data_XDN # _chem_comp.id XDN _chem_comp.name "PIPERIDINE-3,4,5-TRIOL" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C5 H11 N O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "XYLOSE-DERIVED 1-DEOXY-NOJIRIMYCIN" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2000-08-16 _chem_comp.pdbx_modified_date 2021-03-01 _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 133.146 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XDN _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 1FH7 _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 XDN C1 C1 C 0 1 N N N 20.560 68.080 35.798 -1.257 1.363 0.211 C1 XDN 1 XDN C2 C2 C 0 1 N N S 20.213 68.811 37.019 -1.252 -0.089 -0.273 C2 XDN 2 XDN O2 O2 O 0 1 N N N 21.155 69.740 37.421 -2.401 -0.767 0.238 O2 XDN 3 XDN C3 C3 C 0 1 N N S 19.732 67.920 38.195 0.017 -0.785 0.230 C3 XDN 4 XDN O3 O3 O 0 1 N N N 19.113 68.708 39.201 0.055 -2.124 -0.267 O3 XDN 5 XDN C4 C4 C 0 1 N N R 18.704 66.900 37.670 1.243 -0.018 -0.273 C4 XDN 6 XDN O4 O4 O 0 1 N N N 18.429 65.956 38.696 2.430 -0.628 0.238 O4 XDN 7 XDN C5 C5 C 0 1 N N N 19.303 66.160 36.441 1.165 1.432 0.211 C5 XDN 8 XDN N5 N5 N 0 1 N N N 19.674 67.109 35.404 -0.065 2.054 -0.296 N5 XDN 9 XDN H11 H11 H 0 1 N N N 20.643 68.811 34.980 -2.152 1.865 -0.157 H11 XDN 10 XDN H12 H12 H 0 1 N N N 21.536 67.599 35.960 -1.252 1.382 1.301 H12 XDN 11 XDN H2 H2 H 0 1 N N N 19.320 69.394 36.750 -1.271 -0.109 -1.362 H2 XDN 12 XDN HO2 HO2 H 0 1 N N N 20.858 70.169 38.215 -3.242 -0.377 -0.038 HO2 XDN 13 XDN H3 H3 H 0 1 N N N 20.596 67.377 38.605 0.017 -0.800 1.319 H3 XDN 14 XDN HO3 HO3 H 0 1 N N N 18.826 68.147 39.911 0.834 -2.625 0.013 HO3 XDN 15 XDN H4 H4 H 0 1 N N N 17.789 67.429 37.363 1.264 -0.037 -1.362 H4 XDN 16 XDN HO4 HO4 H 0 1 N N N 17.795 65.322 38.382 3.247 -0.193 -0.041 HO4 XDN 17 XDN H51 H51 H 0 1 N N N 20.196 65.601 36.756 1.159 1.452 1.301 H51 XDN 18 XDN H52 H52 H 0 1 N N N 18.555 65.460 36.040 2.030 1.985 -0.157 H52 XDN 19 XDN HN5 HN5 H 0 1 N N N 18.841 67.560 35.084 -0.065 2.083 -1.305 HN5 XDN 20 # # 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 XDN C1 C2 SING N N 1 XDN C1 N5 SING N N 2 XDN C1 H11 SING N N 3 XDN C1 H12 SING N N 4 XDN C2 O2 SING N N 5 XDN C2 C3 SING N N 6 XDN C2 H2 SING N N 7 XDN O2 HO2 SING N N 8 XDN C3 O3 SING N N 9 XDN C3 C4 SING N N 10 XDN C3 H3 SING N N 11 XDN O3 HO3 SING N N 12 XDN C4 O4 SING N N 13 XDN C4 C5 SING N N 14 XDN C4 H4 SING N N 15 XDN O4 HO4 SING N N 16 XDN C5 N5 SING N N 17 XDN C5 H51 SING N N 18 XDN C5 H52 SING N N 19 XDN N5 HN5 SING N N 20 # # 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 XDN SMILES ACDLabs 12.01 "OC1CNCC(O)C1O" XDN InChI InChI 1.03 "InChI=1S/C5H11NO3/c7-3-1-6-2-4(8)5(3)9/h3-9H,1-2H2/t3-,4+,5+" XDN InChIKey InChI 1.03 RMCNETIHECSPMZ-SCDXWVJYSA-N XDN SMILES_CANONICAL CACTVS 3.370 "O[C@H]1CNC[C@@H](O)[C@@H]1O" XDN SMILES CACTVS 3.370 "O[CH]1CNC[CH](O)[CH]1O" XDN SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C1[C@H](C([C@H](CN1)O)O)O" XDN SMILES "OpenEye OEToolkits" 1.7.6 "C1C(C(C(CN1)O)O)O" # # 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 XDN "SYSTEMATIC NAME" ACDLabs 12.01 "(3R,4r,5S)-piperidine-3,4,5-triol" XDN "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "(3R,5S)-piperidine-3,4,5-triol" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XDN "Create component" 2000-08-16 RCSB XDN "Modify descriptor" 2011-06-04 RCSB XDN "Modify linking type" 2012-12-21 RCSB XDN "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id XDN _pdbx_chem_comp_synonyms.name "XYLOSE-DERIVED 1-DEOXY-NOJIRIMYCIN" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##