data_GTF
#

_chem_comp.id                                   GTF
_chem_comp.name                                 "2'-deoxy-2',2'-difluorocytidine 5'-(tetrahydrogen triphosphate)"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C9 H14 F2 N3 O13 P3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        Gemcitabine-TRIPHOSPHATE
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2010-04-12
_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                       503.138
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    GTF
_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       6DW5
_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
GTF  F1     F1   F  0  1  N  N  N  -1.180  -0.081  -2.652  -5.424  -1.746   1.484  F1     GTF   1  
GTF  N1     N1   N  0  1  N  N  N  -3.161   0.808  -0.742  -4.272   1.139   0.501  N1     GTF   2  
GTF  C2     C1   C  0  1  N  N  N  -3.118  -0.343   0.311  -4.295   1.353  -0.827  C2     GTF   3  
GTF  F2     F2   F  0  1  N  N  N  -2.860   1.541  -3.292  -5.163  -1.008  -0.677  F2     GTF   4  
GTF  O2     O1   O  0  1  N  N  N  -2.072  -0.930   0.654  -3.836   0.509  -1.579  O2     GTF   5  
GTF  N3     N2   N  0  1  N  N  N  -4.459  -0.782   0.890  -4.810   2.471  -1.335  N3     GTF   6  
GTF  C4     C2   C  0  1  N  N  N  -5.721  -0.088   0.439  -5.316   3.406  -0.540  C4     GTF   7  
GTF  N4     N3   N  0  1  N  N  N  -6.904  -0.498   1.029  -5.846   4.557  -1.076  N4     GTF   8  
GTF  C5     C3   C  0  1  N  N  N  -5.793   1.022  -0.569  -5.307   3.212   0.857  C5     GTF   9  
GTF  C6     C4   C  0  1  N  N  N  -4.487   1.465  -1.164  -4.780   2.070   1.357  C6     GTF  10  
GTF  PA     P1   P  0  1  N  N  N  -3.030   6.733  -1.512   1.662  -1.849  -0.553  PA     GTF  11  
GTF  PB     P2   P  0  1  N  N  N  -5.533   7.492  -2.790   4.264  -0.450  -0.313  PB     GTF  12  
GTF  PG     P3   P  0  1  N  N  N  -5.857   5.591  -5.270   5.862   1.882   0.579  PG     GTF  13  
GTF  "C1'"  C5   C  0  1  N  N  R  -1.791   1.272  -1.247  -3.705  -0.104   1.030  "C1'"  GTF  14  
GTF  O1A    O2   O  0  1  N  N  N  -2.054   7.600  -0.604   2.046  -3.409  -0.456  O1A    GTF  15  
GTF  O1B    O3   O  0  1  N  N  N  -5.195   8.897  -3.342   4.180   0.088  -1.689  O1B    GTF  16  
GTF  O1G    O4   O  0  1  N  N  N  -5.145   4.524  -6.048   5.622   2.952   1.758  O1G    GTF  17  
GTF  "C2'"  C6   C  0  1  N  N  N  -1.653   1.218  -2.563  -4.506  -1.321   0.517  "C2'"  GTF  18  
GTF  O2A    O5   O  0  1  N  N  N  -2.653   7.293  -2.865   1.541  -1.457  -1.975  O2A    GTF  19  
GTF  O2B    O6   O  0  1  N  N  N  -7.019   7.153  -2.385   5.307  -1.675  -0.278  O2B    GTF  20  
GTF  O2G    O7   O  0  1  N  N  N  -7.244   5.244  -4.730   7.336   1.251   0.719  O2G    GTF  21  
GTF  "C3'"  C7   C  0  1  N  N  R  -0.582   2.316  -2.996  -3.431  -2.405   0.279  "C3'"  GTF  22  
GTF  "O3'"  O8   O  0  1  N  N  N   0.752   2.051  -2.864  -3.671  -3.541   1.111  "O3'"  GTF  23  
GTF  O3A    O9   O  0  1  N  N  N  -4.665   7.157  -1.401   2.812  -0.968   0.150  O3A    GTF  24  
GTF  O3B    O10  O  0  1  N  N  N  -4.980   6.228  -3.926   4.764   0.709   0.687  O3B    GTF  25  
GTF  O3G    O11  O  0  1  N  N  N  -5.888   6.683  -6.305   5.736   2.557  -0.732  O3G    GTF  26  
GTF  "C4'"  C8   C  0  1  N  N  R  -1.162   3.541  -2.084  -2.107  -1.714   0.675  "C4'"  GTF  27  
GTF  "O4'"  O12  O  0  1  N  N  N  -1.380   2.878  -0.919  -2.368  -0.302   0.521  "O4'"  GTF  28  
GTF  "C5'"  C9   C  0  1  N  N  N  -2.454   4.238  -2.704  -0.977  -2.152  -0.259  "C5'"  GTF  29  
GTF  "O5'"  O13  O  0  1  N  N  N  -3.135   5.041  -1.730   0.258  -1.594   0.194  "O5'"  GTF  30  
GTF  H1     H1   H  0  1  N  N  N  -6.894  -1.222   1.719  -5.851   4.687  -2.037  H1     GTF  31  
GTF  H2     H2   H  0  1  N  N  N  -7.769  -0.070   0.766  -6.215   5.238  -0.492  H2     GTF  32  
GTF  H3     H3   H  0  1  N  N  N  -6.731   1.477  -0.851  -5.714   3.964   1.517  H3     GTF  33  
GTF  H4     H4   H  0  1  N  N  N  -4.478   2.256  -1.899  -4.762   1.898   2.423  H4     GTF  34  
GTF  H5     H5   H  0  1  N  N  N  -1.026   0.656  -0.752  -3.697  -0.084   2.119  H5     GTF  35  
