data_E3C
#

_chem_comp.id                                   E3C
_chem_comp.name                                 "3-ethyl, cytidine-5'-monophosphate"
_chem_comp.type                                 "RNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C11 H20 N3 O8 P"
_chem_comp.mon_nstd_parent_comp_id              C
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2017-09-25
_chem_comp.pdbx_modified_date                   2019-05-02
_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                       353.266
_chem_comp.one_letter_code                      C
_chem_comp.three_letter_code                    E3C
_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       6EK0
_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
E3C  "C1'"  C1   C  0  1  N  N  R  346.635  180.376  284.820  -0.801  -1.000   0.331  "C1'"  E3C   1  
E3C  C2     C2   C  0  1  N  N  N  345.850  182.031  286.654  -2.989  -0.025   0.585  C2     E3C   2  
E3C  "C2'"  C3   C  0  1  N  N  R  345.526  179.336  284.647  -0.520  -2.066  -0.758  "C2'"  E3C   3  
E3C  "C3'"  C4   C  0  1  N  N  S  344.478  180.150  283.904   0.931  -2.492  -0.429  "C3'"  E3C   4  
E3C  C4     C5   C  0  1  N  N  S  346.773  181.673  288.858  -3.815   1.671  -0.935  C4     E3C   5  
E3C  "C4'"  C6   C  0  1  N  N  R  345.349  180.971  282.975   1.492  -1.317   0.394  "C4'"  E3C   6  
E3C  C5     C7   C  0  1  N  N  N  347.481  180.600  288.363  -2.498   1.568  -1.675  C5     E3C   7  
E3C  "C5'"  C8   C  0  1  N  N  N  344.722  182.159  282.289   2.731  -0.739  -0.293  "C5'"  E3C   8  
E3C  C6     C9   C  0  1  N  N  N  347.384  180.258  287.032  -1.598   0.712  -1.226  C6     E3C   9  
E3C  N1     N1   N  0  1  N  N  N  346.622  180.943  286.186  -1.845  -0.072  -0.111  N1     E3C  10  
E3C  N3     N2   N  0  1  N  N  N  345.939  182.431  288.000  -3.996   0.802   0.240  N3     E3C  11  
E3C  N4     N3   N  0  1  N  N  N  346.947  181.915  290.167  -4.893   1.373  -1.888  N4     E3C  12  
E3C  O2     O1   O  0  1  N  N  N  345.103  182.695  285.909  -3.125  -0.753   1.550  O2     E3C  13  
E3C  "O2'"  O2   O  0  1  N  N  N  346.019  178.287  283.828  -1.418  -3.171  -0.634  "O2'"  E3C  14  
E3C  "O3'"  O3   O  0  1  N  N  N  343.507  179.364  283.239   0.936  -3.695   0.342  "O3'"  E3C  15  
E3C  "O4'"  O4   O  0  1  N  N  N  346.440  181.376  283.838   0.463  -0.315   0.471  "O4'"  E3C  16  
E3C  "O5'"  O5   O  0  1  N  N  N  343.900  182.930  283.145   3.302   0.279   0.531  "O5'"  E3C  17  
E3C  OP1    O6   O  0  1  N  N  N  342.403  184.881  283.682   5.722   0.161  -0.176  OP1    E3C  18  
E3C  OP2    O7   O  0  1  N  N  N  342.267  183.676  281.378   4.311   1.992  -1.189  OP2    E3C  19  
E3C  P      P1   P  0  1  N  N  N  343.088  184.162  282.547   4.621   1.105   0.118  P      E3C  20  
E3C  C31    C10  C  0  1  N  N  N  345.098  183.579  288.404  -5.239   0.836   1.014  C31    E3C  21  
E3C  C32    C11  C  0  1  N  N  N  345.708  184.760  289.131  -5.116   1.876   2.130  C32    E3C  22  
E3C  H1     H1   H  0  1  N  N  N  347.601  179.877  284.653  -1.084  -1.476   1.270  H1     E3C  23  
E3C  H2     H2   H  0  1  N  N  N  345.150  178.985  285.619  -0.581  -1.628  -1.755  H2     E3C  24  
E3C  H3     H3   H  0  1  N  N  N  343.989  180.828  284.619   1.507  -2.625  -1.345  H3     E3C  25  
E3C  H4     H4   H  0  1  N  N  N  345.929  181.008  289.093  -3.936   2.704  -0.610  H4     E3C  26  
E3C  H5     H5   H  0  1  N  N  N  345.743  180.299  282.198   1.749  -1.662   1.396  H5     E3C  27  
E3C  H6     H6   H  0  1  N  N  N  348.115  180.024  289.021  -2.300   2.177  -2.545  H6     E3C  28  
E3C  H7     H7   H  0  1  N  N  N  345.525  182.803  281.903   3.463  -1.532  -0.451  H7     E3C  29  
E3C  H8     H8   H  0  1  N  N  N  344.109  181.795  281.451   2.447  -0.311  -1.255  H8     E3C  30  
E3C  H9     H9   H  0  1  N  N  N  347.943  179.409  286.666  -0.651   0.622  -1.738  H9     E3C  31  
E3C  H10    H10  H  0  1  N  N  N  347.581  181.243  290.549  -4.849   1.987  -2.688  H10    E3C  32  
