data_HF4
#

_chem_comp.id                                   HF4
_chem_comp.name                                 "4-amino-1-{5-O-[(S)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-arabinofuranosyl}pyrimidin-2(1H)-one"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C9 H16 N3 O14 P3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        Cytarabine-TRIPHOSPHATE
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2018-06-27
_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                       483.156
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    HF4
_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       6DW3
_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
HF4  C6     C1   C  0  1  N  N  N  25.488   5.822  133.126  -5.186   1.795   1.364  C6     HF4   1  
HF4  N4     N1   N  0  1  N  N  N  23.561   3.161  135.075  -5.627   4.545  -0.977  N4     HF4   2  
HF4  C5     C2   C  0  1  N  N  N  24.349   5.147  133.692  -5.588   2.990   0.870  C5     HF4   3  
HF4  C2     C3   C  0  1  N  N  N  27.010   4.143  134.097  -4.127   1.322  -0.679  C2     HF4   4  
HF4  O3G    O1   O  0  1  N  N  N  24.033   9.012  127.139   6.680   1.431  -0.197  O3G    HF4   5  
HF4  PG     P1   P  0  1  N  N  N  23.512   9.946  128.127   5.497   1.888   0.565  PG     HF4   6  
HF4  O1G    O2   O  0  1  N  N  N  22.156   9.436  128.470   5.953   2.353   2.037  O1G    HF4   7  
HF4  O2G    O3   O  0  1  N  N  N  23.405  11.320  127.454   4.811   3.127  -0.201  O2G    HF4   8  
HF4  O3B    O4   O  0  1  N  N  N  24.411  10.088  129.567   4.438   0.681   0.687  O3B    HF4   9  
HF4  PB     P2   P  0  1  N  N  N  24.435  11.519  130.410   3.926  -0.464  -0.323  PB     HF4  10  
HF4  O1B    O5   O  0  1  N  N  N  23.562  11.610  131.603   5.004  -1.658  -0.371  O1B    HF4  11  
HF4  O2B    O6   O  0  1  N  N  N  24.265  12.667  129.470   3.765   0.110  -1.678  O2B    HF4  12  
HF4  O3A    O7   O  0  1  N  N  N  25.948  11.719  130.848   2.512  -1.038   0.189  O3A    HF4  13  
HF4  PA     P3   P  0  1  N  N  N  26.586  10.797  132.038   1.356  -1.932  -0.488  PA     HF4  14  
HF4  O1A    O8   O  0  1  N  N  N  26.113  11.224  133.343   1.789  -3.482  -0.455  O1A    HF4  15  
HF4  O2A    O9   O  0  1  N  N  N  28.091  11.062  131.904   1.160  -1.504  -1.891  O2A    HF4  16  
HF4  "O5'"  O10  O  0  1  N  N  N  26.264   9.173  131.782  -0.018  -1.740   0.329  "O5'"  HF4  17  
HF4  "C5'"  C4   C  0  1  N  N  N  27.045   8.378  130.877  -1.256  -2.321  -0.085  "C5'"  HF4  18  
HF4  "C4'"  C5   C  0  1  N  N  R  28.320   7.825  131.500  -2.355  -1.943   0.911  "C4'"  HF4  19  
HF4  "C3'"  C6   C  0  1  N  N  S  28.902   6.642  130.762  -3.670  -2.651   0.534  "C3'"  HF4  20  
HF4  "O3'"  O11  O  0  1  N  N  N  30.318   6.472  130.961  -4.106  -3.498   1.599  "O3'"  HF4  21  
HF4  "C2'"  C7   C  0  1  N  N  S  28.279   5.509  131.375  -4.675  -1.494   0.316  "C2'"  HF4  22  
