data_B8T
#

_chem_comp.id                                   B8T
_chem_comp.name                                 "4-methyl, cytidine-5'-monophosphate"
_chem_comp.type                                 "RNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C10 H16 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                       337.223
_chem_comp.one_letter_code                      C
_chem_comp.three_letter_code                    B8T
_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
B8T  N1     N1   N  0  1  N  N  N  283.719  245.797  228.668  -2.200   0.364  -0.594  N1     B8T   1  
B8T  C2     C1   C  0  1  N  N  N  283.483  245.026  227.530  -2.382  -0.384   0.510  C2     B8T   2  
B8T  N3     N2   N  0  1  N  N  N  282.907  243.819  227.641  -3.480  -1.122   0.667  N3     B8T   3  
B8T  C4     C2   C  0  1  N  N  N  282.538  243.329  228.827  -4.425  -1.137  -0.264  C4     B8T   4  
B8T  C5     C3   C  0  1  N  N  N  282.758  244.075  229.960  -4.265  -0.363  -1.431  C5     B8T   5  
B8T  C6     C4   C  0  1  N  N  N  283.350  245.313  229.849  -3.143   0.381  -1.577  C6     B8T   6  
B8T  O2     O1   O  0  1  N  N  N  283.813  245.448  226.408  -1.527  -0.388   1.380  O2     B8T   7  
B8T  "C1'"  C5   C  0  1  N  N  R  284.333  247.134  228.526  -0.984   1.169  -0.736  "C1'"  B8T   8  
B8T  "C2'"  C6   C  0  1  N  N  R  283.298  248.187  228.130  -0.900   2.219   0.394  "C2'"  B8T   9  
B8T  "C3'"  C7   C  0  1  N  N  S  282.974  248.805  229.478   0.606   2.282   0.736  "C3'"  B8T  10  
B8T  "C4'"  C8   C  0  1  N  N  R  284.321  248.801  230.160   1.252   1.262  -0.227  "C4'"  B8T  11  
B8T  C41    C9   C  0  1  N  N  N  281.249  241.702  230.096  -5.716  -2.705   1.125  C41    B8T  12  
B8T  "C5'"  C10  C  0  1  N  N  N  284.287  248.917  231.661   2.395   0.521   0.471  "C5'"  B8T  13  
B8T  N4     N3   N  0  1  N  N  N  281.968  242.117  228.905  -5.554  -1.902  -0.090  N4     B8T  14  
B8T  "O2'"  O2   O  0  1  N  N  N  283.926  249.134  227.289  -1.361   3.490  -0.069  "O2'"  B8T  15  
B8T  "O3'"  O3   O  0  1  N  N  N  282.387  250.084  229.409   1.120   3.593   0.496  "O3'"  B8T  16  
B8T  "O4'"  O4   O  0  1  N  N  N  284.883  247.527  229.765   0.188   0.344  -0.562  "O4'"  B8T  17  
B8T  "O5'"  O5   O  0  1  N  N  N  283.184  248.217  232.208   3.053  -0.332  -0.468  "O5'"  B8T  18  
B8T  OP1    O6   O  0  1  N  N  N  282.435  246.350  233.659   3.940  -2.131   1.064  OP1    B8T  19  
B8T  OP2    O7   O  0  1  N  N  N  283.004  248.700  234.657   4.708  -2.180  -1.339  OP2    B8T  20  
B8T  P      P1   P  0  1  N  N  N  283.263  247.603  233.666   4.306  -1.264  -0.078  P      B8T  21  
B8T  OP3    O8   O  0  1  N  Y  N  284.797  247.170  233.811   5.557  -0.337   0.332  OP3    B8T  22  
B8T  H1     H1   H  0  1  N  N  N  282.469  243.694  230.928  -5.026  -0.364  -2.198  H1     B8T  23  
B8T  H2     H2   H  0  1  N  N  N  283.518  245.902  230.739  -2.998   0.982  -2.463  H2     B8T  24  
B8T  H3     H3   H  0  1  N  N  N  285.115  247.098  227.753  -0.964   1.656  -1.711  H3     B8T  25  
B8T  H4     H4   H  0  1  N  N  N  282.410  247.724  227.674  -1.476   1.895   1.260  H4     B8T  26  
B8T  H5     H5   H  0  1  N  N  N  282.308  248.119  230.021   0.774   1.988   1.773  H5     B8T  27  
B8T  H6     H6   H  0  1  N  N  N  284.931  249.620  229.751   1.618   1.765  -1.122  H6     B8T  28  
B8T  H7     H7   H  0  1  N  N  N  280.862  240.682  229.955  -5.705  -2.051   1.997  H7     B8T  29  
