data_A1D4U # _chem_comp.id A1D4U _chem_comp.name "(1~{R},5~{S})-3-oxidanyl-7-(9~{H}-pyrimido[4,5-b]indol-4-yl)-3$l^{3}-thia-7-azabicyclo[3.3.1]nonane" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C17 H18 N4 O S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2026-09-03 _chem_comp.pdbx_modified_date 2026-10-30 _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 326.416 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1D4U _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 N _chem_comp.pdbx_model_coordinates_db_code 15DU _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? _chem_comp.pdbx_comp_type ? # 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.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 A1D4U C13 C1 C 0 1 Y N N N N N -48.793 -28.852 3.309 1.132 1.805 -0.196 C13 A1D4U 1 A1D4U C17 C2 C 0 1 N N N N N N -42.697 -31.137 1.310 -3.561 0.051 1.175 C17 A1D4U 2 A1D4U C16 C3 C 0 1 N N N N N N -46.213 -29.814 1.663 -1.062 -0.182 -1.474 C16 A1D4U 3 A1D4U C15 C4 C 0 1 Y N N N N N -44.187 -29.596 5.949 1.415 -3.473 0.155 C15 A1D4U 4 A1D4U C11 C5 C 0 1 Y N N N N N -50.793 -28.754 4.708 3.184 3.043 -0.153 C11 A1D4U 5 A1D4U C12 C6 C 0 1 Y N N N N N -50.187 -28.702 3.447 1.801 3.010 -0.233 C12 A1D4U 6 A1D4U C1 C7 C 0 1 N N N N N N -45.364 -32.187 0.942 -2.364 1.834 -0.710 C1 A1D4U 7 A1D4U C10 C8 C 0 1 Y N N N N N -49.992 -28.945 5.845 3.907 1.875 -0.035 C10 A1D4U 8 A1D4U C14 C9 C 0 1 Y N N N N N -47.954 -29.048 4.427 1.849 0.617 -0.078 C14 A1D4U 9 A1D4U C2 C10 C 0 1 N N R N N N -45.667 -30.726 0.540 -2.362 0.601 -1.607 C2 A1D4U 10 A1D4U C3 C11 C 0 1 N N N N N N -44.485 -30.064 -0.166 -3.563 -0.287 -1.310 C3 A1D4U 11 A1D4U C4 C12 C 0 1 N N S N N N -43.371 -29.822 0.852 -3.408 -0.962 0.047 C4 A1D4U 12 A1D4U C5 C13 C 0 1 N N N N N N -43.856 -28.871 1.970 -2.080 -1.701 0.136 C5 A1D4U 13 A1D4U C6 C14 C 0 1 Y N N N N N -45.293 -29.307 3.925 0.249 -1.493 -0.040 C6 A1D4U 14 A1D4U C7 C15 C 0 1 Y N N N N N -46.529 -29.231 4.658 1.466 -0.801 -0.011 C7 A1D4U 15 A1D4U C8 C16 C 0 1 Y N N N N N -46.403 -29.359 6.071 2.657 -1.534 0.107 C8 A1D4U 16 A1D4U C9 C17 C 0 1 Y N N N N N -48.600 -29.081 5.705 3.250 0.650 0.004 C9 A1D4U 17 A1D4U N1 N1 N 0 1 N N N N N N -45.171 -29.216 2.522 -0.954 -0.811 -0.155 N1 A1D4U 18 A1D4U N2 N2 N 0 1 Y N N N N N -47.636 -29.281 6.685 3.710 -0.652 0.113 N2 A1D4U 19 A1D4U N3 N3 N 0 1 Y N N N N N -45.245 -29.551 6.754 2.580 -2.862 0.186 N3 A1D4U 20 A1D4U N4 N4 N 0 1 Y N N N N N -44.149 -29.485 4.626 0.273 -2.821 0.046 N4 A1D4U 21 A1D4U O1 O1 O 0 1 N N N N N N -44.268 -32.036 3.478 -1.056 0.934 1.435 O1 A1D4U 22 A1D4U S1 S1 S 0 1 N N N N N N -43.873 -32.388 2.042 -2.336 1.373 1.037 S1 A1D4U 23 A1D4U H13 H1 H 0 1 N N N N N N -48.355 -28.816 2.322 0.053 1.783 -0.255 H13 A1D4U 24 A1D4U H18 H2 H 0 1 N N N N N N -42.206 -31.594 0.438 -4.569 0.478 1.141 H18 A1D4U 25 A1D4U H17 H3 H 0 1 N N N N N N -41.940 -30.890 2.069 -3.444 -0.461 2.136 H17 A1D4U 26 A1D4U H15 H4 H 0 1 N N N N N N -46.785 -28.998 1.197 -1.024 -0.953 -2.247 H15 A1D4U 27 A1D4U H16 H5 H 0 1 N N N N N N -46.881 -30.413 2.299 -0.216 0.496 -1.619 H16 A1D4U 28 A1D4U H14 H6 H 0 1 N N N N N N -43.234 -29.742 6.435 1.392 -4.551 0.222 H14 A1D4U 29 A1D4U H11 H7 H 0 1 N N N N N N -51.863 -28.648 4.805 3.700 3.991 -0.182 H11 A1D4U 30 A1D4U H12 H8 