data_8N9
#

_chem_comp.id                                   8N9
_chem_comp.name                                 "2-[(2E)-3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-2-[1,2-bis(oxidanyl)ethylidene]-4-methyl-1,3-thiazol-5-yl]ethyl phosphono hydrogen phosphate"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C14 H22 N4 O9 P2 S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "(E)-2(3-((4-amino-2-methylpyrimidin-5-yl)methyl)-2-(1,2-dihydroxyethylidene)-4-methyl-2,3-dihydrothiazol-5-yl)ethyl trihydrogen diphosphate"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2017-08-09
_chem_comp.pdbx_modified_date                   2021-03-13
_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                       484.358
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    8N9
_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       5XU9
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBJ
#   #
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
8N9  "C4'"  C1   C  0  1  Y  N  N  -12.844  -33.237  -26.002  -5.364  -0.976   0.348  "C4'"  8N9   1  
8N9  "C5'"  C2   C  0  1  Y  N  N  -12.935  -33.388  -27.398  -4.515  -1.211  -0.736  "C5'"  8N9   2  
8N9  "C6'"  C3   C  0  1  Y  N  N  -11.749  -33.452  -28.063  -4.310  -2.517  -1.136  "C6'"  8N9   3  
8N9  "N1'"  N1   N  0  1  Y  N  N  -10.597  -33.433  -27.398  -4.920  -3.497  -0.484  "N1'"  8N9   4  
8N9  "N3'"  N2   N  0  1  Y  N  N  -11.668  -33.215  -25.336  -5.939  -2.012   0.951  "N3'"  8N9   5  
8N9  "C2'"  C4   C  0  1  Y  N  N  -10.595  -33.275  -26.083  -5.714  -3.242   0.535  "C2'"  8N9   6  
8N9  C9     C5   C  0  1  N  N  N  -17.973  -33.294  -25.440  -3.911   3.868   0.721  C9     8N9   7  
8N9  C8     C6   C  0  1  N  N  N  -16.807  -33.236  -26.405  -3.904   2.621  -0.125  C8     8N9   8  
8N9  CM2    C7   C  0  1  N  N  N   -9.227  -33.204  -25.415  -6.386  -4.390   1.245  CM2    8N9   9  
8N9  "C7'"  C8   C  0  1  N  N  N  -14.257  -33.342  -28.183  -3.841  -0.069  -1.451  "C7'"  8N9  10  
8N9  C7     C9   C  0  1  N  N  N  -15.603  -39.041  -27.154   1.705   0.234  -0.084  C7     8N9  11  
8N9  C6     C10  C  0  1  N  N  N  -15.900  -38.126  -28.282   0.606  -0.258   0.860  C6     8N9  12  
8N9  C5     C11  C  0  1  N  N  N  -15.942  -36.601  -27.975  -0.715   0.335   0.444  C5     8N9  13  
8N9  CM4    C12  C  0  1  N  N  N  -13.947  -35.977  -29.481  -1.427  -1.588  -0.911  CM4    8N9  14  
8N9  C4     C13  C  0  1  N  N  N  -14.815  -35.790  -28.375  -1.637  -0.213  -0.331  C4     8N9  15  
8N9  C2     C14  C  0  1  N  N  N  -16.132  -34.449  -26.720  -2.897   1.750  -0.022  C2     8N9  16  
8N9  "N4'"  N3   N  0  1  N  N  N  -13.974  -33.108  -25.174  -5.597   0.315   0.792  "N4'"  8N9  17  
8N9  N3     N4   N  0  1  N  N  N  -15.145  -34.446  -27.943  -2.785   0.485  -0.600  N3     8N9  18  
8N9  O9     O1   O  0  1  N  N  N  -17.014  -33.193  -24.431  -3.801   5.016  -0.122  O9     8N9  19  
8N9  O8     O2   O  0  1  N  N  N  -16.519  -31.957  -26.913  -4.927   2.382  -0.996  O8     8N9  20  
8N9  OB1    O3   O  0  1  N  N  N  -19.122  -41.705  -27.795   7.629  -0.220  -1.028  OB1    8N9  21  
8N9  OB2    O4   O  0  1  N  N  N  -19.996  -40.945  -25.700   7.498   0.779   1.287  OB2    8N9  22  
8N9  OA3    O5   O  0  1  N  N  N  -17.593  -41.050  -25.933   5.559  -0.715   0.328  OA3    8N9  23  