B8T  H8     H8   H  0  1  N  N  N  281.930  241.720  230.960  -6.665  -3.240   1.084  H8     B8T  30  
B8T  H9     H9   H  0  1  N  N  N  280.410  242.390  230.276  -4.898  -3.422   1.198  H9     B8T  31  
B8T  H10    H10  H  0  1  N  N  N  285.217  248.499  232.074   3.108   1.243   0.868  H10    B8T  32  
B8T  H11    H11  H  0  1  N  N  N  284.209  249.979  231.936   1.993  -0.080   1.287  H11    B8T  33  
B8T  H12    H12  H  0  1  N  N  N  282.040  241.489  228.130  -6.244  -1.911  -0.772  H12    B8T  34  
B8T  H13    H13  H  0  1  N  N  N  283.296  249.797  227.033  -1.330   4.188   0.601  H13    B8T  35  
B8T  H14    H14  H  0  1  N  N  N  282.215  250.402  230.288   0.705   4.283   1.032  H14    B8T  36  
B8T  H15    H15  H  0  1  N  N  N  282.279  248.455  235.219   5.457  -2.768  -1.176  H15    B8T  37  
B8T  H16    H16  H  0  1  N  N  N  284.856  246.223  233.861   5.853   0.259  -0.370  H16    B8T  38  
#   #
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
B8T  O2     C2     DOUB  N  N   1  
B8T  "O2'"  "C2'"  SING  N  N   2  
B8T  C2     N3     SING  N  N   3  
B8T  C2     N1     SING  N  N   4  
B8T  N3     C4     DOUB  N  N   5  
B8T  "C2'"  "C1'"  SING  N  N   6  
B8T  "C2'"  "C3'"  SING  N  N   7  
B8T  "C1'"  N1     SING  N  N   8  
B8T  "C1'"  "O4'"  SING  N  N   9  
B8T  N1     C6     SING  N  N  10  
B8T  C4     N4     SING  N  N  11  
B8T  C4     C5     SING  N  N  12  
B8T  N4     C41    SING  N  N  13  
B8T  "O3'"  "C3'"  SING  N  N  14  
B8T  "C3'"  "C4'"  SING  N  N  15  
B8T  "O4'"  "C4'"  SING  N  N  16  
B8T  C6     C5     DOUB  N  N  17  
B8T  "C4'"  "C5'"  SING  N  N  18  
B8T  "C5'"  "O5'"  SING  N  N  19  
B8T  "O5'"  P      SING  N  N  20  
B8T  OP1    P      DOUB  N  N  21  
B8T  P      OP2    SING  N  N  22  
B8T  P      OP3    SING  N  N  23  
B8T  C5     H1     SING  N  N  24  
B8T  C6     H2     SING  N  N  25  
B8T  "C1'"  H3     SING  N  N  26  
B8T  "C2'"  H4     SING  N  N  27  
B8T  "C3'"  H5     SING  N  N  28  
B8T  "C4'"  H6     SING  N  N  29  
B8T  C41    H7     SING  N  N  30  
B8T  C41    H8     SING  N  N  31  
B8T  C41    H9     SING  N  N  32  
B8T  "C5'"  H10    SING  N  N  33  
B8T  "C5'"  H11    SING  N  N  34  
B8T  N4     H12    SING  N  N  35  
B8T  "O2'"  H13    SING  N  N  36  
B8T  "O3'"  H14    SING  N  N  37  
B8T  OP2    H15    SING  N  N  38  
B8T  OP3    H16    SING  N  N  39  
#   #
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
B8T  InChI             InChI                 1.03   "InChI=1S/C10H16N3O8P/c1-11-6-2-3-13(10(16)12-6)9-8(15)7(14)5(21-9)4-20-22(17,18)19/h2-3,5,7-9,14-15H,4H2,1H3,(H,11,12,16)(H2,17,18,19)/t5-,7-,8-,9-/m1/s1"  
B8T  InChIKey          InChI                 1.03   GTYSZZKMWYKWQR-ZOQUXTDFSA-N  
B8T  SMILES_CANONICAL  CACTVS                3.385  "CNC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2O"  
B8T  SMILES            CACTVS                3.385  "CNC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2O"  
B8T  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "CNC1=NC(=O)N(C=C1)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O"  
B8T  SMILES            "OpenEye OEToolkits"  2.0.6  "CNC1=NC(=O)N(C=C1)C2C(C(C(O2)COP(=O)(O)O)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          B8T
_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-(methylamino)-2-oxidanylidene-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
B8T  "Create component"        2017-09-25  EBI   
B8T  "Initial release"         2018-01-24  RCSB  
B8T  "Modify one letter code"  2019-05-02  EBI   
##
