data_A1KPM # _chem_comp.id A1KPM _chem_comp.name "(8~{R})-8-oxidanyl-2,6-diazaspiro[3.5]nonan-5-one" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C7 H12 N2 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2026-09-07 _chem_comp.pdbx_modified_date 2026-11-06 _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 156.182 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1KPM _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 34CM _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _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 A1KPM C02 C1 C 0 1 N N R N N N 23.402 -5.400 16.050 -1.789 0.439 0.291 C02 A1KPM 1 A1KPM C03 C2 C 0 1 N N N N N N 23.512 -6.906 15.820 -1.942 -1.042 -0.052 C03 A1KPM 2 A1KPM C05 C3 C 0 1 N N N N N N 22.028 -6.577 13.816 0.522 -1.127 -0.022 C05 A1KPM 3 A1KPM C07 C4 C 0 1 N N N N N N 23.441 -4.677 14.699 -0.661 1.036 -0.562 C07 A1KPM 4 A1KPM C08 C5 C 0 1 N N N N N N 22.343 -5.121 13.741 0.648 0.363 -0.153 C08 A1KPM 5 A1KPM C09 C6 C 0 1 N N N N N N 22.484 -4.607 12.274 1.336 1.034 1.044 C09 A1KPM 6 A1KPM C11 C7 C 0 1 N N N N N N 20.991 -4.337 13.784 1.855 0.812 -0.988 C11 A1KPM 7 A1KPM N04 N1 N 0 1 N N N N N N 22.591 -7.378 14.808 -0.667 -1.739 0.046 N04 A1KPM 8 A1KPM N10 N2 N 0 1 N N N N N N 21.103 -4.032 12.310 2.598 0.849 0.292 N10 A1KPM 9 A1KPM O01 O1 O 0 1 N N N N N N 22.157 -5.167 16.645 -3.012 1.124 0.013 O01 A1KPM 10 A1KPM O06 O2 O 0 1 N N N N N N 21.259 -7.105 13.004 1.531 -1.798 0.025 O06 A1KPM 11 A1KPM H021 H1 H 0 0 N N N N N N 24.232 -5.055 16.684 -1.543 0.546 1.347 H021 A1KPM 12 A1KPM H031 H2 H 0 0 N N N N N N 23.294 -7.425 16.765 -2.653 -1.497 0.638 H031 A1KPM 13 A1KPM H032 H3 H 0 0 N N N N N N 24.538 -7.141 15.501 -2.322 -1.136 -1.070 H032 A1KPM 14 A1KPM H071 H4 H 0 0 N N N N N N 23.331 -3.597 14.878 -0.858 0.848 -1.617 H071 A1KPM 15 A1KPM H072 H5 H 0 0 N N N N N N 24.415 -4.873 14.227 -0.594 2.110 -0.386 H072 A1KPM 16 A1KPM H091 H6 H 0 0 N N N N N N 23.275 -3.855 12.141 1.056 2.078 1.183 H091 A1KPM 17 A1KPM H092 H7 H 0 0 N N N N N N 22.612 -5.409 11.532 1.282 0.453 1.965 H092 A1KPM 18 A1KPM H111 H8 H 0 0 N N N N N N 21.012 -3.445 14.428 2.214 0.055 -1.684 H111 A1KPM 19 A1KPM H112 H9 H 0 0 N N N N N N 20.122 -4.959 14.047 1.728 1.791 -1.451 H112 A1KPM 20 A1KPM H041 H10 H 0 0 N N N N N N 22.341 -8.346 14.822 -0.679 -2.701 0.167 H041 A1KPM 21 A1KPM H101 H11 H 0 0 N N N N N N 21.064 -3.056 12.094 3.178 1.672 0.350 H101 A1KPM 22 A1KPM H011 H13 H 0 0 N N N N N N 22.051 -4.237 16.804 -3.770 0.795 0.515 H011 A1KPM 23 # 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 A1KPM C02 O01 SING N N 1 A1KPM N04 C03 SING N N 2 A1KPM C05 N04 SING N N 3 A1KPM O06 C05 DOUB N N 4 A1KPM C03 C02 SING N N 5 A1KPM C07 C02 SING N N 6 A1KPM C08 C07 SING N N 7 A1KPM C09 C08 SING N N 8 A1KPM N10 C09 SING N N 9 A1KPM C11 N10 SING N N 10 A1KPM C05 C08 SING N N 11 A1KPM C08 C11 SING N N 12 A1KPM C02 H021 SING N N 13 A1KPM C03 H031 SING N N 14 A1KPM C03 H032 SING N N 15 A1KPM C07 H071 SING N N 16 A1KPM C07 H072 SING N N 17 A1KPM C09 H091 SING N N 18 A1KPM C09 H092 SING N N 19 A1KPM C11 H111 SING N N 20 A1KPM C11 H112 SING N N 21 A1KPM N04 H041 SING N N 22 A1KPM N10 H101 SING N N 23 A1KPM O01 H011 SING N N 24 # 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 A1KPM InChI InChI 1.06 "InChI=1S/C7H12N2O2/c10-5-1-7(3-8-4-7)6(11)9-2-5/h5,8,10H,1-4H2,(H,9,11)/t5-/m1/s1" A1KPM InChIKey InChI 1.06 IIRVBVCKAVWMPW-RXMQYKEDSA-N A1KPM SMILES_CANONICAL CACTVS 3.385 "O[C@H]1CNC(=O)C2(CNC2)C1" A1KPM SMILES CACTVS 3.385 "O[CH]1CNC(=O)C2(CNC2)C1" A1KPM SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1[C@H](CNC(=O)C12CNC2)O" A1KPM SMILES "OpenEye OEToolkits" 2.0.7 "C1C(CNC(=O)C12CNC2)O" # _pdbx_chem_comp_identifier.comp_id A1KPM _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 "(8~{R})-8-oxidanyl-2,6-diazaspiro[3.5]nonan-5-one" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1KPM "Create component" 2026-09-07 PDBE A1KPM "Initial release" 2026-11-11 RCSB #