data_47C
#

_chem_comp.id                                   47C
_chem_comp.name                                 "2'-DEOXY-N-(PROP-2-EN-1-YLOXY)CYTIDINE 5'-(DIHYDROGEN PHOSPHATE)"
_chem_comp.type                                 "DNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C12 H18 N3 O8 P"
_chem_comp.mon_nstd_parent_comp_id              DC
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2010-08-10
_chem_comp.pdbx_modified_date                   2019-04-29
_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                       363.260
_chem_comp.one_letter_code                      C
_chem_comp.three_letter_code                    47C
_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       2XO7
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 EBI
#   #
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
47C  N1      N1      N  0  1  N  N  N  26.952   9.986  15.630   1.022  -1.531  -0.763  N1      47C   1  
47C  C2      C2      C  0  1  N  N  N  26.453  10.354  16.830   1.438  -0.604   0.120  C2      47C   2  
47C  N3      N3      N  0  1  N  N  N  25.600  11.382  16.884   2.672  -0.108   0.066  N3      47C   3  
47C  C4      C4      C  0  1  N  N  N  25.237  12.021  15.771   3.527  -0.517  -0.863  C4      47C   4  
47C  C5      C5      C  0  1  N  N  N  25.710  11.670  14.532   3.123  -1.487  -1.803  C5      47C   5  
47C  C6      C6      C  0  1  N  N  N  26.583  10.621  14.509   1.864  -1.982  -1.735  C6      47C   6  
47C  O2      O2      O  0  1  N  N  N  26.775   9.769  17.884   0.671  -0.211   0.983  O2      47C   7  
47C  N4      N4      N  0  1  N  N  N  24.394  13.025  15.884   4.800   0.003  -0.909  N4      47C   8  
47C  "C1'"   "C1'"   C  0  1  N  N  R  27.861   8.866  15.454  -0.340  -2.062  -0.675  "C1'"   47C   9  
47C  "C2'"   "C2'"   C  0  1  N  N  N  27.472   8.071  14.216  -0.513  -2.845   0.641  "C2'"   47C  10  
47C  CM2     CM2     C  0  1  N  N  N  22.548  13.761  14.869   6.547   1.429  -0.130  CM2     47C  11  
47C  "C3'"   "C3'"   C  0  1  N  N  S  28.679   7.195  14.068  -1.679  -2.123   1.361  "C3'"   47C  12  
47C  "C4'"   "C4'"   C  0  1  N  N  R  29.796   8.116  14.534  -2.382  -1.392   0.189  "C4'"   47C  13  
47C  "O4'"   "O4'"   O  0  1  N  N  N  29.172   9.260  15.165  -1.286  -0.980  -0.656  "O4'"   47C  14  
47C  "O3'"   "O3'"   O  0  1  N  N  N  28.578   6.089  14.917  -2.559  -3.065   1.976  "O3'"   47C  15  
47C  "C5'"   "C5'"   C  0  1  N  N  N  30.663   8.583  13.398  -3.156  -0.176   0.699  "C5'"   47C  16  
47C  "O5'"   "O5'"   O  0  1  N  N  N  29.864   9.324  12.526  -3.887   0.411  -0.379  "O5'"   47C  17  
47C  P       P       P  0  1  N  N  N  30.545   9.894  11.225  -4.816   1.714  -0.203  P       47C  18  
47C  OP1     OP1     O  0  1  N  N  N  31.554   8.925  10.746  -5.807   1.472   0.870  OP1     47C  19  
47C  OP2     OP2     O  0  1  N  N  N  29.448  10.390  10.363  -3.899   2.978   0.188  OP2     47C  20  
47C  O       O       O  0  1  N  N  N  23.986  13.714  14.740   5.201   0.978   0.036  O       47C  21  
47C  CD      CD      C  0  1  N  N  N  22.108  14.865  13.911   6.865   2.459   0.924  CD      47C  22  
47C  CE      CE      C  0  1  N  N  N  21.180  14.626  12.993   8.000   2.400   1.575  CE      47C  23  
47C  OP3     OP3     O  0  1  N  Y  N  31.364  11.118  11.836  -5.585   2.016  -1.585  OP3     47C  24  
47C  H6      H6      H  0  1  N  N  N  26.987  10.294  13.562   1.531  -2.726  -2.443  H6      47C  25  
47C  "H1'"   "H1'"   H  0  1  N  N  N  27.802   8.308  16.400  -0.538  -2.716  -1.524  "H1'"   47C  26  
47C  H5      H5      H  0  1  N  N  N  25.411  12.190  13.634   3.807  -1.831  -2.565  H5      47C  27  
47C  H4      H4      H  0  1  N  N  N  24.048  13.293  16.783   5.422  -0.298  -1.589  H4      47C  28  
47C  "H2'1"  "H2'1"  H  0  0  N  N  N  26.546   7.495  14.357  -0.776  -3.882   0.436  "H2'1"  47C  29  
47C  "H2'2"  "H2'2"  H  0  0  N  N  N  27.243   8.685  13.333   0.396  -2.791   1.240  "H2'2"  47C  30  
47C  "H3'"   "H3'"   H  0  1  N  N  N  28.822   6.795  13.053  -1.301  -1.410   2.094  "H3'"   47C  31  
47C  HM21    HM21    H  0  0  N  N  N  22.095  12.797  14.596   7.228   0.584  -0.029  HM21    47C  32  
