data_D0N
#

_chem_comp.id                                   D0N
_chem_comp.name                                 
;(2~{R},3~{R},4~{S},5~{S},6~{R})-2-[(2~{R},3~{R},4~{R},5~{S},6~{S})-4-fluoranyl-2-(hydroxymethyl)-5,6-bis(oxidanyl)oxan-
 3-yl]oxy-6-(hydroxymethyl)oxane-3,4,5-triol
;

_chem_comp.type                                 saccharide
_chem_comp.pdbx_type                            ATOMS
_chem_comp.formula                              "C12 H21 F O10"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2017-12-15
_chem_comp.pdbx_modified_date                   2020-07-17
_chem_comp.pdbx_ambiguous_flag                  N
_chem_comp.pdbx_release_status                  OBS
_chem_comp.pdbx_replaced_by                     ?
_chem_comp.pdbx_replaces                        ?
_chem_comp.formula_weight                       344.288
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    D0N
_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       6F9L
_chem_comp.pdbx_subcomponent_list               "TUP GLC"
_chem_comp.pdbx_processing_site                 EBI
#   #
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_comp_id
_chem_comp_atom.pdbx_residue_numbering
_chem_comp_atom.pdbx_component_atom_id
_chem_comp_atom.pdbx_polymer_type
_chem_comp_atom.pdbx_component_id
_chem_comp_atom.pdbx_ordinal
D0N  "F3'"  F1   F  0  1  N  N  N   8.639  13.288  12.499   1.703  -2.078   1.258  TUP  1  F3   polymer  1   1  
D0N  "C3'"  C1   C  0  1  N  N  R   9.805  13.171  11.777   2.157  -1.133   0.331  TUP  1  C3   polymer  1   2  
D0N  "C2'"  C2   C  0  1  N  N  S  10.298  11.731  11.940   3.475  -0.526   0.821  TUP  1  C2   polymer  1   3  
D0N  "O2'"  O1   O  0  1  N  N  N   9.316  10.822  11.414   4.474  -1.547   0.891  TUP  1  O2   polymer  1   4  
D0N  "C1'"  C3   C  0  1  N  N  S  11.657  11.533  11.259   3.923   0.561  -0.160  TUP  1  C1   polymer  1   5  
D0N  "O1'"  O2   O  0  1  N  N  N  11.550  11.692   9.844   4.164  -0.023  -1.441  TUP  1  O1   polymer  1   6  
D0N  "O5'"  O3   O  0  1  N  N  N  12.590  12.474  11.803   2.898   1.551  -0.272  TUP  1  O5   polymer  1   7  
D0N  "C5'"  C4   C  0  1  N  N  R  12.246  13.860  11.623   1.656   1.050  -0.770  TUP  1  C5   polymer  1   8  
D0N  "C6'"  C5   C  0  1  N  N  N  13.379  14.716  12.200   0.649   2.197  -0.874  TUP  1  C6   polymer  1   9  
D0N  "O6'"  O4   O  0  1  N  N  N  13.444  14.639  13.638   1.103   3.144  -1.843  TUP  1  O6   polymer  1  10  
D0N  "C4'"  C6   C  0  1  N  N  R  10.868  14.187  12.231   1.117  -0.017   0.185  TUP  1  C4   polymer  1  11  
D0N  O1     O5   O  0  1  N  N  N  10.502  15.542  11.870  -0.095  -0.561  -0.340  TUP  1  O4   polymer  1  12  
D0N  C1     C7   C  0  1  N  N  R   9.722  16.247  12.859  -0.950  -1.138   0.648  GLC  2  C1   polymer  1  13  
D0N  C2     C8   C  0  1  N  N  R   9.180  17.555  12.285  -2.048  -1.954  -0.039  GLC  2  C2   polymer  1  14  
D0N  C3     C12  C  0  1  N  N  S  10.351  18.501  12.028  -2.902  -1.020  -0.904  GLC  2  C3   polymer  1  15  
D0N  C4     C11  C  0  1  N  N  S  11.085  18.791  13.333  -3.472   0.095  -0.021  GLC  2  C4   polymer  1  16  