8N9  OA2    O6   O  0  1  N  N  N  -15.994  -42.747  -26.944   4.259  -0.624  -1.955  OA2    8N9  24  
8N9  OB3    O7   O  0  1  N  N  N  -18.919  -43.213  -25.891   7.879  -1.797   0.927  OB3    8N9  25  
8N9  O7     O8   O  0  1  N  N  N  -15.890  -40.369  -27.667   2.958  -0.329   0.311  O7     8N9  26  
8N9  OA1    O9   O  0  1  N  N  N  -15.204  -41.055  -25.257   4.556   1.436  -0.529  OA1    8N9  27  
8N9  PB     P1   P  0  1  N  N  N  -18.955  -41.798  -26.236   7.152  -0.482   0.348  PB     8N9  28  
8N9  PA1    P2   P  0  1  N  N  N  -16.090  -41.378  -26.412   4.338  -0.026  -0.463  PA1    8N9  29  
8N9  S1     S1   S  0  1  N  N  N  -16.842  -35.993  -26.678  -1.381   1.920   0.893  S1     8N9  30  
8N9  H1     H1   H  0  1  N  N  N  -11.743  -33.519  -29.141  -3.660  -2.737  -1.971  H1     8N9  31  
8N9  H2     H2   H  0  1  N  N  N  -18.672  -32.447  -25.504  -4.842   3.919   1.285  H2     8N9  32  
8N9  H3     H3   H  0  1  N  N  N  -18.539  -34.237  -25.451  -3.069   3.843   1.413  H3     8N9  33  
8N9  H5     H5   H  0  1  N  N  N   -8.440  -33.301  -26.178  -5.748  -4.738   2.057  H5     8N9  34  
8N9  H6     H6   H  0  1  N  N  N   -9.121  -32.238  -24.899  -7.341  -4.057   1.650  H6     8N9  35  
8N9  H7     H7   H  0  1  N  N  N   -9.133  -34.022  -24.685  -6.553  -5.205   0.541  H7     8N9  36  
8N9  H8     H8   H  0  1  N  N  N  -14.016  -33.325  -29.256  -3.405  -0.430  -2.382  H8     8N9  37  
8N9  H9     H9   H  0  1  N  N  N  -14.783  -32.415  -27.911  -4.575   0.707  -1.670  H9     8N9  38  
8N9  H10    H10  H  0  1  N  N  N  -14.547  -38.960  -26.857   1.474  -0.075  -1.103  H10    8N9  39  
8N9  H11    H11  H  0  1  N  N  N  -16.245  -38.812  -26.290   1.765   1.321  -0.038  H11    8N9  40  
8N9  H12    H12  H  0  1  N  N  N  -16.883  -38.408  -28.686   0.547  -1.345   0.814  H12    8N9  41  
8N9  H13    H13  H  0  1  N  N  N  -15.128  -38.287  -29.049   0.838   0.051   1.879  H13    8N9  42  
8N9  H15    H15  H  0  1  N  N  N  -13.193  -35.176  -29.495  -0.424  -1.936  -0.666  H15    8N9  43  
8N9  H16    H16  H  0  1  N  N  N  -13.445  -36.952  -29.392  -2.163  -2.275  -0.493  H16    8N9  44  
8N9  H17    H17  H  0  1  N  N  N  -14.530  -35.948  -30.413  -1.543  -1.547  -1.994  H17    8N9  45  
8N9  H20    H20  H  0  1  N  N  N  -13.682  -33.022  -24.222  -6.271   0.480   1.470  H20    8N9  46  
8N9  H21    H21  H  0  1  N  N  N  -14.490  -32.293  -25.439  -5.088   1.054   0.424  H21    8N9  47  
8N9  H23    H23  H  0  1  N  N  N  -17.443  -33.200  -23.584  -3.799   5.857   0.356  H23    8N9  48  
8N9  H24    H24  H  0  1  N  N  N  -17.121  -31.324  -26.539  -5.645   3.027  -0.946  H24    8N9  49  
8N9  H25    H25  H  0  1  N  N  N  -20.493  -40.564  -26.414   7.213   0.676   2.205  H25    8N9  50  
8N9  H26    H26  H  0  1  N  N  N  -19.004  -43.734  -26.681   8.843  -1.728   0.968  H26    8N9  51  
8N9  H4     H4   H  0  1  N  N  N  -15.351  -43.237  -26.445   4.117  -1.580  -1.988  H4     8N9  52  
#   #
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
8N9  CM4    C4     SING  N  N   1  
8N9  C4     C5     DOUB  N  N   2  
8N9  C4     N3     SING  N  N   3  
8N9  C6     C5     SING  N  N   4  
8N9  C6     C7     SING  N  N   5  
8N9  "C7'"  N3     SING  N  N   6  
8N9  "C7'"  "C5'"  SING  N  N   7  