H 0 1 N N N N N N -50.796 -28.545 2.569 1.245 3.931 -0.324 H12 A1D4U 31 A1D4U H2 H9 H 0 1 N N N N N N -46.240 -32.587 1.473 -1.488 2.449 -0.942 H2 A1D4U 32 A1D4U H1 H10 H 0 1 N N N N N N -45.195 -32.769 0.024 -3.259 2.430 -0.920 H1 A1D4U 33 A1D4U H10 H11 H 0 1 N N N N N N -50.444 -28.987 6.825 4.985 1.911 0.027 H10 A1D4U 34 A1D4U H3 H12 H 0 1 N N N N N N -46.469 -30.785 -0.210 -2.446 0.940 -2.649 H3 A1D4U 35 A1D4U H4 H13 H 0 1 N N N N N N -44.117 -30.723 -0.966 -4.466 0.323 -1.305 H4 A1D4U 36 A1D4U H5 H14 H 0 1 N N N N N N -44.804 -29.104 -0.599 -3.647 -1.048 -2.083 H5 A1D4U 37 A1D4U H6 H15 H 0 1 N N N N N N -42.591 -29.266 0.312 -4.214 -1.704 0.144 H6 A1D4U 38 A1D4U H8 H16 H 0 1 N N N N N N -43.121 -28.896 2.788 -1.962 -2.111 1.143 H8 A1D4U 39 A1D4U H7 H17 H 0 1 N N N N N N -43.911 -27.853 1.558 -2.078 -2.530 -0.577 H7 A1D4U 40 A1D4U H9 H18 H 0 1 N N N N N N -47.807 -29.356 7.668 4.643 -0.906 0.186 H9 A1D4U 41 # 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 A1D4U C3 C2 SING N N 1 A1D4U C3 C4 SING N N 2 A1D4U C2 C1 SING N N 3 A1D4U C2 C16 SING N N 4 A1D4U C4 C17 SING N N 5 A1D4U C4 C5 SING N N 6 A1D4U C1 S1 SING N N 7 A1D4U C17 S1 SING N N 8 A1D4U C16 N1 SING N N 9 A1D4U C5 N1 SING N N 10 A1D4U S1 O1 DOUB N N 11 A1D4U N1 C6 SING N N 12 A1D4U C13 C12 DOUB Y N 13 A1D4U C13 C14 SING Y N 14 A1D4U C12 C11 SING Y N 15 A1D4U C6 N4 DOUB Y N 16 A1D4U C6 C7 SING Y N 17 A1D4U C14 C7 SING Y N 18 A1D4U C14 C9 DOUB Y N 19 A1D4U N4 C15 SING Y N 20 A1D4U C7 C8 DOUB Y N 21 A1D4U C11 C10 DOUB Y N 22 A1D4U C9 C10 SING Y N 23 A1D4U C9 N2 SING Y N 24 A1D4U C15 N3 DOUB Y N 25 A1D4U C8 N2 SING Y N 26 A1D4U C8 N3 SING Y N 27 A1D4U C13 H13 SING N N 28 A1D4U C17 H18 SING N N 29 A1D4U C17 H17 SING N N 30 A1D4U C16 H15 SING N N 31 A1D4U C16 H16 SING N N 32 A1D4U C15 H14 SING N N 33 A1D4U C11 H11 SING N N 34 A1D4U C12 H12 SING N N 35 A1D4U C1 H2 SING N N 36 A1D4U C1 H1 SING N N 37 A1D4U C10 H10 SING N N 38 A1D4U C2 H3 SING N N 39 A1D4U C3 H4 SING N N 40 A1D4U C3 H5 SING N N 41 A1D4U C4 H6 SING N N 42 A1D4U C5 H8 SING N N 43 A1D4U C5 H7 SING N N 44 A1D4U N2 H9 SING N N 45 # 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 A1D4U SMILES ACDLabs 14.52 "O=S1CC2CC(CN(C2)c2ncnc3[NH]c4ccccc4c32)C1" A1D4U InChI InChI 1.06 "InChI=1S/C17H18N4OS/c22-23-8-11-5-12(9-23)7-21(6-11)17-15-13-3-1-2-4-14(13)20-16(15)18-10-19-17/h1-4,10-12H,5-9H2,(H,18,19,20)/t11-,12+,23+" A1D4U InChIKey InChI 1.06 ZYCXOHYLGHHUAB-DZTUZMMOSA-N A1D4U SMILES_CANONICAL CACTVS 3.385 "O=[S]1C[C@@H]2C[C@@H](CN(C2)c3ncnc4[nH]c5ccccc5c34)C1" A1D4U SMILES CACTVS 3.385 "O=[S]1C[CH]2C[CH](CN(C2)c3ncnc4[nH]c5ccccc5c34)C1" A1D4U SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "c1ccc2c(c1)c3c([nH]2)ncnc3N4C[C@H]5C[C@@H](C4)CS(=O)C5" A1D4U SMILES "OpenEye OEToolkits" 3.1.0.0 "c1ccc2c(c1)c3c([nH]2)ncnc3N4CC5CC(C4)CS(=O)C5" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier A1D4U "SYSTEMATIC NAME" ACDLabs 14.52 "(1R,3r,5S)-7-(9H-pyrimido[4,5-b]indol-4-yl)-3lambda~4~-thia-7-azabicyclo[3.3.1]nonan-3-one" A1D4U "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "(1~{R},5~{S})-7-(9~{H}-pyrimido[4,5-b]indol-4-yl)-3$l^{4}-thia-7-azabicyclo[3.3.1]nonane 3-oxide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1D4U "Create component" 2026-09-03 RCSB A1D4U "Initial release" 2026-11-04 RCSB #