data_73W
# 
_chem_comp.id                                    73W 
_chem_comp.name                                  "5'-O-[(dithiophosphono)]cytidine" 
_chem_comp.type                                  "RNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C9 H14 N3 O6 P S2" 
_chem_comp.mon_nstd_parent_comp_id               C 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2016-08-19 
_chem_comp.pdbx_modified_date                    2017-02-03 
_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                        355.328 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     73W 
_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        5T16 
_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 
73W O2    O1  O 0 1 N N N 6.746  -5.964 80.079 1.745  0.878  1.198  O2    73W 1  
73W C2    C1  C 0 1 N N N 5.742  -5.751 80.734 2.748  0.868  0.504  C2    73W 2  
73W P     P1  P 0 1 N N N -0.635 -4.927 78.656 -3.618 0.881  -0.299 P     73W 3  
73W C4    C2  C 0 1 N N N 4.588  -5.513 82.774 4.778  1.818  -0.057 C4    73W 4  
73W C5    C3  C 0 1 N N N 3.362  -5.236 82.097 4.964  0.830  -1.046 C5    73W 5  
73W C6    C4  C 0 1 N N N 3.363  -5.227 80.738 4.007  -0.112 -1.220 C6    73W 6  
73W "C1'" C5  C 0 1 N N R 4.481  -5.463 78.514 1.852  -1.099 -0.612 "C1'" 73W 7  
73W "C2'" C6  C 0 1 N N R 4.680  -6.919 77.941 1.700  -1.957 0.670  "C2'" 73W 8  
73W "C3'" C7  C 0 1 N N S 3.214  -7.333 77.677 0.243  -2.466 0.549  "C3'" 73W 9  
73W "C4'" C8  C 0 1 N N R 2.752  -5.982 77.038 -0.426 -1.470 -0.418 "C4'" 73W 10 
73W "C5'" C9  C 0 1 N N N 1.264  -5.831 76.970 -1.623 -0.806 0.264  "C5'" 73W 11 
73W N1    N1  N 0 1 N N N 4.484  -5.479 80.026 2.894  -0.085 -0.434 N1    73W 12 
73W N3    N2  N 0 1 N N N 5.749  -5.763 82.137 3.677  1.805  0.684  N3    73W 13 
73W N4    N3  N 0 1 N N N 4.587  -5.522 84.136 5.731  2.790  0.138  N4    73W 14 
73W "O2'" O2  O 0 1 N N N 5.314  -6.735 76.714 2.624  -3.047 0.667  "O2'" 73W 15 
73W "O3'" O3  O 0 1 N N N 3.114  -8.417 76.808 0.219  -3.788 0.007  "O3'" 73W 16 
73W "O4'" O4  O 0 1 N N N 3.262  -5.002 77.942 0.557  -0.477 -0.760 "O4'" 73W 17 
73W "O5'" O5  O 0 1 N N N 0.936  -5.467 78.281 -2.306 0.026  -0.676 "O5'" 73W 18 
73W SP1   S1  S 0 1 N N N -1.740 -5.986 77.382 -5.289 -0.416 -0.159 SP1   73W 19 
73W SP2   S2  S 0 1 N N N -1.028 -5.455 80.558 -3.355 1.735  1.336  SP2   73W 20 
73W H1    H1  H 0 1 N N N 2.456  -5.039 82.651 5.854  0.828  -1.657 H1    73W 21 
73W H2    H2  H 0 1 N N N 2.444  -5.013 80.213 4.127  -0.879 -1.971 H2    73W 22 
73W H3    H3  H 0 1 N N N 5.319  -4.843 78.164 2.075  -1.730 -1.472 H3    73W 23 
73W H4    H4  H 0 1 N N N 5.195  -7.585 78.650 1.826  -1.345 1.564  H4    73W 24 
73W H5    H5  H 0 1 N N N 2.687  -7.501 78.628 -0.250 -2.443 1.521  H5    73W 25 
73W H6    H6  H 0 1 N N N 3.196  -5.877 76.037 -0.752 -1.991 -1.319 H6    73W 26 
73W H7    H7  H 0 1 N N N 0.976  -5.046 76.256 -2.304 -1.574 0.631  H7    73W 27 
73W H8    H8  H 0 1 N N N 0.781  -6.778 76.688 -1.275 -0.200 1.100  H8    73W 28 
73W H9    H9  H 0 1 N N N 5.433  -5.711 84.635 6.535  2.797  -0.405 H9    73W 29 
73W H10   H10 H 0 1 N N N 3.741  -5.340 84.637 5.600  3.469  0.819  H10   73W 30 
73W H11   H11 H 0 1 N N N 6.218  -6.480 76.859 2.568  -3.612 1.449  H11   73W 31 
73W H12   H12 H 0 1 N N N 3.407  -9.205 77.250 0.677  -4.444 0.550  H12   73W 32 
