data_HPD
#

_chem_comp.id                                   HPD
_chem_comp.name                                 "1-HYDROXY-PENTANE-3,4-DIOL-5-PHOSPHATE"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C5 H13 O7 P"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "OPEN FORM OF 2'-DEOXY-RIBOFURANOSE-5'-PHOSPHATE"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2001-06-20
_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                       216.126
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    HPD
_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       1JCL
_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
HPD  P       P     P  0  1  N  N  N  29.504  -3.470  19.268   0.062  -0.056  -2.927  P       HPD   1  
HPD  "O5'"   O5*   O  0  1  N  N  N  28.565  -2.165  19.123  -0.617   0.499  -1.578  "O5'"   HPD   2  
HPD  O1P     O1P   O  0  1  N  N  N  30.800  -3.234  18.567  -0.053  -1.531  -2.966  O1P     HPD   3  
HPD  O2P     O2P   O  0  1  N  N  N  28.694  -4.576  18.586  -0.687   0.574  -4.205  O2P     HPD   4  
HPD  O3P     O3P   O  0  1  N  N  N  29.727  -3.686  20.755   1.616   0.361  -2.957  O3P     HPD   5  
HPD  "C5'"   C5*   C  0  1  N  N  N  29.114  -0.880  19.469   0.087  -0.092  -0.486  "C5'"   HPD   6  
HPD  "O4'"   O4*   O  0  1  N  N  N  27.351  -0.339  20.975  -1.889   0.024   0.898  "O4'"   HPD   7  
HPD  "O3'"   O3*   O  0  1  N  N  N  28.922   1.940  18.609   1.621   0.135   1.938  "O3'"   HPD   8  
HPD  "C1'"   C1*   C  0  1  N  N  N  27.228   3.956  20.078   0.399  -0.382   4.492  "C1'"   HPD   9  
HPD  "O1'"   O1*   O  0  1  N  N  N  28.261   4.280  20.947  -0.160   0.075   5.725  "O1'"   HPD  10  
HPD  "C3'"   C3*   C  0  1  N  N  S  28.285   1.594  19.820   0.243  -0.237   2.003  "C3'"   HPD  11  
HPD  "C4'"   C4*   C  0  1  N  N  R  27.945   0.079  19.765  -0.511   0.397   0.833  "C4'"   HPD  12  
HPD  "C2'"   C2*   C  0  1  N  N  N  27.005   2.450  19.973  -0.356   0.252   3.323  "C2'"   HPD  13  
HPD  HOP2    2HOP  H  0  0  N  N  N  29.246  -5.344  18.671  -0.250   0.216  -4.990  HOP2    HPD  14  
HPD  HOP3    3HOP  H  0  0  N  N  N  30.279  -4.454  20.840   1.647   1.327  -2.930  HOP3    HPD  15  
HPD  "H5'1"  1H5*  H  0  0  N  N  N  29.846  -0.937  20.307   1.138   0.191  -0.535  "H5'1"  HPD  16  
HPD  "H5'2"  2H5*  H  0  0  N  N  N  29.807  -0.485  18.690   0.001  -1.177  -0.543  "H5'2"  HPD  17  
HPD  "HO'4"  4HO*  H  0  0  N  N  N  26.630   0.252  21.157  -1.921  -0.940   0.844  "HO'4"  HPD  18  
HPD  "HO'3"  3HO*  H  0  0  N  N  N  29.129   2.866  18.642   1.653   1.100   1.993  "HO'3"  HPD  19  
HPD  "H1'1"  1H1*  H  0  0  N  N  N  26.286   4.482  20.359   1.450  -0.098   4.443  "H1'1"  HPD  20  
HPD  "H1'2"  2H1*  H  0  0  N  N  N  27.392   4.408  19.072   0.313  -1.467   4.435  "H1'2"  HPD  21  