D0N  C5     C9   C  0  1  N  N  R  11.531  17.458  13.968  -2.319   0.831   0.666  GLC  2  C5   polymer  1  17  
D0N  C6     C10  C  0  1  N  N  N  12.138  17.628  15.350  -2.883   1.908   1.595  GLC  2  C6   polymer  1  18  
D0N  O2     O6   O  0  1  N  N  N   8.436  17.315  11.080  -1.452  -2.956  -0.865  GLC  2  O2   polymer  1  19  
D0N  O3     O10  O  0  1  N  N  N   9.842  19.673  11.413  -3.974  -1.760  -1.492  GLC  2  O3   polymer  1  20  
D0N  O4     O9   O  0  1  N  N  N  12.241  19.579  13.046  -4.210   1.013  -0.830  GLC  2  O4   polymer  1  21  
D0N  O5     O7   O  0  1  N  N  N  10.453  16.515  14.071  -1.547  -0.099   1.428  GLC  2  O5   polymer  1  22  
D0N  O6     O8   O  0  1  N  N  N  11.136  18.103  16.239  -1.808   2.671   2.148  GLC  2  O6   polymer  1  23  
D0N  H1     H1   H  0  1  N  N  N   9.607  13.344  10.709   2.314  -1.615  -0.634  TUP  1  H3   polymer  1  24  
D0N  H2     H2   H  0  1  N  N  N  10.428  11.538  13.015   3.330  -0.089   1.808  TUP  1  H2   polymer  1  25  
D0N  H3     H3   H  0  1  N  N  N   9.624   9.929  11.516   5.336  -1.233   1.194  TUP  1  HO2  polymer  1  26  
D0N  H4     H4   H  0  1  N  N  N  12.001  10.513  11.484   4.839   1.026   0.206  TUP  1  H1   polymer  1  27  
D0N  H5     H5   H  0  1  N  N  N  12.403  11.565   9.445   4.452   0.610  -2.114  TUP  1  HO1  polymer  1  28  
D0N  H6     H6   H  0  1  N  N  N  12.188  14.071  10.545   1.811   0.612  -1.756  TUP  1  H5   polymer  1  29  
D0N  H7     H7   H  0  1  N  N  N  14.335  14.365  11.783  -0.321   1.803  -1.178  TUP  1  H61  polymer  1  30  
D0N  H8     H8   H  0  1  N  N  N  13.214  15.764  11.909   0.554   2.687   0.095  TUP  1  H62  polymer  1  31  
D0N  H9     H9   H  0  1  N  N  N  14.157  15.182  13.953   0.512   3.900  -1.962  TUP  1  HO6  polymer  1  32  
D0N  H10    H10  H  0  1  N  N  N  10.956  14.118  13.325   0.925   0.430   1.160  TUP  1  H4   polymer  1  33  
D0N  H11    H11  H  0  1  N  N  N   8.853  15.623  13.115  -0.366  -1.790   1.298  GLC  2  H1   polymer  1  34  
D0N  H12    H12  H  0  1  N  N  N   8.522  18.016  13.037  -2.676  -2.428   0.715  GLC  2  H2   polymer  1  35  
D0N  H20    H20  H  0  1  N  N  N  11.052  18.000  11.344  -2.284  -0.584  -1.689  GLC  2  H3   polymer  1  36  
D0N  H18    H18  H  0  1  N  N  N  10.412  19.317  14.026  -4.129  -0.336   0.733  GLC  2  H4   polymer  1  37  
D0N  H14    H14  H  0  1  N  N  N  12.308  17.031  13.316  -1.684   1.298  -0.088  GLC  2  H5   polymer  1  38  
D0N  H15    H15  H  0  1  N  N  N  12.519  16.660  15.707  -3.542   2.567   1.030  GLC  2  H61  polymer  1  39  
D0N  H16    H16  H  0  1  N  N  N  12.964  18.353  15.304  -3.444   1.435   2.401  GLC  2  H62  polymer  1  40  
D0N  H13    H13  H  0  1  N  N  N   8.108  18.139  10.740  -0.893  -3.581  -0.383  GLC  2  HO2  polymer  1  41  
D0N  H21    H21  H  0  1  N  N  N  10.555  20.277  11.243  -3.684  -2.487  -2.059  GLC  2  HO3  polymer  1  42  
D0N  H19    H19  H  0  1  N  N  N  11.974  20.402  12.654  -4.957   0.614  -1.296  GLC  2  HO4  polymer  1  43  
D0N  H17    H17  H  0  1  N  N  N  11.508  18.212  17.106  -2.092   3.373   2.748  GLC  2  HO6  polymer  1  44  