73W H13   H13 H 0 1 N N N -2.942 -5.578 77.663 -6.295 0.420  0.155  H13   73W 33 
73W O1    O6  O 0 1 N Y N -0.716 -3.356 78.506 -3.887 1.982  -1.443 O1    73W 34 
73W H16   H16 H 0 1 N Y N -0.935 -2.968 79.345 -4.032 1.608  -2.323 H16   73W 35 
# 
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 
73W "O2'" "C2'" SING N N 1  
73W "O3'" "C3'" SING N N 2  
73W "C5'" "C4'" SING N N 3  
73W "C5'" "O5'" SING N N 4  
73W "C4'" "C3'" SING N N 5  
73W "C4'" "O4'" SING N N 6  
73W SP1   P     SING N N 7  
73W "C3'" "C2'" SING N N 8  
73W "C2'" "C1'" SING N N 9  
73W "O4'" "C1'" SING N N 10 
73W "O5'" P     SING N N 11 
73W "C1'" N1    SING N N 12 
73W P     SP2   DOUB N N 13 
73W N1    C2    SING N N 14 
73W N1    C6    SING N N 15 
73W O2    C2    DOUB N N 16 
73W C2    N3    SING N N 17 
73W C6    C5    DOUB N N 18 
73W C5    C4    SING N N 19 
73W N3    C4    DOUB N N 20 
73W C4    N4    SING N N 21 
73W C5    H1    SING N N 22 
73W C6    H2    SING N N 23 
73W "C1'" H3    SING N N 24 
73W "C2'" H4    SING N N 25 
73W "C3'" H5    SING N N 26 
73W "C4'" H6    SING N N 27 
73W "C5'" H7    SING N N 28 
73W "C5'" H8    SING N N 29 
73W N4    H9    SING N N 30 
73W N4    H10   SING N N 31 
73W "O2'" H11   SING N N 32 
73W "O3'" H12   SING N N 33 
73W SP1   H13   SING N N 34 
73W P     O1    SING N N 35 
73W O1    H16   SING N N 36 
# 
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 
73W SMILES           ACDLabs              12.01 "O=C1N=C(N)C=CN1C2C(C(C(O2)COP(=S)(O)S)O)O"                                                                                                            
73W InChI            InChI                1.03  "InChI=1S/C9H14N3O6PS2/c10-5-1-2-12(9(15)11-5)8-7(14)6(13)4(18-8)3-17-19(16,20)21/h1-2,4,6-8,13-14H,3H2,(H2,10,11,15)(H2,16,20,21)/t4-,6-,7-,8-/m1/s1" 
73W InChIKey         InChI                1.03  GHDZYAHUSKICEF-XVFCMESISA-N                                                                                                                            
73W SMILES_CANONICAL CACTVS               3.385 "NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P](O)(S)=S)[C@@H](O)[C@H]2O"                                                                                        
73W SMILES           CACTVS               3.385 "NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(S)=S)[CH](O)[CH]2O"                                                                                              
73W SMILES_CANONICAL "OpenEye OEToolkits" 2.0.5 "C1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=S)(O)S)O)O"                                                                                        
73W SMILES           "OpenEye OEToolkits" 2.0.5 "C1=CN(C(=O)N=C1N)C2C(C(C(O2)COP(=S)(O)S)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 
73W "SYSTEMATIC NAME" ACDLabs              12.01 "5'-O-[(dithiophosphono)]cytidine"                                                                                                    
73W "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.5 "4-azanyl-1-[(2~{R},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-[[oxidanyl(sulfanyl)phosphinothioyl]oxymethyl]oxolan-2-yl]pyrimidin-2-one" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
73W "Create component"      2016-08-19 RCSB 
73W "Modify parent residue" 2016-11-01 RCSB 
73W "Initial release"       2017-02-08 RCSB 
# 
