data_TFF
# 
_chem_comp.id                                    TFF 
_chem_comp.name                                  "5'-O-[(R)-{[(R)-[difluoro(phosphono)methyl](hydroxy)phosphoryl](difluoro)methyl}(hydroxy)phosphoryl]thymidine" 
_chem_comp.type                                  "DNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C12 H17 F4 N2 O12 P3" 
_chem_comp.mon_nstd_parent_comp_id               DT 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2010-02-04 
_chem_comp.pdbx_modified_date                    2011-06-04 
_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                        550.184 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     TFF 
_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        3LK9 
_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 
TFF N1     N1     N 0 1 N N N 2.243  1.171  3.114  -5.494 0.384  0.464  N1     TFF 1  
TFF C2     C2     C 0 1 N N N 2.460  1.385  1.774  -5.497 0.504  -0.876 C2     TFF 2  
TFF O2     O2     O 0 1 N N N 2.642  0.455  0.953  -4.826 -0.256 -1.547 O2     TFF 3  
TFF N3     N3     N 0 1 N N N 2.495  2.639  1.264  -6.232 1.454  -1.484 N3     TFF 4  
TFF C4     C4     C 0 1 N N N 2.308  3.730  2.039  -6.982 2.304  -0.754 C4     TFF 5  
TFF O4     O4     O 0 1 N N N 2.372  4.847  1.480  -7.647 3.164  -1.303 O4     TFF 6  
TFF C5     C5     C 0 1 N N N 2.061  3.582  3.421  -6.988 2.189  0.657  C5     TFF 7  
TFF C6     C6     C 0 1 N N N 2.042  2.261  3.923  -6.241 1.227  1.241  C6     TFF 8  
TFF PA     PA     P 0 1 N N N 1.967  1.862  8.370  0.929  -1.263 -0.512 PA     TFF 9  
TFF PB     PB     P 0 1 N N N -0.917 1.446  8.470  3.669  -0.112 -0.330 PB     TFF 10 
TFF PG     PG     P 0 1 N N N -3.815 1.342  8.717  6.408  1.038  -0.148 PG     TFF 11 
TFF "C1'"  "C1'"  C 0 1 N N R 2.267  -0.179 3.657  -4.689 -0.663 1.097  "C1'"  TFF 12 
TFF F1A    F1A    F 0 1 N N N 0.681  1.073  10.400 1.498  1.053  0.624  F1A    TFF 13 
TFF O1A    O1A    O 0 1 N N N 1.966  2.993  7.420  0.763  -0.656 -1.851 O1A    TFF 14 
TFF F1B    F1B    F 0 1 N N N -2.388 3.316  9.356  4.238  2.204  0.806  F1B    TFF 15 
TFF O1B    O1B    O 0 1 N N N -0.927 -0.020 8.294  3.503  0.495  -1.669 O1B    TFF 16 
TFF O1G    O1G    O 0 1 N N N -4.959 1.950  9.499  7.394  1.953  0.737  O1G    TFF 17 
TFF "C2'"  "C2'"  C 0 1 N N N 3.712  -0.722 3.772  -5.228 -2.051 0.700  "C2'"  TFF 18 
TFF F2A    F2A    F 0 1 N N N 0.396  3.185  9.802  2.202  -0.802 1.757  F2A    TFF 19 
TFF O2A    O2A    O 0 1 N N N 3.165  1.995  9.283  1.559  -2.737 -0.666 O2A    TFF 20 
TFF F2B    F2B    F 0 1 N N N -2.229 1.526  10.660 4.942  0.349  1.939  F2B    TFF 21 
TFF O2B    O2B    O 0 1 N N N -0.940 2.099  7.107  4.298  -1.586 -0.484 O2B    TFF 22 
TFF O2G    O2G    O 0 1 N N N -3.868 -0.129 8.838  6.987  -0.317 -0.290 O2G    TFF 23 
