27 VL9 C17 C22 C 0 1 N N R 36.350 23.480 -9.875 ? ? ? C17 VL9 28 VL9 C16 C23 C 0 1 N N N 34.214 24.094 -8.759 ? ? ? C16 VL9 29 VL9 O4 O4 O 0 1 N N N 35.143 21.556 -3.878 ? ? ? O4 VL9 30 VL9 CL CL1 CL 0 0 N N N 33.449 20.102 -0.428 ? ? ? CL VL9 31 VL9 CL1 CL2 CL 0 0 N N N 32.013 17.786 -5.148 ? ? ? CL1 VL9 32 VL9 O5 O5 O 0 1 N N N 39.972 15.846 -3.765 ? ? ? O5 VL9 33 VL9 C34 C24 C 0 1 N N N 40.366 14.979 -2.712 ? ? ? C34 VL9 34 VL9 O6 O6 O 0 1 N N N 39.107 17.305 -5.811 ? ? ? O6 VL9 35 VL9 C35 C25 C 0 1 N N N 38.958 18.225 -6.898 ? ? ? C35 VL9 36 VL9 C33 C26 C 0 1 Y N N 34.221 20.486 -7.202 ? ? ? C33 VL9 37 VL9 C32 C27 C 0 1 Y N N 33.989 21.438 -8.298 ? ? ? C32 VL9 38 VL9 S S1 S 0 1 Y N N 34.748 22.851 -6.363 ? ? ? S VL9 39 VL9 C26 C28 C 0 1 Y N N 37.388 24.501 -9.649 ? ? ? C26 VL9 40 VL9 C31 C29 C 0 1 Y N N 37.205 25.835 -10.032 ? ? ? C31 VL9 41 VL9 C30 C30 C 0 1 Y N N 38.237 26.770 -9.876 ? ? ? C30 VL9 42 VL9 C29 C31 C 0 1 Y N N 39.478 26.321 -9.400 ? ? ? C29 VL9 43 VL9 C28 C32 C 0 1 Y N N 39.673 24.981 -9.038 ? ? ? C28 VL9 44 VL9 C27 C33 C 0 1 Y N N 38.640 24.068 -9.180 ? ? ? C27 VL9 45 VL9 O3 O7 O 0 1 N N N 35.878 23.091 -12.157 ? ? ? O3 VL9 46 VL9 C23 C34 C 0 1 N N N 40.015 21.548 -12.714 ? ? ? C23 VL9 47 VL9 C24 C35 C 0 1 N N N 40.874 22.588 -11.861 ? ? ? C24 VL9 48 VL9 C25 C36 C 0 1 N N N 40.779 23.991 -12.569 ? ? ? C25 VL9 49 VL9 H1 H1 H 0 1 N N N 40.167 20.641 -14.704 ? ? ? H1 VL9 50 VL9 H2 H2 H 0 1 N N N 41.750 20.936 -13.907 ? ? ? H2 VL9 51 VL9 H4 H4 H 0 1 N N N 41.876 23.038 -14.860 ? ? ? H4 VL9 52 VL9 H5 H5 H 0 1 N N N 40.356 22.693 -15.753 ? ? ? H5 VL9 53 VL9 H6 H6 H 0 1 N N N 38.383 15.876 -1.655 ? ? ? H6 VL9 54 VL9 H7 H7 H 0 1 N N N 36.335 17.172 -1.405 ? ? ? H7 VL9 55 VL9 H8 H8 H 0 1 N N N 33.717 17.253 -3.377 ? ? ? H8 VL9 56 VL9 H9 H9 H 0 1 N N N 33.989 17.806 -1.689 ? ? ? H9 VL9 57 VL9 H10 H10 H 0 1 N N N 34.852 24.695 -10.522 ? ? ? H10 VL9 58 VL9 H12 H12 H 0 1 N N N 35.408 19.693 -2.488 ? ? ? H12 VL9 59 VL9 H13 H13 H 0 1 N N N 36.910 18.701 -5.376 ? ? ? H13 VL9 60 VL9 H14 H14 H 0 1 N N N 31.008 21.364 -0.970 ? ? ? H14 VL9 61 VL9 H15 H15 H 0 1 N N N 29.959 19.805 -4.709 ? ? ? H15 VL9 62 VL9 H16 H16 H 0 1 N N N 29.066 22.159 -2.193 ? ? ? H16 VL9 63 VL9 H17 H17 H 0 1 N N N 37.977 24.163 -13.419 ? ? ? H17 VL9 64 VL9 H18 H18 H 0 1 N N N 38.240 23.125 -14.860 ? ? ? H18 VL9 65 VL9 H19 H19 H 0 1 N N N 37.947 21.316 -13.438 ? ? ? H19 VL9 66 VL9 H20 H20 H 0 1 N N