data_B8Q
#

_chem_comp.id                                   B8Q
_chem_comp.name                                 "3-methyl, cytidine-5'-monophosphate"
_chem_comp.type                                 "RNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C10 H18 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                   2019-04-29
_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                       339.239
_chem_comp.one_letter_code                      C
_chem_comp.three_letter_code                    B8Q
_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
B8Q  N1     N1   N  0  1  N  N  N  226.264  348.521  210.046  -2.066  -0.108  -0.091  N1     B8Q   1  
B8Q  C2     C1   C  0  1  N  N  N  225.534  347.355  210.346  -3.192  -0.093  -0.817  C2     B8Q   2  
B8Q  C5     C2   C  0  1  N  N  N  227.937  347.194  209.016  -2.713  -1.949   1.235  C5     B8Q   3  
B8Q  "C1'"  C3   C  0  1  N  N  R  225.718  349.834  210.464  -1.040   0.896  -0.379  "C1'"  B8Q   4  
B8Q  "C2'"  C4   C  0  1  N  N  R  225.969  350.127  211.940  -0.856   1.850   0.829  "C2'"  B8Q   5  
B8Q  "C3'"  C5   C  0  1  N  N  S  227.219  350.985  211.851   0.592   2.359   0.623  "C3'"  B8Q   6  
B8Q  C4     C6   C  0  1  N  N  S  227.246  346.031  209.288  -4.004  -1.995   0.445  C4     B8Q   7  
B8Q  "C4'"  C7   C  0  1  N  N  R  226.922  351.825  210.631   1.239   1.297  -0.287  "C4'"  B8Q   8  
B8Q  "C5'"  C8   C  0  1  N  N  N  228.106  352.491  209.990   2.466   0.698   0.404  "C5'"  B8Q   9  
B8Q  C6     C9   C  0  1  N  N  N  227.426  348.421  209.399  -1.826  -1.022   0.923  C6     B8Q  10  
B8Q  C31    C10  C  0  1  N  N  N  225.266  344.889  210.265  -5.401  -0.955  -1.424  C31    B8Q  11  
B8Q  N3     N2   N  0  1  N  N  N  226.027  346.102  209.966  -4.182  -0.985  -0.611  N3     B8Q  12  
B8Q  N4     N3   N  0  1  N  N  N  227.745  344.838  208.908  -5.118  -1.843   1.391  N4     B8Q  13  
B8Q  O2     O1   O  0  1  N  N  N  224.442  347.416  210.941  -3.324   0.747  -1.686  O2     B8Q  14  
B8Q  "O2'"  O2   O  0  1  N  N  N  224.874  350.887  212.419  -1.789   2.931   0.772  "O2'"  B8Q  15  
B8Q  "O3'"  O3   O  0  1  N  N  N  227.506  351.738  213.012   0.587   3.634  -0.022  "O3'"  B8Q  16  
B8Q  "O4'"  O4   O  0  1  N  N  N  226.336  350.865  209.721   0.256   0.274  -0.516  "O4'"  B8Q  17  
B8Q  "O5'"  O5   O  0  1  N  N  N  229.263  351.687  210.124   3.126  -0.199  -0.491  "O5'"  B8Q  18  
B8Q  OP1    O6   O  0  1  N  N  N  230.746  350.180  208.832   4.216  -1.783   1.144  OP1    B8Q  19  
B8Q  OP2    O7   O  0  1  N  N  N  231.401  352.667  209.257   4.850  -2.017  -1.288  OP2    B8Q  20  
B8Q  P      P1   P  0  1  N  N  N  230.358  351.624  208.978   4.459  -1.010  -0.095  P      B8Q  21  
B8Q  H1     H1   H  0  1  N  N  N  228.884  347.146  208.500  -2.519  -2.661   2.024  H1     B8Q  22  
B8Q  H2     H2   H  0  1  N  N  N  224.632  349.843  210.287  -1.296   1.459  -1.276  H2     B8Q  23  
B8Q  H3     H3   H  0  1  N  N  N  226.146  349.205  212.513  -0.948   1.309   1.770  H3     B8Q  24  
B8Q  H4     H4   H  0  1  N  N  N  228.070  350.328  211.618   1.115   2.417   1.577  H4     B8Q  25  
B8Q  H5     H5   H  0  1  N  N  N  226.718  346.118  208.327  -4.086  -2.983  -0.007  H5     B8Q  26  
B8Q  H6     H6   H  0  1  N  N  N  226.178  352.591  210.896   1.532   1.750  -1.234  H6     B8Q  27  
B8Q  H7     H7   H  0  1  N  N  N  228.282  353.462  210.477   3.150   1.498   0.687  H7     B8Q  28  
B8Q  H8     H8   H  0  1  N  N  N  227.897  352.649  208.922   2.152   0.156   1.296  H8     B8Q  29  
B8Q  H9     H9   H  0  1  N  N  N  227.981  349.319  209.169  -0.895  -0.975   1.469  H9     B8Q  30  