TFF "C3'"  "C3'"  C 0 1 N N S 3.660  -1.626 5.007  -4.023 -2.746 0.020  "C3'"  TFF 24 
TFF "O3'"  "O3'"  O 0 1 N N N 3.293  -2.961 4.654  -3.937 -4.117 0.414  "O3'"  TFF 25 
TFF C3A    C3A    C 0 1 N N N 0.523  1.906  9.320  2.045  -0.228 0.491  C3A    TFF 26 
TFF C3B    C3B    C 0 1 N N N -2.324 1.943  9.354  4.785  0.923  0.673  C3B    TFF 27 
TFF O3G    O3G    O 0 1 N N N -3.957 1.740  7.267  6.227  1.699  -1.605 O3G    TFF 28 
TFF "C4'"  "C4'"  C 0 1 N N R 2.555  -0.967 5.864  -2.825 -1.935 0.575  "C4'"  TFF 29 
TFF "O4'"  "O4'"  O 0 1 N N N 1.642  -0.337 4.948  -3.331 -0.584 0.632  "O4'"  TFF 30 
TFF "C5'"  "C5'"  C 0 1 N N N 3.079  0.077  6.889  -1.629 -2.022 -0.375 "C5'"  TFF 31 
TFF "O5'"  "O5'"  O 0 1 N N N 2.049  0.549  7.608  -0.505 -1.365 0.213  "O5'"  TFF 32 
TFF C5M    C5M    C 0 1 N N N 1.832  4.726  4.334  -7.817 3.127  1.496  C5M    TFF 33 
TFF HN3    HN3    H 0 1 N N N 2.664  2.761  0.286  -6.222 1.527  -2.451 HN3    TFF 34 
TFF H6     H6     H 0 1 N N N 1.864  2.104  4.977  -6.234 1.124  2.316  H6     TFF 35 
TFF "H1'"  "H1'"  H 0 1 N N N 1.675  -0.751 2.928  -4.719 -0.550 2.181  "H1'"  TFF 36 
TFF "H2'"  "H2'"  H 0 1 N N N 4.003  -1.285 2.873  -5.540 -2.607 1.584  "H2'"  TFF 37 
TFF "H2'A" "H2'A" H 0 0 N N N 4.439  0.093  3.900  -6.057 -1.952 -0.001 "H2'A" TFF 38 
TFF "H3'"  "H3'"  H 0 1 N N N 4.628  -1.711 5.522  -4.085 -2.658 -1.064 "H3'"  TFF 39 
TFF "HO3'" "HO3'" H 0 0 N N N 3.268  -3.500 5.436  -4.708 -4.646 0.168  "HO3'" TFF 40 
TFF "H4'"  "H4'"  H 0 1 N N N 2.077  -1.749 6.472  -2.552 -2.285 1.571  "H4'"  TFF 41 
TFF "H5'"  "H5'"  H 0 1 N N N 3.808  -0.401 7.560  -1.385 -3.069 -0.556 "H5'"  TFF 42 
TFF "H5'A" "H5'A" H 0 0 N N N 3.564  0.906  6.354  -1.879 -1.539 -1.320 "H5'A" TFF 43 
TFF H5M    H5M    H 0 1 N N N 1.663  4.353  5.355  -8.343 3.826  0.847  H5M    TFF 44 
TFF H5MA   H5MA   H 0 0 N N N 2.713  5.384  4.325  -8.541 2.553  2.075  H5MA   TFF 45 
TFF H5MB   H5MB   H 0 0 N N N 0.949  5.291  4.000  -7.166 3.680  2.174  H5MB   TFF 46 
TFF H14    H14    H 0 1 N N N -0.956 1.428  6.434  4.435  -2.045 0.356  H14    TFF 47 
TFF H15    H15    H 0 1 N N N -4.051 0.961  6.732  5.852  2.590  -1.589 H15    TFF 48 
TFF H16    H16    H 0 1 N N N -5.470 1.258  9.903  8.278  2.058  0.360  H16    TFF 49 
TFF H17    H17    H 0 1 N N N 3.657  2.774  9.050  1.696  -3.196 0.174  H17    TFF 50 
# 
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 
TFF N1    C2     SING N N 1  
TFF N1    C6     SING N N 2  
TFF N1    "C1'"  SING N N 3  
TFF C2    O2     DOUB N N 4  
TFF C2    N3     SING N N 5  
TFF N3    C4     SING N N 6  
TFF N3    HN3    SING N N 7  
TFF C4    O4     DOUB N N 8  
TFF C4    C5     SING N N 9  
TFF C5    C6     DOUB N N 10 
TFF C5    C5M    SING N N 11 
TFF C6    H6     SING N N 12 
TFF PA    O1A    DOUB N N 13 
TFF PA    O2A    SING N N 14 
TFF PA    C3A    SING N N 15 