HF4  "O2'"  O12  O  0  1  N  N  N  27.097   5.257  130.633  -4.790  -1.173  -1.072  "O2'"  HF4  23  
HF4  "O4'"  O13  O  0  1  N  N  N  27.975   7.394  132.856  -2.600  -0.528   0.854  "O4'"  HF4  24  
HF4  "C1'"  C8   C  0  1  N  N  R  28.004   5.909  132.796  -4.010  -0.334   1.099  "C1'"  HF4  25  
HF4  N1     N2   N  0  1  N  N  N  26.822   5.300  133.319  -4.451   0.961   0.576  N1     HF4  26  
HF4  C4     C9   C  0  1  N  N  N  24.584   3.935  134.442  -5.232   3.338  -0.450  C4     HF4  27  
HF4  N3     N3   N  0  1  N  N  N  25.856   3.456  134.653  -4.515   2.493  -1.180  N3     HF4  28  
HF4  O2     O14  O  0  1  N  N  N  28.296   3.565  134.277  -3.468   0.563  -1.370  O2     HF4  29  
HF4  H1     H1   H  0  1  N  N  N  25.344   6.726  132.553  -5.442   1.508   2.373  H1     HF4  30  
HF4  H2     H2   H  0  1  N  N  N  23.805   2.353  135.611  -6.152   5.160  -0.441  H2     HF4  31  
HF4  H3     H3   H  0  1  N  N  N  22.602   3.428  134.981  -5.381   4.781  -1.885  H3     HF4  32  
HF4  H4     H4   H  0  1  N  N  N  23.350   5.535  133.560  -6.172   3.666   1.476  H4     HF4  33  
HF4  H5     H5   H  0  1  N  N  N  21.977   8.649  127.969   6.591   3.078   2.040  H5     HF4  34  
HF4  H6     H6   H  0  1  N  N  N  23.699  11.256  126.553   4.028   3.479   0.243  H6     HF4  35  
HF4  H7     H7   H  0  1  N  N  N  23.039  12.401  131.554   5.161  -2.082   0.484  H7     HF4  36  
HF4  H8     H8   H  0  1  N  N  N  26.839  11.580  133.843   1.935  -3.831   0.435  H8     HF4  37  
HF4  H9     H9   H  0  1  N  N  N  27.321   9.002  130.015  -1.520  -1.948  -1.075  H9     HF4  38  
HF4  H10    H10  H  0  1  N  N  N  26.429   7.533  130.536  -1.155  -3.406  -0.120  H10    HF4  39  
HF4  H11    H11  H  0  1  N  N  N  29.072   8.626  131.545  -2.054  -2.227   1.919  H11    HF4  40  
HF4  H12    H12  H  0  1  N  N  N  28.655   6.704  129.692  -3.544  -3.228  -0.383  H12    HF4  41  
HF4  H13    H13  H  0  1  N  N  N  30.783   7.202  130.570  -4.959  -3.924   1.439  H13    HF4  42  
HF4  H14    H14  H  0  1  N  N  N  28.949   4.637  131.357  -5.649  -1.740   0.739  H14    HF4  43  
HF4  H15    H15  H  0  1  N  N  N  26.644   4.508  131.003  -5.118  -1.900  -1.618  H15    HF4  44  
HF4  H16    H16  H  0  1  N  N  N  28.859   5.572  133.401  -4.229  -0.414   2.164  H16    HF4  45  
#   #
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
HF4  O3G    PG     DOUB  N  N   1  
HF4  O2G    PG     SING  N  N   2  
HF4  PG     O1G    SING  N  N   3  
HF4  PG     O3B    SING  N  N   4  
HF4  O2B    PB     DOUB  N  N   5  
HF4  O3B    PB     SING  N  N   6  
HF4  PB     O3A    SING  N  N   7  
HF4  PB     O1B    SING  N  N   8  
HF4  "O2'"  "C2'"  SING  N  N   9  
HF4  "C3'"  "O3'"  SING  N  N  10  
HF4  "C3'"  "C2'"  SING  N  N  11  
HF4  "C3'"  "C4'"  SING  N  N  12  
HF4  O3A    PA     SING  N  N  13  
HF4  "C5'"  "C4'"  SING  N  N  14  
