data_FFJ
# 
_chem_comp.id                                    FFJ 
_chem_comp.name                                  "2'-deoxy-5'-O-[(R)-{[(R)-[difluoro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C10 H16 F2 N3 O12 P3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2018-03-27 
_chem_comp.pdbx_modified_date                    2018-06-15 
_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                        501.165 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     FFJ 
_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        6CTV 
_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 
FFJ C4    C1  C 0 1 N N N 9.366  7.484  11.016 -6.883 -2.638 0.448  C4    FFJ 1  
FFJ N4    N1  N 0 1 N N N 10.804 7.491  11.239 -7.661 -3.623 1.013  N4    FFJ 2  
FFJ C5    C2  C 0 1 N N N 8.536  7.114  12.050 -6.690 -2.601 -0.948 C5    FFJ 3  
FFJ C6    C3  C 0 1 N N N 7.172  7.118  11.787 -5.920 -1.620 -1.477 C6    FFJ 4  
FFJ N3    N2  N 0 1 N N N 8.844  7.839  9.819  -6.316 -1.715 1.214  N3    FFJ 5  
FFJ C2    C4  C 0 1 N N N 7.538  7.834  9.633  -5.562 -0.757 0.679  C2    FFJ 6  
FFJ O2    O1  O 0 1 N N N 7.108  8.141  8.575  -5.051 0.080  1.405  O2    FFJ 7  
FFJ N1    N3  N 0 1 N N N 6.693  7.470  10.590 -5.353 -0.698 -0.649 N1    FFJ 8  
FFJ "C1'" C5  C 0 1 N N R 5.371  7.454  10.328 -4.518 0.368  -1.209 "C1'" FFJ 9  
FFJ "C2'" C6  C 0 1 N N N 4.897  6.040  9.842  -5.142 1.750  -0.915 "C2'" FFJ 10 
FFJ "C3'" C7  C 0 1 N N S 4.490  5.458  10.947 -3.924 2.660  -0.637 "C3'" FFJ 11 
FFJ "O3'" O2  O 0 1 N N N 3.601  4.308  10.746 -3.864 3.722  -1.592 "O3'" FFJ 12 
FFJ "O4'" O3  O 0 1 N N N 4.478  7.703  11.570 -3.232 0.396  -0.552 "O4'" FFJ 13 
FFJ "C4'" C8  C 0 1 N N R 3.710  6.669  11.716 -2.709 1.720  -0.797 "C4'" FFJ 14 
FFJ "C5'" C9  C 0 1 N N N 3.508  6.335  13.192 -1.630 2.065  0.232  "C5'" FFJ 15 
FFJ "O5'" O4  O 0 1 N N N 4.758  6.221  13.814 -0.471 1.263  -0.006 "O5'" FFJ 16 
FFJ PA    P1  P 0 1 N N N 4.977  4.973  14.901 0.862  1.362  0.890  PA    FFJ 17 
FFJ O1A   O5  O 0 1 N N N 3.893  4.981  15.923 0.536  0.882  2.392  O1A   FFJ 18 
FFJ O2A   O6  O 0 1 N N N 6.357  5.043  15.494 1.339  2.763  0.913  O2A   FFJ 19 
FFJ O3A   O7  O 0 1 N N N 4.984  3.612  14.039 2.003  0.417  0.261  O3A   FFJ 20 
FFJ PB    P2  P 0 1 N N N 3.794  2.507  13.833 3.595  0.294  0.470  PB    FFJ 21 
FFJ O1B   O8  O 0 1 N N N 2.441  2.983  14.356 4.297  1.691  0.086  O1B   FFJ 22 
FFJ O2B   O9  O 0 1 N N N 3.749  2.173  12.321 3.883  -0.031 1.885  O2B   FFJ 23 
FFJ C3B   C10 C 0 1 N N N 4.409  1.021  14.755 4.249  -1.028 -0.602 C3B   FFJ 24 
FFJ F3B   F1  F 0 1 N N N 5.794  1.161  14.881 3.639  -2.243 -0.268 F3B   FFJ 25 
