data_DKX
#

_chem_comp.id                                   DKX
_chem_comp.name                                 "1-(3-deoxy-3-fluoro-beta-D-glucopyranosyl)pyrimidine-2,4(1H,3H)-dione"
_chem_comp.type                                 D-saccharide
_chem_comp.pdbx_type                            ATOMS
_chem_comp.formula                              "C10 H13 F N2 O6"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        
;1-(3-deoxy-3-fluoro-beta-D-glucosyl)pyrimidine-2,4(1H,3H)-dione;
1-(3-deoxy-3-fluoro-D-glucosyl)pyrimidine-2,4(1H,3H)-dione; 1-(3-deoxy-3-fluoro-glucosyl)pyrimidine-2,4(1H,3H)-dione
;

_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2010-01-11
_chem_comp.pdbx_modified_date                   2020-07-17
_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                       276.218
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    DKX
_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       3L79
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 RCSB
#   #
loop_
_pdbx_chem_comp_synonyms.ordinal
_pdbx_chem_comp_synonyms.comp_id
_pdbx_chem_comp_synonyms.name
_pdbx_chem_comp_synonyms.provenance
_pdbx_chem_comp_synonyms.type
1  DKX  "1-(3-deoxy-3-fluoro-beta-D-glucosyl)pyrimidine-2,4(1H,3H)-dione"  PDB  ?  
2  DKX  "1-(3-deoxy-3-fluoro-D-glucosyl)pyrimidine-2,4(1H,3H)-dione"       PDB  ?  
3  DKX  "1-(3-deoxy-3-fluoro-glucosyl)pyrimidine-2,4(1H,3H)-dione"         PDB  ?  
#   #
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
DKX  C1   C1   C  0  1  N  N  R  33.379  22.865  27.777  -0.090   0.083   0.421  C1   DKX   1  
DKX  N1   N1   N  0  1  N  N  N  34.269  23.577  28.722   1.327  -0.045   0.074  N1   DKX   2  
DKX  C2   C2   C  0  1  N  N  S  33.762  23.057  26.297  -0.654   1.363  -0.202  C2   DKX   3  
DKX  N2   N2   N  0  1  N  N  N  34.467  24.899  30.729   3.567  -0.107   0.753  N2   DKX   4  
DKX  O2   O2   O  0  1  N  N  N  33.846  24.457  25.989   0.024   2.497   0.341  O2   DKX   5  
DKX  C3   C3   C  0  1  N  N  S  32.741  22.352  25.386  -2.150   1.459   0.115  C3   DKX   6  
DKX  F3   F3   F  0  1  N  N  N  33.203  22.339  24.083  -2.689   2.589  -0.511  F3   DKX   7  
DKX  C4   C4   C  0  1  N  N  R  32.451  20.918  25.874  -2.853   0.201  -0.405  C4   DKX   8  
DKX  O4   O4   O  0  1  N  N  N  31.263  20.454  25.238  -4.237   0.247  -0.051  O4   DKX   9  
DKX  C5   C5   C  0  1  N  N  R  32.291  20.821  27.418  -2.204  -1.033   0.226  C5   DKX  10  
DKX  O5   O5   O  0  1  N  N  N  33.395  21.461  28.093  -0.808  -1.046  -0.081  O5   DKX  11  
DKX  C6   C6   C  0  1  N  N  N  32.267  19.373  27.932  -2.861  -2.297  -0.333  C6   DKX  12  
DKX  O6   O6   O  0  1  N  N  N  33.351  18.657  27.319  -2.337  -3.444   0.340  O6   DKX  13  
DKX  C7   C7   C  0  1  N  N  N  35.673  23.618  28.552   1.692  -0.218  -1.234  C7   DKX  14  
DKX  C8   C8   C  0  1  N  N  N  36.473  24.297  29.474   2.998  -0.336  -1.553  C8   DKX  15  
DKX  C9   C9   C  0  1  N  N  N  35.858  24.946  30.555   3.967  -0.278  -0.523  C9   DKX  16  
DKX  O9   O9   O  0  1  N  N  N  36.529  25.565  31.379   5.152  -0.382  -0.787  O9   DKX  17  
DKX  C10  C10  C  0  1  N  N  N  33.666  24.210  29.814   2.258   0.013   1.043  C10  DKX  18  
DKX  O10  O10  O  0  1  N  N  N  32.443  24.169  29.956   1.913   0.171   2.198  O10  DKX  19  
DKX  H1   H1   H  0  1  N  N  N  32.374  23.297  27.897  -0.197   0.129   1.505  H1   DKX  20  
DKX  H2   H2   H  0  1  N  N  N  34.748  22.604  26.119  -0.512   1.336  -1.282  H2   DKX  21  
DKX  HO2  HO2  H  0  1  N  Y  N  34.082  24.567  25.075  -0.283   3.345  -0.010  HO2  DKX  22  
DKX  H3   H3   H  0  1  N  N  N  31.796  22.914  25.426  -2.290   1.537   1.193  H3   DKX  23  
DKX  H4   H4   H  0  1  N  N  N  33.316  20.292  25.608  -2.755   0.150  -1.489  H4   DKX  24  