N 36.470 22.651 -9.162 ? ? ? H20 VL9 67 VL9 H21 H21 H 0 1 N N N 34.726 24.866 -8.165 ? ? ? H21 VL9 68 VL9 H22 H22 H 0 1 N N N 33.179 24.410 -8.957 ? ? ? H22 VL9 69 VL9 H23 H23 H 0 1 N N N 41.308 14.479 -2.981 ? ? ? H23 VL9 70 VL9 H24 H24 H 0 1 N N N 40.510 15.563 -1.791 ? ? ? H24 VL9 71 VL9 H25 H25 H 0 1 N N N 39.584 14.223 -2.548 ? ? ? H25 VL9 72 VL9 H26 H26 H 0 1 N N N 39.689 17.986 -7.684 ? ? ? H26 VL9 73 VL9 H27 H27 H 0 1 N N N 37.940 18.147 -7.308 ? ? ? H27 VL9 74 VL9 H28 H28 H 0 1 N N N 39.130 19.250 -6.537 ? ? ? H28 VL9 75 VL9 H29 H29 H 0 1 N N N 34.088 19.417 -7.277 ? ? ? H29 VL9 76 VL9 H30 H30 H 0 1 N N N 33.639 21.115 -9.267 ? ? ? H30 VL9 77 VL9 H31 H31 H 0 1 N N N 36.260 26.146 -10.452 ? ? ? H31 VL9 78 VL9 H32 H32 H 0 1 N N N 38.081 27.811 -10.116 ? ? ? H32 VL9 79 VL9 H33 H33 H 0 1 N N N 40.297 27.020 -9.311 ? ? ? H33 VL9 80 VL9 H34 H34 H 0 1 N N N 40.628 24.660 -8.649 ? ? ? H34 VL9 81 VL9 H35 H35 H 0 1 N N N 38.796 23.029 -8.931 ? ? ? H35 VL9 82 VL9 H36 H36 H 0 1 N N N 39.966 20.593 -12.171 ? ? ? H36 VL9 83 VL9 H37 H37 H 0 1 N N N 40.471 22.657 -10.840 ? ? ? H37 VL9 84 VL9 H38 H38 H 0 1 N N N 41.923 22.261 -11.820 ? ? ? H38 VL9 85 VL9 H39 H39 H 0 1 N N N 41.791 24.392 -12.728 ? ? ? H39 VL9 86 VL9 H40 H40 H 0 1 N N N 40.205 24.684 -11.937 ? ? ? H40 VL9 87 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal VL9 C21 C22 SING N N 1 VL9 C21 N2 SING N N 2 VL9 C22 C23 SING N N 3 VL9 N2 C20 SING N N 4 VL9 N2 C25 SING N N 5 VL9 C20 C19 SING N N 6 VL9 C19 C23 SING N N 7 VL9 C19 O2 SING N N 8 VL9 C23 C24 SING N N 9 VL9 C25 C24 SING N N 10 VL9 O3 C18 DOUB N N 11 VL9 O2 C18 SING N N 12 VL9 C18 C17 SING N N 13 VL9 C31 C30 DOUB Y N 14 VL9 C31 C26 SING Y N 15 VL9 N1 C17 SING N N 16 VL9 N1 C16 SING N N 17 VL9 C30 C29 SING Y N 18 VL9 C17 C26 SING N N 19 VL9 C26 C27 DOUB Y N 20 VL9 C29 C28 DOUB Y N 21 VL9 C27 C28 SING Y N 22 VL9 C16 C15 SING N N 23 VL9 C32 C15 DOUB Y N 24 VL9 C32 C33 SING Y N 25 VL9 C15 S SING Y N 26 VL9 C33 C14 DOUB Y N 27 VL9 C35 O6 SING N N 28 VL9 S C14 SING Y N 29 VL9 C14 C13 SING N N 30 VL9 O6 C SING N N 31 VL9 CL1 C9 SING N N 32 VL9 C13 O1 SING N N 33 VL9 C13 O4 DOUB N N 34 VL9 C C5 DOUB Y N 35 VL9 C C1 SING Y N 36 VL9 C5 C4 SING Y N 37 VL9 O1 C6 SING N N 38 VL9 C10 C9 DOUB Y N 39 VL9 C10 N SING Y N 40 VL9 C9 C8 SING Y N 41 VL9 O5 C1 SING N N 42 VL9 O5 C34 SING N N 43 VL9 C1 C2 DOUB Y N 44 VL9 C4 C6 SING N N 45 VL9 C4 C3 DOUB Y N 46 VL9 C6 C7 SING N N 47 