HPD  "HO'1"  1HO*  H  0  0  N  N  N  28.399   5.217  21.012   0.342  -0.347   6.434  "HO'1"  HPD  22  
HPD  "H3'"   H3*   H  0  1  N  N  N  28.942   1.789  20.698   0.157  -1.322   1.945  "H3'"   HPD  23  
HPD  "H4'"   H4*   H  0  1  N  N  N  27.252   0.008  18.893  -0.425   1.482   0.891  "H4'"   HPD  24  
HPD  "H2'1"  1H2*  H  0  0  N  N  N  26.408   2.091  20.844  -1.407  -0.031   3.372  "H2'1"  HPD  25  
HPD  "H2'2"  2H2*  H  0  0  N  N  N  26.295   2.226  19.142  -0.269   1.337   3.380  "H2'2"  HPD  26  
#   #
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
HPD  P      "O5'"   SING  N  N   1  
HPD  P      O1P     DOUB  N  N   2  
HPD  P      O2P     SING  N  N   3  
HPD  P      O3P     SING  N  N   4  
HPD  "O5'"  "C5'"   SING  N  N   5  
HPD  O2P    HOP2    SING  N  N   6  
HPD  O3P    HOP3    SING  N  N   7  
HPD  "C5'"  "C4'"   SING  N  N   8  
HPD  "C5'"  "H5'1"  SING  N  N   9  
HPD  "C5'"  "H5'2"  SING  N  N  10  
HPD  "O4'"  "C4'"   SING  N  N  11  
HPD  "O4'"  "HO'4"  SING  N  N  12  
HPD  "O3'"  "C3'"   SING  N  N  13  
HPD  "O3'"  "HO'3"  SING  N  N  14  
HPD  "C1'"  "O1'"   SING  N  N  15  
HPD  "C1'"  "C2'"   SING  N  N  16  
HPD  "C1'"  "H1'1"  SING  N  N  17  
HPD  "C1'"  "H1'2"  SING  N  N  18  
HPD  "O1'"  "HO'1"  SING  N  N  19  
HPD  "C3'"  "C4'"   SING  N  N  20  
HPD  "C3'"  "C2'"   SING  N  N  21  
HPD  "C3'"  "H3'"   SING  N  N  22  
HPD  "C4'"  "H4'"   SING  N  N  23  
HPD  "C2'"  "H2'1"  SING  N  N  24  
HPD  "C2'"  "H2'2"  SING  N  N  25  
#   #
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
HPD  SMILES            ACDLabs               10.04  "O=P(O)(O)OCC(O)C(O)CCO"  
HPD  SMILES_CANONICAL  CACTVS                3.341  "OCC[C@H](O)[C@H](O)CO[P](O)(O)=O"  
HPD  SMILES            CACTVS                3.341  "OCC[CH](O)[CH](O)CO[P](O)(O)=O"  
HPD  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "C(CO)[C@@H]([C@@H](COP(=O)(O)O)O)O"  
HPD  SMILES            "OpenEye OEToolkits"  1.5.0  "C(CO)C(C(COP(=O)(O)O)O)O"  
HPD  InChI             InChI                 1.03   "InChI=1S/C5H13O7P/c6-2-1-4(7)5(8)3-12-13(9,10)11/h4-8H,1-3H2,(H2,9,10,11)/t4-,5+/m0/s1"  
HPD  InChIKey          InChI                 1.03   YCHBTVQJICBXEI-CRCLSJGQSA-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
HPD  "SYSTEMATIC NAME"  ACDLabs               10.04  2-deoxy-5-O-phosphono-D-erythro-pentitol  
HPD  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "[(2R,3S)-2,3,5-trihydroxypentyl] dihydrogen phosphate"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
HPD  "Create component"   2001-06-20  RCSB  
HPD  "Modify descriptor"  2011-06-04  RCSB  
HPD  "Modify synonyms"    2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     HPD
_pdbx_chem_comp_synonyms.name        "OPEN FORM OF 2'-DEOXY-RIBOFURANOSE-5'-PHOSPHATE"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