FFJ F4B   F2  F 0 1 N N N 4.088  -0.106 14.070 3.977  -0.721 -1.939 F4B   FFJ 26 
FFJ PG    P3  P 0 1 N N N 3.687  0.978  16.463 6.051  -1.168 -0.364 PG    FFJ 27 
FFJ O2G   O10 O 0 1 N N N 3.491  2.392  16.964 6.628  -2.335 -1.311 O2G   FFJ 28 
FFJ O1G   O11 O 0 1 N N N 4.666  0.272  17.326 6.752  0.230  -0.748 O1G   FFJ 29 
FFJ O3G   O12 O 0 1 N N N 2.406  0.216  16.471 6.339  -1.492 1.051  O3G   FFJ 30 
FFJ H1    H1  H 0 1 N N N 11.423 7.761  10.502 -8.077 -4.294 0.449  H1    FFJ 31 
FFJ H2    H2  H 0 1 N N N 11.173 7.226  12.130 -7.792 -3.647 1.973  H2    FFJ 32 
FFJ H3    H3  H 0 1 N N N 8.926  6.834  13.018 -7.148 -3.342 -1.585 H3    FFJ 33 
FFJ H4    H4  H 0 1 N N N 6.483  6.830  12.567 -5.756 -1.570 -2.543 H4    FFJ 34 
FFJ H5    H5  H 0 1 N N N 5.106  8.191  9.555  -4.393 0.227  -2.282 H5    FFJ 35 
FFJ H6    H6  H 0 1 N N N 4.074  6.128  9.118  -5.698 2.110  -1.780 H6    FFJ 36 
FFJ H7    H7  H 0 1 N N N 5.728  5.482  9.386  -5.788 1.699  -0.038 H7    FFJ 37 
FFJ H8    H8  H 0 1 N N N 5.335  5.158  11.583 -3.968 3.059  0.376  H8    FFJ 38 
FFJ H9    H9  H 0 1 N N N 3.793  3.642  11.395 -4.633 4.308  -1.577 H9    FFJ 39 
FFJ H10   H10 H 0 1 N N N 2.728  6.797  11.237 -2.306 1.788  -1.807 H10   FFJ 40 
FFJ H11   H11 H 0 1 N N N 2.929  7.136  13.674 -1.368 3.119  0.144  H11   FFJ 41 
FFJ H12   H12 H 0 1 N N N 2.964  5.383  13.283 -2.009 1.867  1.235  H12   FFJ 42 
FFJ H13   H13 H 0 1 N N N 4.276  5.030  16.791 0.218  -0.029 2.453  H13   FFJ 43 
FFJ H14   H14 H 0 1 N N N 1.810  2.987  13.646 4.150  1.967  -0.829 H14   FFJ 44 
FFJ H15   H15 H 0 1 N N N 2.578  2.525  17.190 7.583  -2.466 -1.237 H15   FFJ 45 
FFJ H16   H16 H 0 1 N N N 4.263  -0.506 17.692 6.605  0.506  -1.663 H16   FFJ 46 
# 
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 
FFJ O2    C2    DOUB N N 1  
FFJ C2    N3    SING N N 2  
FFJ C2    N1    SING N N 3  
FFJ N3    C4    DOUB N N 4  
FFJ "C2'" "C1'" SING N N 5  
FFJ "C2'" "C3'" SING N N 6  
FFJ "C1'" N1    SING N N 7  
FFJ "C1'" "O4'" SING N N 8  
FFJ N1    C6    SING N N 9  
FFJ "O3'" "C3'" SING N N 10 
FFJ "C3'" "C4'" SING N N 11 
FFJ C4    N4    SING N N 12 
FFJ C4    C5    SING N N 13 
FFJ "O4'" "C4'" SING N N 14 
FFJ "C4'" "C5'" SING N N 15 
FFJ C6    C5    DOUB N N 16 
FFJ O2B   PB    DOUB N N 17 
FFJ "C5'" "O5'" SING N N 18 
FFJ "O5'" PA    SING N N 19 
FFJ PB    O3A   SING N N 20 
FFJ PB    O1B   SING N N 21 
FFJ PB    C3B   SING N N 22 
FFJ O3A   PA    SING N N 23 
FFJ F4B   C3B   SING N N 24 
FFJ C3B   F3B   SING N N 25 
FFJ C3B   PG    SING N N 26 
FFJ PA    O2A   DOUB N N 27 
FFJ PA    O1A   SING N N 28 
FFJ PG    O3G   DOUB N N 29 
FFJ PG    O2G   SING N N 30 
FFJ PG    O1G   SING N N 31 
