data_XDL # _chem_comp.id XDL _chem_comp.name "XYLOSE-DERIVED ISOFAGOMINE LACTAM" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C5 H9 N O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "(3S)-3-HYDROXYPIPERIDIN-2-ONE" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2003-02-14 _chem_comp.pdbx_modified_date 2020-06-17 _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 115.130 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XDL _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1OD8 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # 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 XDL N1 N1 N 0 1 N N N 8.932 26.122 0.731 -1.309 -0.156 -0.696 N1 XDL 1 XDL C2 C2 C 0 1 N N N 9.800 26.510 1.668 -0.769 0.105 0.493 C2 XDL 2 XDL C3 C3 C 0 1 N N S 9.995 25.613 2.920 0.696 0.352 0.703 C3 XDL 3 XDL O3 O3 O 0 1 N N N 10.126 26.427 4.079 1.128 -0.328 1.883 O3 XDL 4 XDL C4 C4 C 0 1 N N N 8.909 24.535 3.080 1.488 -0.164 -0.500 C4 XDL 5 XDL C5 C5 C 0 1 N N N 8.714 23.869 1.727 0.829 0.368 -1.778 C5 XDL 6 XDL C6 C6 C 0 1 N N N 8.212 24.861 0.694 -0.544 -0.285 -1.929 C6 XDL 7 XDL O2 O2 O 0 1 N N N 10.502 27.629 1.572 -1.501 0.149 1.459 O2 XDL 8 XDL H1 H1 H 0 1 N N N 8.762 26.758 -0.015 -2.271 -0.269 -0.743 H1 XDL 9 XDL H3 H3 H 0 1 N N N 10.927 25.046 2.778 0.870 1.422 0.819 H3 XDL 10 XDL HA HA H 0 1 N N N 9.227 26.666 4.419 0.609 0.026 2.617 HA XDL 11 XDL H4C1 1H4C H 0 0 N N N 9.229 23.789 3.822 2.517 0.190 -0.442 H4C1 XDL 12 XDL H4C2 2H4C H 0 0 N N N 7.967 24.986 3.426 1.475 -1.254 -0.507 H4C2 XDL 13 XDL H5C1 1H5C H 0 0 N N N 7.980 23.056 1.830 0.714 1.449 -1.706 H5C1 XDL 14 XDL H5C2 2H5C H 0 0 N N N 9.684 23.476 1.389 1.449 0.120 -2.639 H5C2 XDL 15 XDL H6C1 1H6C H 0 0 N N N 7.147 25.058 0.884 -1.086 0.199 -2.742 H6C1 XDL 16 XDL H6C2 2H6C H 0 0 N N N 8.372 24.416 -0.299 -0.417 -1.341 -2.166 H6C2 XDL 17 # # 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 XDL N1 C2 SING N N 1 XDL N1 C6 SING N N 2 XDL N1 H1 SING N N 3 XDL C2 C3 SING N N 4 XDL C2 O2 DOUB N N 5 XDL C3 O3 SING N N 6 XDL C3 C4 SING N N 7 XDL C3 H3 SING N N 8 XDL O3 HA SING N N 9 XDL C4 C5 SING N N 10 XDL C4 H4C1 SING N N 11 XDL C4 H4C2 SING N N 12 XDL C5 C6 SING N N 13 XDL C5 H5C1 SING N N 14 XDL C5 H5C2 SING N N 15 XDL C6 H6C1 SING N N 16 XDL C6 H6C2 SING N N 17 # # 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 XDL SMILES ACDLabs 10.04 O=C1NCCCC1O XDL SMILES_CANONICAL CACTVS 3.341 O[C@H]1CCCNC1=O XDL SMILES CACTVS 3.341 O[CH]1CCCNC1=O XDL SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1C[C@@H](C(=O)NC1)O" XDL SMILES "OpenEye OEToolkits" 1.5.0 "C1CC(C(=O)NC1)O" XDL InChI InChI 1.03 "InChI=1S/C5H9NO2/c7-4-2-1-3-6-5(4)8/h4,7H,1-3H2,(H,6,8)/t4-/m0/s1" XDL InChIKey InChI 1.03 RYKLZUPYJFFNRR-BYPYZUCNSA-N # # 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 XDL "SYSTEMATIC NAME" ACDLabs 10.04 "(3S)-3-hydroxypiperidin-2-one" XDL "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(3S)-3-hydroxypiperidin-2-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 XDL "Create component" 2003-02-14 RCSB XDL "Modify descriptor" 2011-06-04 RCSB XDL "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id XDL _pdbx_chem_comp_synonyms.name "(3S)-3-HYDROXYPIPERIDIN-2-ONE" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##