E3C  H11    H11  H  0  1  N  N  N  347.322  182.834  290.289  -4.866   0.405  -2.173  H11    E3C  33  
E3C  H13    H13  H  0  1  N  N  N  346.671  177.790  284.308  -1.282  -3.864  -1.294  H13    E3C  34  
E3C  H14    H14  H  0  1  N  N  N  343.000  178.878  283.879   0.541  -4.453  -0.109  H14    E3C  35  
E3C  H16    H16  H  0  1  N  N  N  341.354  183.902  281.516   3.598   2.634  -1.069  H16    E3C  36  
E3C  H17    H17  H  0  1  N  N  N  344.643  183.976  287.484  -6.068   1.103   0.359  H17    E3C  37  
E3C  H18    H18  H  0  1  N  N  N  344.311  183.178  289.059  -5.422  -0.145   1.451  H18    E3C  38  
E3C  H19    H19  H  0  1  N  N  N  344.926  185.504  289.343  -4.287   1.610   2.785  H19    E3C  39  
E3C  H20    H20  H  0  1  N  N  N  346.154  184.418  290.076  -4.934   2.858   1.693  H20    E3C  40  
E3C  H21    H21  H  0  1  N  N  N  346.487  185.215  288.502  -6.041   1.901   2.706  H21    E3C  41  
E3C  OP3    OP3  O  0  1  N  N  N  344.232  185.132  281.974   5.052   2.071   1.332  OP3    E3C  42  
E3C  H12    H12  H  0  1  N  N  N  344.235  185.945  282.466   5.841   2.600   1.152  H12    E3C  43  
#   #
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
E3C  OP2    P      SING  N  N   1  
E3C  "C5'"  "C4'"  SING  N  N   2  
E3C  "C5'"  "O5'"  SING  N  N   3  
E3C  P      "O5'"  SING  N  N   4  
E3C  P      OP1    DOUB  N  N   5  
E3C  "C4'"  "O4'"  SING  N  N   6  
E3C  "C4'"  "C3'"  SING  N  N   7  
E3C  "O3'"  "C3'"  SING  N  N   8  
E3C  "O2'"  "C2'"  SING  N  N   9  
E3C  "O4'"  "C1'"  SING  N  N  10  
E3C  "C3'"  "C2'"  SING  N  N  11  
E3C  "C2'"  "C1'"  SING  N  N  12  
E3C  "C1'"  N1     SING  N  N  13  
E3C  O2     C2     DOUB  N  N  14  
E3C  N1     C2     SING  N  N  15  
E3C  N1     C6     SING  N  N  16  
E3C  C2     N3     SING  N  N  17  
E3C  C6     C5     DOUB  N  N  18  
E3C  N3     C31    SING  N  N  19  
E3C  N3     C4     SING  N  N  20  
E3C  C5     C4     SING  N  N  21  
E3C  C31    C32    SING  N  N  22  
E3C  C4     N4     SING  N  N  23  
E3C  "C1'"  H1     SING  N  N  24  
E3C  "C2'"  H2     SING  N  N  25  
E3C  "C3'"  H3     SING  N  N  26  
E3C  C4     H4     SING  N  N  27  
E3C  "C4'"  H5     SING  N  N  28  
E3C  C5     H6     SING  N  N  29  
E3C  "C5'"  H7     SING  N  N  30  
E3C  "C5'"  H8     SING  N  N  31  
E3C  C6     H9     SING  N  N  32  
E3C  N4     H10    SING  N  N  33  
E3C  N4     H11    SING  N  N  34  
E3C  "O2'"  H13    SING  N  N  35  
E3C  "O3'"  H14    SING  N  N  36  
E3C  OP2    H16    SING  N  N  37  
E3C  C31    H17    SING  N  N  38  
E3C  C31    H18    SING  N  N  39  
E3C  C32    H19    SING  N  N  40  
E3C  C32    H20    SING  N  N  41  
E3C  C32    H21    SING  N  N  42  
E3C  P      OP3    SING  N  N  43  
E3C  OP3    H12    SING  N  N  44  
#   #
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
E3C  InChI             InChI                 1.03   "InChI=1S/C11H20N3O8P/c1-2-13-7(12)3-4-14(11(13)17)10-9(16)8(15)6(22-10)5-21-23(18,19)20/h3-4,6-10,15-16H,2,5,12H2,1H3,(H2,18,19,20)/t6-,7?,8-,9-,10-/m1/s1"  
E3C  InChIKey          InChI                 1.03   PFBPABKTMDMXDL-HXURKHJASA-N  
E3C  SMILES_CANONICAL  CACTVS                3.385  "CCN1[C@H](N)C=CN([C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2O)C1=O"  
E3C  SMILES            CACTVS                3.385  "CCN1[CH](N)C=CN([CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2O)C1=O"  
E3C  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "CCN1C(C=CN(C1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O)N"  
E3C  SMILES            "OpenEye OEToolkits"  2.0.6  "CCN1C(C=CN(C1=O)C2C(C(C(O2)COP(=O)(O)O)O)O)N"  
#
_pdbx_chem_comp_identifier.comp_id          E3C
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  2.0.6
_pdbx_chem_comp_identifier.identifier       "[(2~{R},3~{S},4~{R},5~{R})-5-(4-azanyl-3-ethyl-2-oxidanylidene-4~{H}-pyrimidin-1-yl)-3,4-bis(oxidanyl)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
E3C  "Create component"        2017-09-25  EBI   
E3C  "Initial release"         2018-01-24  RCSB  
E3C  "Modify one letter code"  2019-05-02  EBI   
##