FFJ N4    H1    SING N N 32 
FFJ N4    H2    SING N N 33 
FFJ C5    H3    SING N N 34 
FFJ C6    H4    SING N N 35 
FFJ "C1'" H5    SING N N 36 
FFJ "C2'" H6    SING N N 37 
FFJ "C2'" H7    SING N N 38 
FFJ "C3'" H8    SING N N 39 
FFJ "O3'" H9    SING N N 40 
FFJ "C4'" H10   SING N N 41 
FFJ "C5'" H11   SING N N 42 
FFJ "C5'" H12   SING N N 43 
FFJ O1A   H13   SING N N 44 
FFJ O1B   H14   SING N N 45 
FFJ O2G   H15   SING N N 46 
FFJ O1G   H16   SING N N 47 
# 
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 
FFJ SMILES           ACDLabs              12.01 "C=1(N)C=CN(C(N=1)=O)C2OC(C(C2)O)COP(=O)(O)OP(O)(C(F)(P(=O)(O)O)F)=O"                                                                                                                               
FFJ InChI            InChI                1.03  "InChI=1S/C10H16F2N3O12P3/c11-10(12,28(18,19)20)29(21,22)27-30(23,24)25-4-6-5(16)3-8(26-6)15-2-1-7(13)14-9(15)17/h1-2,5-6,8,16H,3-4H2,(H,21,22)(H,23,24)(H2,13,14,17)(H2,18,19,20)/t5-,6+,8+/m0/s1" 
FFJ InChIKey         InChI                1.03  FBLKJJQPZBDPCI-SHYZEUOFSA-N                                                                                                                                                                         
FFJ SMILES_CANONICAL CACTVS               3.385 "NC1=NC(=O)N(C=C1)[C@H]2C[C@H](O)[C@@H](CO[P](O)(=O)O[P](O)(=O)C(F)(F)[P](O)(O)=O)O2"                                                                                                               
FFJ SMILES           CACTVS               3.385 "NC1=NC(=O)N(C=C1)[CH]2C[CH](O)[CH](CO[P](O)(=O)O[P](O)(=O)C(F)(F)[P](O)(O)=O)O2"                                                                                                                   
FFJ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C1[C@@H]([C@H](O[C@H]1N2C=CC(=NC2=O)N)COP(=O)(O)OP(=O)(C(F)(F)P(=O)(O)O)O)O"                                                                                                                       
FFJ SMILES           "OpenEye OEToolkits" 2.0.6 "C1C(C(OC1N2C=CC(=NC2=O)N)COP(=O)(O)OP(=O)(C(F)(F)P(=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 
FFJ "SYSTEMATIC NAME" ACDLabs              12.01 "2'-deoxy-5'-O-[(R)-{[(R)-[difluoro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine"                                                                             
FFJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[[[[(2~{R},3~{S},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]-bis(fluoranyl)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 
FFJ "Create component" 2018-03-27 RCSB 
FFJ "Initial release"  2018-06-20 RCSB 
# 