8N9  "C6'"  "C5'"  DOUB  Y  N   8  
8N9  "C6'"  "N1'"  SING  Y  N   9  
8N9  C5     S1     SING  N  N  10  
8N9  N3     C2     SING  N  N  11  
8N9  OB1    PB     DOUB  N  N  12  
8N9  O7     C7     SING  N  N  13  
8N9  O7     PA1    SING  N  N  14  
8N9  "C5'"  "C4'"  SING  Y  N  15  
8N9  "N1'"  "C2'"  DOUB  Y  N  16  
8N9  OA2    PA1    SING  N  N  17  
8N9  O8     C8     SING  N  N  18  
8N9  C2     S1     SING  N  N  19  
8N9  C2     C8     DOUB  N  E  20  
8N9  PA1    OA3    SING  N  N  21  
8N9  PA1    OA1    DOUB  N  N  22  
8N9  C8     C9     SING  N  N  23  
8N9  PB     OA3    SING  N  N  24  
8N9  PB     OB3    SING  N  N  25  
8N9  PB     OB2    SING  N  N  26  
8N9  "C2'"  CM2    SING  N  N  27  
8N9  "C2'"  "N3'"  SING  Y  N  28  
8N9  "C4'"  "N3'"  DOUB  Y  N  29  
8N9  "C4'"  "N4'"  SING  N  N  30  
8N9  C9     O9     SING  N  N  31  
8N9  "C6'"  H1     SING  N  N  32  
8N9  C9     H2     SING  N  N  33  
8N9  C9     H3     SING  N  N  34  
8N9  CM2    H5     SING  N  N  35  
8N9  CM2    H6     SING  N  N  36  
8N9  CM2    H7     SING  N  N  37  
8N9  "C7'"  H8     SING  N  N  38  
8N9  "C7'"  H9     SING  N  N  39  
8N9  C7     H10    SING  N  N  40  
8N9  C7     H11    SING  N  N  41  
8N9  C6     H12    SING  N  N  42  
8N9  C6     H13    SING  N  N  43  
8N9  CM4    H15    SING  N  N  44  
8N9  CM4    H16    SING  N  N  45  
8N9  CM4    H17    SING  N  N  46  
8N9  "N4'"  H20    SING  N  N  47  
8N9  "N4'"  H21    SING  N  N  48  
8N9  O9     H23    SING  N  N  49  
8N9  O8     H24    SING  N  N  50  
8N9  OB2    H25    SING  N  N  51  
8N9  OB3    H26    SING  N  N  52  
8N9  OA2    H4     SING  N  N  53  
#   #
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
8N9  InChI             InChI                 1.03   "InChI=1S/C14H22N4O9P2S/c1-8-12(3-4-26-29(24,25)27-28(21,22)23)30-14(11(20)7-19)18(8)6-10-5-16-9(2)17-13(10)15/h5,19-20H,3-4,6-7H2,1-2H3,(H,24,25)(H2,15,16,17)(H2,21,22,23)/b14-11+"  
8N9  InChIKey          InChI                 1.03   LXZUEFPJZTWGEL-SDNWHVSQSA-N  
8N9  SMILES_CANONICAL  CACTVS                3.385  "Cc1ncc(CN\2C(=C(CCO[P](O)(=O)O[P](O)(O)=O)SC\2=C(O)\CO)C)c(N)n1"  
8N9  SMILES            CACTVS                3.385  "Cc1ncc(CN2C(=C(CCO[P](O)(=O)O[P](O)(O)=O)SC2=C(O)CO)C)c(N)n1"  
8N9  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "Cc1ncc(c(n1)N)CN\2C(=C(S/C2=C(\CO)/O)CCOP(=O)(O)OP(=O)(O)O)C"  
8N9  SMILES            "OpenEye OEToolkits"  2.0.6  "Cc1ncc(c(n1)N)CN2C(=C(SC2=C(CO)O)CCOP(=O)(O)OP(=O)(O)O)C"  
#
_pdbx_chem_comp_identifier.comp_id          8N9
_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-[(2~{E})-3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-2-[1,2-bis(oxidanyl)ethylidene]-4-methyl-1,3-thiazol-5-yl]ethyl phosphono hydrogen 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
8N9  "Create component"  2017-08-09  PDBJ  
8N9  "Modify name"       2017-08-25  PDBJ  
8N9  "Initial release"   2018-06-27  RCSB  
8N9  "Modify synonyms"   2021-03-13  RCSB  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     8N9
_pdbx_chem_comp_synonyms.name        "(E)-2(3-((4-amino-2-methylpyrimidin-5-yl)methyl)-2-(1,2-dihydroxyethylidene)-4-methyl-2,3-dihydrothiazol-5-yl)ethyl trihydrogen diphosphate"
_pdbx_chem_comp_synonyms.provenance  PDB
_pdbx_chem_comp_synonyms.type        ?
##