DKX  HO4  HO4  H  0  1  N  Y  N  31.072  19.570  25.530  -4.710   1.008  -0.413  HO4  DKX  25  
DKX  H5   H5   H  0  1  N  N  N  31.331  21.313  27.633  -2.338  -1.002   1.308  H5   DKX  26  
DKX  H61  H6   H  0  1  N  N  N  32.384  19.363  29.026  -3.938  -2.245  -0.178  H61  DKX  27  
DKX  H62  H6A  H  0  1  N  N  N  31.310  18.899  27.668  -2.650  -2.374  -1.400  H62  DKX  28  
DKX  HO6  HO6  H  0  1  N  Y  N  33.351  17.758  27.626  -2.710  -4.283   0.036  HO6  DKX  29  
DKX  H7   H7   H  0  1  N  N  N  36.128  23.123  27.707   0.938  -0.260  -2.006  H7   DKX  30  
DKX  H8   H8   H  0  1  N  N  N  37.546  24.322  29.357   3.300  -0.473  -2.581  H8   DKX  31  
DKX  HN2  HN2  H  0  1  N  N  N  34.047  25.360  31.511   4.225  -0.067   1.464  HN2  DKX  32  
#   #
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
DKX  C2   C1   SING  N  N   1  
DKX  C1   O5   SING  N  N   2  
DKX  C1   N1   SING  N  N   3  
DKX  C1   H1   SING  N  N   4  
DKX  C7   N1   SING  N  N   5  
DKX  N1   C10  SING  N  N   6  
DKX  C3   C2   SING  N  N   7  
DKX  O2   C2   SING  N  N   8  
DKX  C2   H2   SING  N  N   9  
DKX  C10  N2   SING  N  N  10  
DKX  C9   N2   SING  N  N  11  
DKX  O2   HO2  SING  N  N  12  
DKX  F3   C3   SING  N  N  13  
DKX  C3   C4   SING  N  N  14  
DKX  C3   H3   SING  N  N  15  
DKX  O4   C4   SING  N  N  16  
DKX  C4   C5   SING  N  N  17  
DKX  C4   H4   SING  N  N  18  
DKX  O4   HO4  SING  N  N  19  
DKX  C5   C6   SING  N  N  20  
DKX  C5   O5   SING  N  N  21  
DKX  C5   H5   SING  N  N  22  
DKX  O6   C6   SING  N  N  23  
DKX  C6   H61  SING  N  N  24  
DKX  C6   H62  SING  N  N  25  
DKX  O6   HO6  SING  N  N  26  
DKX  C7   C8   DOUB  N  N  27  
DKX  C7   H7   SING  N  N  28  
DKX  C8   C9   SING  N  N  29  
DKX  C8   H8   SING  N  N  30  
DKX  C9   O9   DOUB  N  N  31  
DKX  C10  O10  DOUB  N  N  32  
DKX  N2   HN2  SING  N  N  33  
#   #
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
DKX  SMILES_CANONICAL  CACTVS                3.352  "OC[C@H]1O[C@H]([C@H](O)[C@@H](F)[C@@H]1O)N2C=CC(=O)NC2=O"  
DKX  SMILES            CACTVS                3.352  "OC[CH]1O[CH]([CH](O)[CH](F)[CH]1O)N2C=CC(=O)NC2=O"  
DKX  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.0  "C1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@H]([C@@H]([C@H](O2)CO)O)F)O"  
DKX  SMILES            "OpenEye OEToolkits"  1.7.0  "C1=CN(C(=O)NC1=O)C2C(C(C(C(O2)CO)O)F)O"  
DKX  InChI             InChI                 1.03   "InChI=1S/C10H13FN2O6/c11-6-7(16)4(3-14)19-9(8(6)17)13-2-1-5(15)12-10(13)18/h1-2,4,6-9,14,16-17H,3H2,(H,12,15,18)/t4-,6+,7-,8-,9-/m1/s1"  
DKX  InChIKey          InChI                 1.03   QGWLQEMDCINRKW-PMPOVCSBSA-N  
#
_pdbx_chem_comp_identifier.comp_id          DKX
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  1.6.1
_pdbx_chem_comp_identifier.identifier       "1-[(2R,3S,4S,5R,6R)-4-fluoro-3,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl]pyrimidine-2,4-dione"
#   #
loop_
_pdbx_chem_comp_feature.comp_id
_pdbx_chem_comp_feature.type
_pdbx_chem_comp_feature.value
_pdbx_chem_comp_feature.source
_pdbx_chem_comp_feature.support
DKX  "CARBOHYDRATE ISOMER"                  D         PDB  ?  
DKX  "CARBOHYDRATE RING"                    pyranose  PDB  ?  
DKX  "CARBOHYDRATE ANOMER"                  beta      PDB  ?  
DKX  "CARBOHYDRATE PRIMARY CARBONYL GROUP"  aldose    PDB  ?  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
DKX  "Create component"          2010-01-11  RCSB  
DKX  "Modify descriptor"         2011-06-04  RCSB  
DKX  "Other modification"        2020-07-03  RCSB  
DKX  "Modify synonyms"           2020-07-17  RCSB  
DKX  "Modify internal type"      2020-07-17  RCSB  
DKX  "Modify linking type"       2020-07-17  RCSB  
DKX  "Modify atom id"            2020-07-17  RCSB  
DKX  "Modify component atom id"  2020-07-17  RCSB  
DKX  "Modify leaving atom flag"  2020-07-17  RCSB  
##