#   #
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
D0N  "F3'"  "C3'"  SING  N  N   1  
D0N  "C3'"  "C2'"  SING  N  N   2  
D0N  "C3'"  "C4'"  SING  N  N   3  
D0N  "C2'"  "C1'"  SING  N  N   4  
D0N  "C2'"  "O2'"  SING  N  N   5  
D0N  "C1'"  "O1'"  SING  N  N   6  
D0N  "C1'"  "O5'"  SING  N  N   7  
D0N  "O5'"  "C5'"  SING  N  N   8  
D0N  "C5'"  "C4'"  SING  N  N   9  
D0N  "C5'"  "C6'"  SING  N  N  10  
D0N  "C6'"  "O6'"  SING  N  N  11  
D0N  "C4'"  O1     SING  N  N  12  
D0N  O1     C1     SING  N  N  13  
D0N  C1     C2     SING  N  N  14  
D0N  C1     O5     SING  N  N  15  
D0N  C2     O2     SING  N  N  16  
D0N  C2     C3     SING  N  N  17  
D0N  O5     C5     SING  N  N  18  
D0N  C5     C4     SING  N  N  19  
D0N  C5     C6     SING  N  N  20  
D0N  C6     O6     SING  N  N  21  
D0N  C4     O4     SING  N  N  22  
D0N  C4     C3     SING  N  N  23  
D0N  C3     O3     SING  N  N  24  
D0N  "C3'"  H1     SING  N  N  25  
D0N  "C2'"  H2     SING  N  N  26  
D0N  "O2'"  H3     SING  N  N  27  
D0N  "C1'"  H4     SING  N  N  28  
D0N  "O1'"  H5     SING  N  N  29  
D0N  "C5'"  H6     SING  N  N  30  
D0N  "C6'"  H7     SING  N  N  31  
D0N  "C6'"  H8     SING  N  N  32  
D0N  "O6'"  H9     SING  N  N  33  
D0N  "C4'"  H10    SING  N  N  34  
D0N  C1     H11    SING  N  N  35  
D0N  C2     H12    SING  N  N  36  
D0N  O2     H13    SING  N  N  37  
D0N  C5     H14    SING  N  N  38  
D0N  C6     H15    SING  N  N  39  
D0N  C6     H16    SING  N  N  40  
D0N  O6     H17    SING  N  N  41  
D0N  C4     H18    SING  N  N  42  
D0N  O4     H19    SING  N  N  43  
D0N  C3     H20    SING  N  N  44  
D0N  O3     H21    SING  N  N  45  
#   #
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
D0N  InChI             InChI                 1.03   "InChI=1S/C12H21FO10/c13-5-7(17)11(20)21-4(2-15)10(5)23-12-9(19)8(18)6(16)3(1-14)22-12/h3-12,14-20H,1-2H2/t3-,4-,5-,6-,7-,8+,9-,10-,11+,12-/m1/s1"  
D0N  InChIKey          InChI                 1.03   VTFMBBVCESUVNC-MZIZBZDASA-N  
D0N  SMILES_CANONICAL  CACTVS                3.385  "OC[C@H]1O[C@H](O[C@H]2[C@H](F)[C@@H](O)[C@@H](O)O[C@@H]2CO)[C@H](O)[C@@H](O)[C@@H]1O"  
D0N  SMILES            CACTVS                3.385  "OC[CH]1O[CH](O[CH]2[CH](F)[CH](O)[CH](O)O[CH]2CO)[CH](O)[CH](O)[CH]1O"  
D0N  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "C([C@@H]1[C@H]([C@@H]([C@H]([C@H](O1)O[C@@H]2[C@H](O[C@@H]([C@@H]([C@H]2F)O)O)CO)O)O)O)O"  
D0N  SMILES            "OpenEye OEToolkits"  2.0.6  "C(C1C(C(C(C(O1)OC2C(OC(C(C2F)O)O)CO)O)O)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          D0N
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  2.0.6
_pdbx_chem_comp_identifier.identifier       "(2~{R},3~{R},4~{S},5~{S},6~{R})-2-[(2~{R},3~{R},4~{R},5~{S},6~{S})-4-fluoranyl-2-(hydroxymethyl)-5,6-bis(oxidanyl)oxan-3-yl]oxy-6-(hydroxymethyl)oxane-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
D0N  "Create component"    2017-12-15  EBI   
D0N  "Initial release"     2019-01-30  RCSB  
D0N  "Other modification"  2020-07-03  RCSB  
D0N  "Obsolete component"  2020-07-17  RCSB  
##
