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        ?
##