GTF  H6     H6   H  0  1  N  N  N  -1.547   8.186  -1.153   2.142  -3.735   0.449  H6     GTF  36  
GTF  H7     H7   H  0  1  N  N  N  -4.940   4.848  -6.917   6.249   3.688   1.755  H7     GTF  37  
GTF  H8     H8   H  0  1  N  N  N  -7.571   7.911  -2.541   5.413  -2.077   0.595  H8     GTF  38  
GTF  H9     H9   H  0  1  N  N  N  -7.895   5.792  -5.153   7.490   0.792   1.556  H9     GTF  39  
GTF  H10    H10  H  0  1  N  N  N  -0.804   2.578  -4.041  -3.411  -2.699  -0.771  H10    GTF  40  
GTF  H11    H11  H  0  1  N  N  N   1.255   2.799  -3.163  -4.518  -3.978   0.946  H11    GTF  41  
GTF  H12    H12  H  0  1  N  N  N  -0.370   4.298  -1.984  -1.855  -1.943   1.711  H12    GTF  42  
GTF  H13    H13  H  0  1  N  N  N  -2.147   4.878  -3.544  -0.906  -3.240  -0.258  H13    GTF  43  
GTF  H14    H14  H  0  1  N  N  N  -3.140   3.459  -3.069  -1.184  -1.801  -1.270  H14    GTF  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
GTF  O3G    PG     DOUB  N  N   1  
GTF  O1G    PG     SING  N  N   2  
GTF  PG     O2G    SING  N  N   3  
GTF  PG     O3B    SING  N  N   4  
GTF  O3B    PB     SING  N  N   5  
GTF  O1B    PB     DOUB  N  N   6  
GTF  F2     "C2'"  SING  N  N   7  
GTF  "C3'"  "O3'"  SING  N  N   8  
GTF  "C3'"  "C2'"  SING  N  N   9  
GTF  "C3'"  "C4'"  SING  N  N  10  
GTF  O2A    PA     DOUB  N  N  11  
GTF  PB     O2B    SING  N  N  12  
GTF  PB     O3A    SING  N  N  13  
GTF  "C5'"  "C4'"  SING  N  N  14  
GTF  "C5'"  "O5'"  SING  N  N  15  
GTF  F1     "C2'"  SING  N  N  16  
GTF  "C2'"  "C1'"  SING  N  N  17  
GTF  "C4'"  "O4'"  SING  N  N  18  
GTF  "O5'"  PA     SING  N  N  19  
GTF  PA     O3A    SING  N  N  20  
GTF  PA     O1A    SING  N  N  21  
GTF  "C1'"  "O4'"  SING  N  N  22  
GTF  "C1'"  N1     SING  N  N  23  
GTF  C6     N1     SING  N  N  24  
GTF  C6     C5     DOUB  N  N  25  
GTF  N1     C2     SING  N  N  26  
GTF  C5     C4     SING  N  N  27  
GTF  C2     O2     DOUB  N  N  28  
GTF  C2     N3     SING  N  N  29  
GTF  C4     N3     DOUB  N  N  30  
GTF  C4     N4     SING  N  N  31  
GTF  N4     H1     SING  N  N  32  
GTF  N4     H2     SING  N  N  33  
GTF  C5     H3     SING  N  N  34  
GTF  C6     H4     SING  N  N  35  
GTF  "C1'"  H5     SING  N  N  36  
GTF  O1A    H6     SING  N  N  37  
GTF  O1G    H7     SING  N  N  38  
GTF  O2B    H8     SING  N  N  39  
GTF  O2G    H9     SING  N  N  40  
GTF  "C3'"  H10    SING  N  N  41  
GTF  "O3'"  H11    SING  N  N  42  
GTF  "C4'"  H12    SING  N  N  43  
GTF  "C5'"  H13    SING  N  N  44  
GTF  "C5'"  H14    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
GTF  SMILES            ACDLabs               12.01  "FC2(F)C(N1C(=O)N=C(N)C=C1)OC(C2O)COP(OP(O)(=O)OP(O)(O)=O)(O)=O"  
GTF  InChI             InChI                 1.03   "InChI=1S/C9H14F2N3O13P3/c10-9(11)6(15)4(25-7(9)14-2-1-5(12)13-8(14)16)3-24-29(20,21)27-30(22,23)26-28(17,18)19/h1-2,4,6-7,15H,3H2,(H,20,21)(H,22,23)(H2,12,13,16)(H2,17,18,19)/t4-,6-,7-/m1/s1"  
GTF  InChIKey          InChI                 1.03   YMOXEIOKAJSRQX-QPPQHZFASA-N  
GTF  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)C2(F)F"  
GTF  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)C2(F)F"  
GTF  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "C1=CN(C(=O)N=C1N)[C@H]2C([C@@H]([C@H](O2)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)(F)F"  
GTF  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)(F)F"  
#   #
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
GTF  "SYSTEMATIC NAME"  ACDLabs               12.01  "2'-deoxy-2',2'-difluorocytidine 5'-(tetrahydrogen triphosphate)"  
GTF  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.6  "[[(2~{R},3~{R},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-4,4-bis(fluoranyl)-3-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
GTF  "Create component"   2010-04-12  RCSB  
GTF  "Modify descriptor"  2011-06-04  RCSB  
GTF  "Modify synonyms"    2018-06-27  RCSB  
GTF  "Modify synonyms"    2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     GTF
_pdbx_chem_comp_synonyms.name        Gemcitabine-TRIPHOSPHATE
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