47C  HM22    HM22    H  0  0  N  N  N  22.232  13.960  15.903   6.662   1.873  -1.118  HM22    47C  33  
47C  HD      HD      H  0  1  N  N  N  22.554  15.846  13.981   6.157   3.245   1.141  HD      47C  34  
47C  "H4'"   "H4'"   H  0  1  N  N  N  30.449   7.567  15.228  -3.044  -2.073  -0.346  "H4'"   47C  35  
47C  "H5'1"  "H5'1"  H  0  0  N  N  N  31.482   9.209  13.782  -3.849  -0.488   1.481  "H5'1"  47C  36  
47C  "H5'2"  "H5'2"  H  0  0  N  N  N  31.104   7.722  12.875  -2.457   0.556   1.105  "H5'2"  47C  37  
47C  H2P     H2P     H  0  1  N  N  N  28.660  10.496  10.883  -3.226   3.195  -0.472  H2P     47C  38  
47C  H55     H55     H  0  1  N  N  N  28.555   5.293  14.399  -2.140  -3.611   2.656  H55     47C  39  
47C  HE5     HE5     H  0  1  N  N  N  21.021  15.533  12.428   8.708   1.614   1.358  HE5     47C  40  
47C  HE6     HE6     H  0  1  N  N  N  20.671  13.686  12.837   8.228   3.138   2.330  HE6     47C  41  
47C  H3P     H3P     H  0  1  N  N  N  31.527  10.961  12.759  -6.165   2.789  -1.552  H3P     47C  42  
#   #
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
47C  N1     C2      SING  N  N   1  
47C  N1     C6      SING  N  N   2  
47C  N1     "C1'"   SING  N  N   3  
47C  C2     N3      SING  N  N   4  
47C  C2     O2      DOUB  N  N   5  
47C  N3     C4      DOUB  N  N   6  
47C  C4     C5      SING  N  N   7  
47C  C4     N4      SING  N  N   8  
47C  C5     C6      DOUB  N  N   9  
47C  N4     O       SING  N  N  10  
47C  "C1'"  "C2'"   SING  N  N  11  
47C  "C1'"  "O4'"   SING  N  N  12  
47C  "C2'"  "C3'"   SING  N  N  13  
47C  CM2    O       SING  N  N  14  
47C  CM2    CD      SING  N  N  15  
47C  "C3'"  "C4'"   SING  N  N  16  
47C  "C3'"  "O3'"   SING  N  N  17  
47C  "C4'"  "O4'"   SING  N  N  18  
47C  "C4'"  "C5'"   SING  N  N  19  
47C  CD     CE      DOUB  N  N  20  
47C  "C5'"  "O5'"   SING  N  N  21  
47C  "O5'"  P       SING  N  N  22  
47C  P      OP1     DOUB  N  N  23  
47C  P      OP2     SING  N  N  24  
47C  P      OP3     SING  N  N  25  
47C  C6     H6      SING  N  N  26  
47C  "C1'"  "H1'"   SING  N  N  27  
47C  C5     H5      SING  N  N  28  
47C  N4     H4      SING  N  N  29  
47C  "C2'"  "H2'1"  SING  N  N  30  
47C  "C2'"  "H2'2"  SING  N  N  31  
47C  "C3'"  "H3'"   SING  N  N  32  
47C  CM2    HM21    SING  N  N  33  
47C  CM2    HM22    SING  N  N  34  
47C  CD     HD      SING  N  N  35  
47C  "C4'"  "H4'"   SING  N  N  36  
47C  "C5'"  "H5'1"  SING  N  N  37  
47C  "C5'"  "H5'2"  SING  N  N  38  
47C  OP2    H2P     SING  N  N  39  
47C  "O3'"  H55     SING  N  N  40  
47C  CE     HE5     SING  N  N  41  
47C  CE     HE6     SING  N  N  42  
47C  OP3    H3P     SING  N  N  43  
#   #
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
47C  SMILES            ACDLabs               10.04  "O=C1N=C(NOC/C=C)C=CN1C2OC(C(O)C2)COP(=O)(O)O"  
47C  SMILES_CANONICAL  CACTVS                3.352  "O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=CC(=NC2=O)NOCC=C"  
47C  SMILES            CACTVS                3.352  "O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)N2C=CC(=NC2=O)NOCC=C"  
47C  SMILES_CANONICAL  "OpenEye OEToolkits"  1.6.1  "C=CCONC1=NC(=O)N(C=C1)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O"  
47C  SMILES            "OpenEye OEToolkits"  1.6.1  "C=CCONC1=NC(=O)N(C=C1)C2CC(C(O2)COP(=O)(O)O)O"  
47C  InChI             InChI                 1.03   "InChI=1S/C12H18N3O8P/c1-2-5-21-14-10-3-4-15(12(17)13-10)11-6-8(16)9(23-11)7-22-24(18,19)20/h2-4,8-9,11,16H,1,5-7H2,(H,13,14,17)(H2,18,19,20)/t8-,9+,11+/m0/s1"  
47C  InChIKey          InChI                 1.03   KSHWPNLXBHANGL-IQJOONFLSA-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
47C  "SYSTEMATIC NAME"  ACDLabs               10.04  "2'-deoxy-N-(prop-2-en-1-yloxy)cytidine 5'-(dihydrogen phosphate)"  
47C  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.6.1  "[(2R,3S,5R)-3-hydroxy-5-[2-oxo-4-(prop-2-enoxyamino)pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen 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
47C  "Create component"        2010-08-10  EBI   
47C  "Modify descriptor"       2011-06-04  RCSB  
47C  "Modify one letter code"  2011-04-29  EBI   
##