HF4  "C5'"  "O5'"  SING  N  N  15  
HF4  "C2'"  "C1'"  SING  N  N  16  
HF4  "C4'"  "O4'"  SING  N  N  17  
HF4  "O5'"  PA     SING  N  N  18  
HF4  O2A    PA     DOUB  N  N  19  
HF4  PA     O1A    SING  N  N  20  
HF4  "C1'"  "O4'"  SING  N  N  21  
HF4  "C1'"  N1     SING  N  N  22  
HF4  C6     N1     SING  N  N  23  
HF4  C6     C5     DOUB  N  N  24  
HF4  N1     C2     SING  N  N  25  
HF4  C5     C4     SING  N  N  26  
HF4  C2     O2     DOUB  N  N  27  
HF4  C2     N3     SING  N  N  28  
HF4  C4     N3     DOUB  N  N  29  
HF4  C4     N4     SING  N  N  30  
HF4  C6     H1     SING  N  N  31  
HF4  N4     H2     SING  N  N  32  
HF4  N4     H3     SING  N  N  33  
HF4  C5     H4     SING  N  N  34  
HF4  O1G    H5     SING  N  N  35  
HF4  O2G    H6     SING  N  N  36  
HF4  O1B    H7     SING  N  N  37  
HF4  O1A    H8     SING  N  N  38  
HF4  "C5'"  H9     SING  N  N  39  
HF4  "C5'"  H10    SING  N  N  40  
HF4  "C4'"  H11    SING  N  N  41  
HF4  "C3'"  H12    SING  N  N  42  
HF4  "O3'"  H13    SING  N  N  43  
HF4  "C2'"  H14    SING  N  N  44  
HF4  "O2'"  H15    SING  N  N  45  
HF4  "C1'"  H16    SING  N  N  46  
#   #
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
HF4  SMILES            ACDLabs               12.01  "C=1N(C(=O)N=C(N)C=1)C2C(C(C(COP(OP(OP(=O)(O)O)(O)=O)(O)=O)O2)O)O"  
HF4  InChI             InChI                 1.03   "InChI=1S/C9H16N3O14P3/c10-5-1-2-12(9(15)11-5)8-7(14)6(13)4(24-8)3-23-28(19,20)26-29(21,22)25-27(16,17)18/h1-2,4,6-8,13-14H,3H2,(H,19,20)(H,21,22)(H2,10,11,15)(H2,16,17,18)/t4-,6-,7+,8-/m1/s1"  
HF4  InChIKey          InChI                 1.03   PCDQPRRSZKQHHS-CCXZUQQUSA-N  
HF4  SMILES_CANONICAL  CACTVS                3.385  "NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@@H]2O"  
HF4  SMILES            CACTVS                3.385  "NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]2O"  
HF4  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "C1=CN(C(=O)N=C1N)[C@H]2[C@H]([C@@H]([C@H](O2)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)O"  
HF4  SMILES            "OpenEye OEToolkits"  2.0.6  "C1=CN(C(=O)N=C1N)C2C(C(C(O2)COP(=O)(O)OP(=O)(O)OP(=O)(O)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
HF4  "SYSTEMATIC NAME"  ACDLabs               12.01  "4-amino-1-{5-O-[(S)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-arabinofuranosyl}pyrimidin-2(1H)-one"  
HF4  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.6  "[[(2~{R},3~{S},4~{S},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen 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
HF4  "Create component"  2018-06-27  RCSB  
HF4  "Modify synonyms"   2018-06-27  RCSB  
HF4  "Initial release"   2018-10-10  RCSB  
HF4  "Modify synonyms"   2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     HF4
_pdbx_chem_comp_synonyms.name        Cytarabine-TRIPHOSPHATE
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