VL9 O N SING N N 48 VL9 N C11 DOUB Y N 49 VL9 C8 C7 SING N N 50 VL9 C8 C12 DOUB Y N 51 VL9 C2 C3 SING Y N 52 VL9 C11 C12 SING Y N 53 VL9 C12 CL SING N N 54 VL9 C22 H1 SING N N 55 VL9 C22 H2 SING N N 56 VL9 C21 H4 SING N N 57 VL9 C21 H5 SING N N 58 VL9 C2 H6 SING N N 59 VL9 C3 H7 SING N N 60 VL9 C7 H8 SING N N 61 VL9 C7 H9 SING N N 62 VL9 N1 H10 SING N N 63 VL9 C6 H12 SING N N 64 VL9 C5 H13 SING N N 65 VL9 C11 H14 SING N N 66 VL9 C10 H15 SING N N 67 VL9 O H16 SING N N 68 VL9 C20 H17 SING N N 69 VL9 C20 H18 SING N N 70 VL9 C19 H19 SING N N 71 VL9 C17 H20 SING N N 72 VL9 C16 H21 SING N N 73 VL9 C16 H22 SING N N 74 VL9 C34 H23 SING N N 75 VL9 C34 H24 SING N N 76 VL9 C34 H25 SING N N 77 VL9 C35 H26 SING N N 78 VL9 C35 H27 SING N N 79 VL9 C35 H28 SING N N 80 VL9 C33 H29 SING N N 81 VL9 C32 H30 SING N N 82 VL9 C31 H31 SING N N 83 VL9 C30 H32 SING N N 84 VL9 C29 H33 SING N N 85 VL9 C28 H34 SING N N 86 VL9 C27 H35 SING N N 87 VL9 C23 H36 SING N N 88 VL9 C24 H37 SING N N 89 VL9 C24 H38 SING N N 90 VL9 C25 H39 SING N N 91 VL9 C25 H40 SING N N 92 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor VL9 InChI InChI 1.06 "InChI=1S/C36H38Cl2N3O7S/c1-45-29-10-8-24(16-31(29)46-2)30(17-26-27(37)19-41(44)20-28(26)38)47-35(42)33-11-9-25(49-33)18-39-34(23-6-4-3-5-7-23)36(43)48-32-21-40-14-12-22(32)13-15-40/h3-11,16,19-20,22,30,32,34,39,44H,12-15,17-18,21H2,1-2H3/t30-,32-,34+/m0/s1" VL9 InChIKey InChI 1.06 IMHXWUGXDHLPGY-LEEDBYTESA-N VL9 SMILES_CANONICAL CACTVS 3.385 "COc1ccc(cc1OC)[C@H](Cc2c(Cl)c[n](O)cc2Cl)OC(=O)c3sc(CN[C@@H](C(=O)O[C@H]4CN5CCC4CC5)c6ccccc6)cc3" VL9 SMILES CACTVS 3.385 "COc1ccc(cc1OC)[CH](Cc2c(Cl)c[n](O)cc2Cl)OC(=O)c3sc(CN[CH](C(=O)O[CH]4CN5CCC4CC5)c6ccccc6)cc3" VL9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "COc1ccc(cc1OC)[C@H](CC2=C(C=[N](C=C2Cl)O)Cl)OC(=O)c3ccc(s3)CN[C@H](c4ccccc4)C(=O)O[C@H]5CN6CCC5CC6" VL9 SMILES "OpenEye OEToolkits" 2.0.7 "COc1ccc(cc1OC)C(CC2=C(C=[N](C=C2Cl)O)Cl)OC(=O)c3ccc(s3)CNC(c4ccccc4)C(=O)OC5CN6CCC5CC6" # _pdbx_chem_comp_identifier.comp_id VL9 _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "[(1~{S})-2-[3,5-bis(chloranyl)-1-oxidanyl-pyridin-4-yl]-1-(3,4-dimethoxyphenyl)ethyl] 5-[[[(1~{R})-2-[[(3~{R})-1-azabicyclo[2.2.2]octan-3-yl]oxy]-2-oxidanylidene-1-phenyl-ethyl]amino]methyl]thiophene-2-carboxylate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VL9 "Create component" 2023-03-10 PDBE VL9 "Initial release" 2023-04-26 RCSB #