data_F3C
# 
_chem_comp.id                                    F3C 
_chem_comp.name                                  "2'-deoxy-5'-O-[(R)-{[(R)-[(R)-fluoro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C10 H17 F 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                     2017-10-26 
_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                        483.175 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     F3C 
_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        6BEL 
_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 
F3C C4    C1  C 0 1 N N N 9.331  7.582  10.964 -6.745 -2.637 0.403  C4    F3C 1  
F3C N4    N1  N 0 1 N N N 10.791 7.604  11.181 -7.519 -3.632 0.952  N4    F3C 2  
F3C C5    C2  C 0 1 N N N 8.495  7.186  12.006 -6.571 -2.564 -0.994 C5    F3C 3  
F3C C6    C3  C 0 1 N N N 7.120  7.157  11.740 -5.803 -1.574 -1.508 C6    F3C 4  
F3C N3    N2  N 0 1 N N N 8.825  7.924  9.777  -6.161 -1.738 1.185  N3    F3C 5  
F3C C2    C4  C 0 1 N N N 7.515  7.885  9.585  -5.409 -0.770 0.664  C2    F3C 6  
F3C O2    O1  O 0 1 N N N 7.059  8.207  8.509  -4.883 0.045  1.404  O2    F3C 7  
F3C N1    N3  N 0 1 N N N 6.682  7.527  10.545 -5.220 -0.677 -0.665 N1    F3C 8  
F3C "C1'" C5  C 0 1 N N R 5.222  7.458  10.233 -4.386 0.399  -1.209 "C1'" F3C 9  
F3C "C2'" C6  C 0 1 N N N 4.947  6.261  9.820  -4.997 1.776  -0.869 "C2'" F3C 10 
F3C "C3'" C7  C 0 1 N N S 4.403  5.489  11.052 -3.771 2.672  -0.586 "C3'" F3C 11 
F3C "O3'" O2  O 0 1 N N N 3.608  4.408  10.715 -3.718 3.758  -1.513 "O3'" F3C 12 
F3C "O4'" O3  O 0 1 N N N 4.408  7.654  11.576 -3.091 0.403  -0.570 "O4'" F3C 13 
F3C "C4'" C8  C 0 1 N N R 3.647  6.614  11.740 -2.563 1.729  -0.787 "C4'" F3C 14 
F3C "C5'" C9  C 0 1 N N N 3.471  6.385  13.309 -1.468 2.041  0.235  "C5'" F3C 15 
F3C "O5'" O4  O 0 1 N N N 4.748  6.241  13.869 -0.317 1.240  -0.042 "O5'" F3C 16 
F3C PA    P1  P 0 1 N N N 4.979  4.979  14.875 1.030  1.308  0.838  PA    F3C 17 
F3C O1A   O5  O 0 1 N N N 3.894  4.990  15.918 0.723  0.790  2.331  O1A   F3C 18 
F3C O2A   O6  O 0 1 N N N 6.371  5.041  15.446 1.515  2.705  0.890  O2A   F3C 19 
F3C O3A   O7  O 0 1 N N N 4.947  3.639  13.921 2.156  0.373  0.167  O3A   F3C 20 
F3C PB    P2  P 0 1 N N N 3.808  2.472  13.863 3.750  0.236  0.350  PB    F3C 21 
F3C O1B   O8  O 0 1 N N N 2.480  2.906  14.418 4.454  1.640  -0.007 O1B   F3C 22 
F3C O2B   O9  O 0 1 N N N 3.723  2.121  12.404 4.056  -0.127 1.751  O2B   F3C 23 
F3C C3B   C10 C 0 1 N N R 4.553  0.974  14.756 4.380  -1.061 -0.766 C3B   F3C 24 
F3C F4B   F1  F 0 1 N N N 4.237  -0.142 14.070 3.768  -2.280 -0.456 F4B   F3C 25 
F3C PG    P3  P 0 1 N N N 3.890  0.902  16.471 6.185  -1.216 -0.559 PG    F3C 26 
F3C O1G   O10 O 0 1 N N N 3.652  2.315  16.929 6.741  -2.362 -1.544 O1G   F3C 27 
F3C O2G   O11 O 0 1 N N N 4.893  0.232  17.354 6.889  0.187  -0.915 O2G   F3C 28 
F3C O3G   O12 O 0 1 N N N 2.623  0.123  16.491 6.491  -1.579 0.843  O3G   F3C 29 
F3C H1    H1  H 0 1 N N N 11.403 7.875  10.438 -7.948 -4.286 0.378  H1    F3C 30 
F3C H2    H2  H 0 1 N N N 11.168 7.347  12.071 -7.637 -3.680 1.914  H2    F3C 31 
F3C H3    H3  H 0 1 N N N 8.889  6.914  12.974 -7.043 -3.286 -1.644 H3    F3C 32 
F3C H4    H4  H 0 1 N N N 6.424  6.836  12.501 -5.655 -1.497 -2.575 H4    F3C 33 
F3C H5    H5  H 0 1 N N N 4.943  8.248  9.520  -4.277 0.285  -2.287 H5    F3C 34 
F3C H6    H6  H 0 1 N N N 4.186  6.297  9.027  -5.564 2.162  -1.717 H6    F3C 35 
F3C H7    H7  H 0 1 N N N 5.855  5.773  9.435  -5.631 1.706  0.015  H7    F3C 36 
F3C H8    H8  H 0 1 N N N 5.250  5.181  11.682 -3.798 3.044  0.438  H8    F3C 37 
F3C H9    H9  H 0 1 N N N 3.733  3.712  11.350 -4.483 4.348  -1.471 H9    F3C 38 
F3C H10   H10 H 0 1 N N N 2.652  6.727  11.284 -2.175 1.822  -1.801 H10   F3C 39 
F3C H11   H11 H 0 1 N N N 2.961  7.250  13.758 -1.201 3.096  0.170  H11   F3C 40 
F3C H12   H12 H 0 1 N N N 2.879  5.476  13.490 -1.833 1.819  1.237  H12   F3C 41 
