data_A1DNT # _chem_comp.id A1DNT _chem_comp.name "4-{[(3S)-thiolan-3-yl]oxy}-6,7-dihydro-5H-cyclopenta[d]pyrimidine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C11 H14 N2 O S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2026-07-23 _chem_comp.pdbx_modified_date 2026-07-31 _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 222.307 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1DNT _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 14UJ _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? # 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 A1DNT C1 C1 C 0 1 Y N N N N N -16.441 27.199 -3.318 -1.653 -2.253 -0.259 C1 A1DNT 1 A1DNT N1 N1 N 0 1 Y N N N N N -17.751 27.139 -3.076 -2.853 -1.734 -0.102 N1 A1DNT 2 A1DNT C2 C2 C 0 1 Y N N N N N -18.134 27.263 -1.794 -3.022 -0.422 -0.001 C2 A1DNT 3 A1DNT C3 C3 C 0 1 Y N N N N N -17.240 27.436 -0.799 -1.916 0.402 -0.064 C3 A1DNT 4 A1DNT C4 C4 C 0 1 Y N N N N N -15.883 27.493 -1.121 -0.660 -0.179 -0.230 C4 A1DNT 5 A1DNT O1 O1 O 0 1 N N N N N N -14.959 27.695 -0.171 0.452 0.591 -0.296 O1 A1DNT 6 A1DNT C5 C5 C 0 1 N N S N N N -13.541 27.634 -0.528 1.700 -0.083 -0.468 C5 A1DNT 7 A1DNT C6 C6 C 0 1 N N N N N N -13.130 28.749 -1.472 2.651 0.827 -1.235 C6 A1DNT 8 A1DNT C7 C7 C 0 1 N N N N N N -13.307 30.021 -0.738 3.938 1.139 -0.445 C7 A1DNT 9 A1DNT S1 S1 S 0 1 N N N N N N -12.889 29.686 0.946 4.065 -0.297 0.698 S1 A1DNT 10 A1DNT C8 C8 C 0 1 N N N N N N -12.731 27.935 0.683 2.248 -0.479 0.918 C8 A1DNT 11 A1DNT N2 N2 N 0 1 Y N N N N N -15.486 27.377 -2.387 -0.572 -1.502 -0.323 N2 A1DNT 12 A1DNT C9 C9 C 0 1 N N N N N N -17.926 27.551 0.539 -2.341 1.845 0.072 C9 A1DNT 13 A1DNT C10 C10 C 0 1 N N N N N N -19.417 27.616 0.179 -3.769 1.791 0.656 C10 A1DNT 14 A1DNT C11 C11 C 0 1 N N N N N N -19.555 27.237 -1.299 -4.270 0.410 0.181 C11 A1DNT 15 A1DNT H1 H1 H 0 1 N N N N N N -16.121 27.096 -4.344 -1.550 -3.326 -0.333 H1 A1DNT 16 A1DNT H2 H2 H 0 1 N N N N N N -13.274 26.653 -0.948 1.533 -0.989 -1.051 H2 A1DNT 17 A1DNT H3 H3 H 0 1 N N N N N N -12.078 28.626 -1.767 2.921 0.343 -2.174 H3 A1DNT 18 A1DNT H4 H4 H 0 1 N N N N N N -13.766 28.739 -2.369 2.139 1.763 -1.459 H4 A1DNT 19 A1DNT H5 H5 H 0 1 N N N N N N -12.641 30.794 -1.149 4.800 1.180 -1.111 H5 A1DNT 20 A1DNT H6 H6 H 0 1 N N N N N N -14.351 30.360 -0.811 3.834 2.069 0.113 H6 A1DNT 21 A1DNT H7 H7 H 0 1 N N N N N N -11.678 27.666 0.516 1.881 0.200 