TFF PA    "O5'"  SING N N 16 
TFF PB    O1B    DOUB N N 17 
TFF PB    O2B    SING N N 18 
TFF PB    C3A    SING N N 19 
TFF PB    C3B    SING N N 20 
TFF PG    O1G    SING N N 21 
TFF PG    O2G    DOUB N N 22 
TFF PG    C3B    SING N N 23 
TFF PG    O3G    SING N N 24 
TFF "C1'" "C2'"  SING N N 25 
TFF "C1'" "O4'"  SING N N 26 
TFF "C1'" "H1'"  SING N N 27 
TFF F1A   C3A    SING N N 28 
TFF F1B   C3B    SING N N 29 
TFF "C2'" "C3'"  SING N N 30 
TFF "C2'" "H2'"  SING N N 31 
TFF "C2'" "H2'A" SING N N 32 
TFF F2A   C3A    SING N N 33 
TFF F2B   C3B    SING N N 34 
TFF "C3'" "O3'"  SING N N 35 
TFF "C3'" "C4'"  SING N N 36 
TFF "C3'" "H3'"  SING N N 37 
TFF "O3'" "HO3'" SING N N 38 
TFF "C4'" "O4'"  SING N N 39 
TFF "C4'" "C5'"  SING N N 40 
TFF "C4'" "H4'"  SING N N 41 
TFF "C5'" "O5'"  SING N N 42 
TFF "C5'" "H5'"  SING N N 43 
TFF "C5'" "H5'A" SING N N 44 
TFF C5M   H5M    SING N N 45 
TFF C5M   H5MA   SING N N 46 
TFF C5M   H5MB   SING N N 47 
TFF O2B   H14    SING N N 48 
TFF O3G   H15    SING N N 49 
TFF O1G   H16    SING N N 50 
TFF O2A   H17    SING N N 51 
# 
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 
TFF SMILES_CANONICAL CACTVS               3.352 "CC1=CN([C@H]2C[C@H](O)[C@@H](CO[P](O)(=O)C(F)(F)[P](O)(=O)C(F)(F)[P](O)(O)=O)O2)C(=O)NC1=O"                                                                                                               
TFF SMILES           CACTVS               3.352 "CC1=CN([CH]2C[CH](O)[CH](CO[P](O)(=O)C(F)(F)[P](O)(=O)C(F)(F)[P](O)(O)=O)O2)C(=O)NC1=O"                                                                                                                   
TFF SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)CO[P@@](=O)(C(F)(F)[P@@](=O)(C(F)(F)P(=O)(O)O)O)O)O"                                                                                                             
TFF SMILES           "OpenEye OEToolkits" 1.7.0 "CC1=CN(C(=O)NC1=O)C2CC(C(O2)COP(=O)(C(F)(F)P(=O)(C(F)(F)P(=O)(O)O)O)O)O"                                                                                                                                  
TFF InChI            InChI                1.03  "InChI=1S/C12H17F4N2O12P3/c1-5-3-18(10(21)17-9(5)20)8-2-6(19)7(30-8)4-29-33(27,28)12(15,16)31(22,23)11(13,14)32(24,25)26/h3,6-8,19H,2,4H2,1H3,(H,22,23)(H,27,28)(H,17,20,21)(H2,24,25,26)/t6-,7+,8+/m0/s1" 
TFF InChIKey         InChI                1.03  HHJYLFURQLSDJT-XLPZGREQSA-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 
TFF "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 "[[[difluoro-[hydroxy-[[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methoxy]phosphoryl]methyl]-hydroxy-phosphoryl]-difluoro-methyl]phosphonic acid" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
TFF "Create component"  2010-02-04 RCSB 
TFF "Modify descriptor" 2011-06-04 RCSB 
# 