F3C H13   H13 H 0 1 N N N 4.285  5.035  16.782 0.400  -0.121 2.373  H13   F3C 42 
F3C H14   H14 H 0 1 N N N 1.824  2.877  13.731 4.295  1.940  -0.913 H14   F3C 43 
F3C H15   H15 H 0 1 N N N 5.635  1.158  14.833 4.155  -0.793 -1.798 H15   F3C 44 
F3C H16   H16 H 0 1 N N N 2.733  2.429  17.141 7.697  -2.499 -1.487 H16   F3C 45 
F3C H17   H17 H 0 1 N N N 4.507  -0.547 17.738 6.730  0.488  -1.821 H17   F3C 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 
F3C O2    C2    DOUB N N 1  
F3C C2    N3    SING N N 2  
F3C C2    N1    SING N N 3  
F3C N3    C4    DOUB N N 4  
F3C "C2'" "C1'" SING N N 5  
F3C "C2'" "C3'" SING N N 6  
F3C "C1'" N1    SING N N 7  
F3C "C1'" "O4'" SING N N 8  
F3C N1    C6    SING N N 9  
F3C "O3'" "C3'" SING N N 10 
F3C C4    N4    SING N N 11 
F3C C4    C5    SING N N 12 
F3C "C3'" "C4'" SING N N 13 
F3C "O4'" "C4'" SING N N 14 
F3C C6    C5    DOUB N N 15 
F3C "C4'" "C5'" SING N N 16 
F3C O2B   PB    DOUB N N 17 
F3C "C5'" "O5'" SING N N 18 
F3C PB    O3A   SING N N 19 
F3C PB    O1B   SING N N 20 
F3C PB    C3B   SING N N 21 
F3C "O5'" PA    SING N N 22 
F3C O3A   PA    SING N N 23 
F3C F4B   C3B   SING N N 24 
F3C C3B   PG    SING N N 25 
F3C PA    O2A   DOUB N N 26 
F3C PA    O1A   SING N N 27 
F3C PG    O3G   DOUB N N 28 
F3C PG    O1G   SING N N 29 
F3C PG    O2G   SING N N 30 
F3C N4    H1    SING N N 31 
F3C N4    H2    SING N N 32 
F3C C5    H3    SING N N 33 
F3C C6    H4    SING N N 34 
F3C "C1'" H5    SING N N 35 
F3C "C2'" H6    SING N N 36 
F3C "C2'" H7    SING N N 37 
F3C "C3'" H8    SING N N 38 
F3C "O3'" H9    SING N N 39 
F3C "C4'" H10   SING N N 40 
F3C "C5'" H11   SING N N 41 
F3C "C5'" H12   SING N N 42 
F3C O1A   H13   SING N N 43 
F3C O1B   H14   SING N N 44 
F3C C3B   H15   SING N N 45 
F3C O1G   H16   SING N N 46 
F3C O2G   H17   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 
F3C SMILES           ACDLabs              12.01 "C=1(N)C=CN(C(N=1)=O)C2OC(C(C2)O)COP(=O)(O)OP(O)(C(P(=O)(O)O)F)=O"                                                                                                                                   
F3C InChI            InChI                1.03  "InChI=1S/C10H17FN3O12P3/c11-9(27(17,18)19)28(20,21)26-29(22,23)24-4-6-5(15)3-8(25-6)14-2-1-7(12)13-10(14)16/h1-2,5-6,8-9,15H,3-4H2,(H,20,21)(H,22,23)(H2,12,13,16)(H2,17,18,19)/t5-,6+,8+,9+/m0/s1" 
F3C InChIKey         InChI                1.03  CDDSHZIEMFLZDN-HIORRCEOSA-N                                                                                                                                                                          
F3C 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@H](F)[P](O)(O)=O)O2"                                                                                                               
F3C SMILES           CACTVS               3.385 "NC1=NC(=O)N(C=C1)[CH]2C[CH](O)[CH](CO[P](O)(=O)O[P](O)(=O)[CH](F)[P](O)(O)=O)O2"                                                                                                                    
F3C 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@H](F)P(=O)(O)O)O)O"                                                                                                                       
F3C SMILES           "OpenEye OEToolkits" 2.0.6 "C1C(C(OC1N2C=CC(=NC2=O)N)COP(=O)(O)OP(=O)(C(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 
F3C "SYSTEMATIC NAME" ACDLabs              12.01 "2'-deoxy-5'-O-[(R)-{[(R)-[(R)-fluoro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine"                                                                              
F3C "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[(~{R})-[[[(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]-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 
F3C "Create component" 2017-10-26 RCSB 
F3C "Initial release"  2018-06-20 RCSB 
# 