1.688 H7 A1DNT 22 A1DNT H8 H8 H 0 1 N N N N N N -13.118 27.381 1.551 1.989 -1.511 1.156 H8 A1DNT 23 A1DNT H10 H9 H 0 1 N N N N N N -17.712 26.673 1.166 -1.673 2.373 0.753 H10 A1DNT 24 A1DNT H9 H10 H 0 1 N N N N N N -17.609 28.464 1.065 -2.349 2.330 -0.904 H9 A1DNT 25 A1DNT H11 H11 H 0 1 N N N N N N -19.984 26.909 0.802 -3.745 1.841 1.745 H11 A1DNT 26 A1DNT H12 H12 H 0 1 N N N N N N -19.798 28.635 0.342 -4.386 2.590 0.245 H12 A1DNT 27 A1DNT H13 H13 H 0 1 N N N N N N -19.993 26.234 -1.410 -4.802 0.507 -0.766 H13 A1DNT 28 A1DNT H14 H14 H 0 1 N N N N N N -20.174 27.969 -1.838 -4.917 -0.038 0.935 H14 A1DNT 29 # 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 A1DNT C1 N1 DOUB Y N 1 A1DNT N1 C2 SING Y N 2 A1DNT C2 C3 DOUB Y N 3 A1DNT C3 C4 SING Y N 4 A1DNT C4 O1 SING N N 5 A1DNT O1 C5 SING N N 6 A1DNT C5 C6 SING N N 7 A1DNT C6 C7 SING N N 8 A1DNT C7 S1 SING N N 9 A1DNT S1 C8 SING N N 10 A1DNT C4 N2 DOUB Y N 11 A1DNT C3 C9 SING N N 12 A1DNT C9 C10 SING N N 13 A1DNT C10 C11 SING N N 14 A1DNT C1 N2 SING Y N 15 A1DNT C2 C11 SING N N 16 A1DNT C5 C8 SING N N 17 A1DNT C1 H1 SING N N 18 A1DNT C5 H2 SING N N 19 A1DNT C6 H3 SING N N 20 A1DNT C6 H4 SING N N 21 A1DNT C7 H5 SING N N 22 A1DNT C7 H6 SING N N 23 A1DNT C8 H7 SING N N 24 A1DNT C8 H8 SING N N 25 A1DNT C9 H10 SING N N 26 A1DNT C9 H9 SING N N 27 A1DNT C10 H11 SING N N 28 A1DNT C10 H12 SING N N 29 A1DNT C11 H13 SING N N 30 A1DNT C11 H14 SING N N 31 # 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 A1DNT SMILES ACDLabs 14.52 "c1nc(OC2CCSC2)c2CCCc2n1" A1DNT InChI InChI 1.06 "InChI=1S/C11H14N2OS/c1-2-9-10(3-1)12-7-13-11(9)14-8-4-5-15-6-8/h7-8H,1-6H2/t8-/m0/s1" A1DNT InChIKey InChI 1.06 FNOFNORQXKTCFO-QMMMGPOBSA-N A1DNT SMILES_CANONICAL CACTVS 3.385 "C1Cc2ncnc(O[C@H]3CCSC3)c2C1" A1DNT SMILES CACTVS 3.385 "C1Cc2ncnc(O[CH]3CCSC3)c2C1" A1DNT SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "c1nc2c(c(n1)O[C@H]3CCSC3)CCC2" A1DNT SMILES "OpenEye OEToolkits" 3.1.0.0 "c1nc2c(c(n1)OC3CCSC3)CCC2" # 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 A1DNT "SYSTEMATIC NAME" ACDLabs 14.52 "4-{[(3S)-thiolan-3-yl]oxy}-6,7-dihydro-5H-cyclopenta[d]pyrimidine" A1DNT "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "4-[(3~{S})-thiolan-3-yl]oxy-6,7-dihydro-5~{H}-cyclopenta[d]pyrimidine" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1DNT "Create component" 2026-07-23 RCSB A1DNT "Initial release" 2026-08-05 RCSB #