B8Q  H10    H10  H  0  1  N  N  N  224.343  345.157  210.800  -6.141  -0.313  -0.945  H10    B8Q  31  
B8Q  H11    H11  H  0  1  N  N  N  225.010  344.376  209.326  -5.167  -0.564  -2.414  H11    B8Q  32  
B8Q  H12    H12  H  0  1  N  N  N  225.873  344.221  210.894  -5.801  -1.965  -1.516  H12    B8Q  33  
B8Q  H13    H13  H  0  1  N  N  N  227.117  344.110  209.185  -5.115  -2.585   2.075  H13    B8Q  34  
B8Q  H14    H14  H  0  1  N  N  N  227.854  344.824  207.914  -5.092  -0.939   1.838  H14    B8Q  35  
B8Q  H16    H16  H  0  1  N  N  N  225.004  351.085  213.339  -1.714   3.556   1.506  H16    B8Q  36  
B8Q  H17    H17  H  0  1  N  N  N  227.682  351.149  213.736   0.139   4.328   0.482  H17    B8Q  37  
B8Q  H19    H19  H  0  1  N  N  N  232.255  352.255  209.313   5.645  -2.540  -1.118  H19    B8Q  38  
B8Q  OP3    OP3  O  0  1  N  N  N  229.558  352.050  207.656   5.666   0.027   0.149  OP3    B8Q  39  
B8Q  H15    H15  H  0  1  N  N  N  229.500  351.307  207.067   5.881   0.569  -0.623  H15    B8Q  40  
#   #
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
B8Q  OP1    P      DOUB  N  N   1  
B8Q  N4     C4     SING  N  N   2  
B8Q  P      OP2    SING  N  N   3  
B8Q  P      "O5'"  SING  N  N   4  
B8Q  C5     C4     SING  N  N   5  
B8Q  C5     C6     DOUB  N  N   6  
B8Q  C4     N3     SING  N  N   7  
B8Q  C6     N1     SING  N  N   8  
B8Q  "O4'"  "C1'"  SING  N  N   9  
B8Q  "O4'"  "C4'"  SING  N  N  10  
B8Q  N3     C31    SING  N  N  11  
B8Q  N3     C2     SING  N  N  12  
B8Q  "C5'"  "O5'"  SING  N  N  13  
B8Q  "C5'"  "C4'"  SING  N  N  14  
B8Q  N1     C2     SING  N  N  15  
B8Q  N1     "C1'"  SING  N  N  16  
B8Q  C2     O2     DOUB  N  N  17  
B8Q  "C1'"  "C2'"  SING  N  N  18  
B8Q  "C4'"  "C3'"  SING  N  N  19  
B8Q  "C3'"  "C2'"  SING  N  N  20  
B8Q  "C3'"  "O3'"  SING  N  N  21  
B8Q  "C2'"  "O2'"  SING  N  N  22  
B8Q  C5     H1     SING  N  N  23  
B8Q  "C1'"  H2     SING  N  N  24  
B8Q  "C2'"  H3     SING  N  N  25  
B8Q  "C3'"  H4     SING  N  N  26  
B8Q  C4     H5     SING  N  N  27  
B8Q  "C4'"  H6     SING  N  N  28  
B8Q  "C5'"  H7     SING  N  N  29  
B8Q  "C5'"  H8     SING  N  N  30  
B8Q  C6     H9     SING  N  N  31  
B8Q  C31    H10    SING  N  N  32  
B8Q  C31    H11    SING  N  N  33  
B8Q  C31    H12    SING  N  N  34  
B8Q  N4     H13    SING  N  N  35  
B8Q  N4     H14    SING  N  N  36  
B8Q  "O2'"  H16    SING  N  N  37  
B8Q  "O3'"  H17    SING  N  N  38  
B8Q  OP2    H19    SING  N  N  39  
B8Q  P      OP3    SING  N  N  40  
B8Q  OP3    H15    SING  N  N  41  
#   #
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
B8Q  InChI             InChI                 1.03   "InChI=1S/C10H18N3O8P/c1-12-6(11)2-3-13(10(12)16)9-8(15)7(14)5(21-9)4-20-22(17,18)19/h2-3,5-9,14-15H,4,11H2,1H3,(H2,17,18,19)/t5-,6+,7-,8-,9-/m1/s1"  
B8Q  InChIKey          InChI                 1.03   HUUPYGHSEPUDJF-ANZWQOBJSA-N  
B8Q  SMILES_CANONICAL  CACTVS                3.385  "CN1[C@H](N)C=CN([C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2O)C1=O"  
B8Q  SMILES            CACTVS                3.385  "CN1[CH](N)C=CN([CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2O)C1=O"  
B8Q  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "CN1C(C=CN(C1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O)N"  
B8Q  SMILES            "OpenEye OEToolkits"  2.0.6  "CN1C(C=CN(C1=O)C2C(C(C(O2)COP(=O)(O)O)O)O)N"  
#
_pdbx_chem_comp_identifier.comp_id          B8Q
_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-methyl-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
B8Q  "Create component"        2017-09-25  EBI  
B8Q  "Modify linking type"     2017-09-25  EBI  
B8Q  "Modify one letter code"  2019-04-29  EBI  
##
