data_C06
#

_chem_comp.id                                   C06
_chem_comp.name                                 "[[(2S,3R,4S,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2S,3S,4S,5R,6R)-6-methyl-3,4,5-tris(oxidanyl)oxan-2-yl] hydrogen phosphate"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C16 H25 N5 O15 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-04-02
_chem_comp.pdbx_modified_date                   2019-06-21
_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                       589.342
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    C06
_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       5ZOI
_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
C06  O3   O1   O  0  1  N  N  N   3.572  -22.653   6.217  -4.438   2.508   0.418  O3   C06   1  
C06  C4   C1   C  0  1  N  N  S   1.917  -25.999   8.869  -6.227  -0.908  -1.325  C4   C06   2  
C06  C5   C2   C  0  1  N  N  S   2.924  -25.268   7.979  -5.697  -0.320  -0.014  C5   C06   3  
C06  O4   O2   O  0  1  N  N  N   5.599  -23.656   7.564  -2.147   1.498   0.099  O4   C06   4  
C06  C6   C3   C  0  1  N  N  N   8.724  -25.253   9.408   1.569   2.943  -0.053  C6   C06   5  
C06  N1   N1   N  0  1  Y  N  N  14.603  -28.888   9.670   4.645  -2.380  -1.223  N1   C06   6  
C06  C7   C4   C  0  1  N  N  S   9.937  -25.885   8.720   2.772   2.137  -0.549  C7   C06   7  
C06  C8   C5   C  0  1  N  N  R  10.725  -24.924   7.816   4.061   2.994  -0.474  C8   C06   8  
C06  N2   N2   N  0  1  N  N  N  11.650  -28.865   7.788   6.908  -1.079   1.078  N2   C06   9  
C06  C9   C6   C  0  1  N  N  S  12.119  -25.520   7.832   5.145   1.887  -0.372  C9   C06  10  
C06  O5   O3   O  0  1  N  N  N   5.619  -25.031   9.682  -1.037   3.141   1.661  O5   C06  11  
C06  C10  C7   C  0  1  N  N  R  12.226  -26.122   9.231   4.423   0.795   0.447  C10  C06  12  
C06  O6   O4   O  0  1  N  N  N   6.737  -22.767   9.764  -1.496   3.918  -0.697  O6   C06  13  
C06  C11  C8   C  0  1  Y  N  N  14.173  -27.619   9.892   4.048  -1.250  -0.984  C11  C06  14  
C06  C12  C9   C  0  1  Y  N  N  13.712  -29.490   8.864   5.780  -2.453  -0.485  C12  C06  15  
C06  N3   N3   N  0  1  N  N  N  12.480  -31.079   7.451   7.818  -3.159   0.510  N3   C06  16  
C06  C13  C10  C  0  1  Y  N  N  12.674  -28.501   8.586   5.870  -1.269   0.256  C13  C06  17  
C06  O7   O5   O  0  1  N  N  N   7.798  -24.774   8.432   0.384   2.154  -0.177  O7   C06  18  
C06  C14  C11  C  0  1  N  N  N  11.513  -30.108   7.212   7.850  -1.987   1.204  C14  C06  19  
C06  O8   O6   O  0  1  N  N  N  10.886  -26.355   9.687   3.014   1.018   0.318  O8   C06  20  
C06  C15  C12  C  0  1  N  N  N  13.573  -30.829   8.250   6.800  -3.422  -0.340  C15  C06  21  
C06  N4   N4   N  0  1  N  N  N  10.383  -30.338   6.398   8.896  -1.747   2.059  N4   C06  22  
C06  N    N5   N  0  1  Y  N  N  13.014  -27.388   9.240   4.767  -0.529  -0.076  N    C06  23  
C06  C    C13  C  0  1  N  N  N   1.279  -26.116   4.700  -7.122  -2.752   2.427  C    C06  24  
C06  O    O7   O  0  1  N  N  N   2.441  -25.177   6.632  -5.798  -1.299   1.021  O    C06  25  
C06  P    P1   P  0  1  N  N  N   4.155  -22.953   7.687  -3.650   1.273   0.629  P    C06  26  
C06  P1   P2   P  0  1  N  N  N   6.419  -24.077   8.884  -1.073   2.688   0.252  P1   C06  27  
C06  C1   C14  C  0  1  N  N  R   1.552  -26.223   6.203  -7.134  -1.731   1.288  C1   C06  28  
C06  O1   O8   O  0  1  N  N  N   3.161  -23.950   8.470  -4.329   0.058  -0.181  O1   C06  29  
C06  C2   C15  C  0  1  N  N  R   0.242  -26.134   6.988  -7.722  -2.375   0.030  C2   C06  30  
C06  O2   O9   O  0  1  N  N  N   4.282  -21.686   8.440  -3.618   0.919   2.199  O2   C06  31  
C06  C3   C16  C  0  1  N  N  S   0.484  -25.670   8.430  -7.675  -1.365  -1.122  C3   C06  32  
C06  O9   O10  O  0  1  N  N  N  14.509  -31.640   8.532   6.762  -4.467  -0.966  O9   C06  33  
C06  O10  O11  O  0  1  N  N  N  12.262  -26.509   6.803   5.497   1.400  -1.668  O10  C06  34  
C06  O11  O12  O  0  1  N  N  N  10.220  -24.775   6.475   4.231   3.774  -1.659  O11  C06  35  
C06  O12  O13  O  0  1  N  N  N   2.140  -25.691  10.261  -5.422  -2.025  -1.707  O12  C06  36  
C06  O13  O14  O  0  1  N  N  N   0.214  -24.266   8.610  -8.154  -1.983  -2.319  O13  C06  37  
C06  O14  O15  O  0  1  N  N  N  -0.730  -25.313   6.312  -6.957  -3.531  -0.317  O14  C06  38  
C06  H1   H1   H  0  1  N  N  N   2.067  -27.079   8.721  -6.191  -0.148  -2.106  H1   C06  39  
C06  H2   H2   H  0  1  N  N  N   3.865  -25.837   7.990  -6.286   0.557   0.256  H2   C06  40  
C06  H3   H3   H  0  1  N  N  N   9.058  -24.413  10.035   1.719   3.212   0.993  H3   C06  41  
C06  H4   H4   H  0  1  N  N  N   8.230  -26.007  10.038   1.467   3.849  -0.650  H4   C06  42  
C06  H5   H5   H  0  1  N  N  N   9.587  -26.728   8.106   2.602   1.795  -1.570  H5   C06  43  
C06  H6   H6   H  0  1  N  N  N  10.760  -23.940   8.307   4.061   3.626   0.414  H6   C06  44  
C06  H7   H7   H  0  1  N  N  N  12.866  -24.721   7.716   6.024   2.252   0.159  H7   C06  45  
C06  H8   H8   H  0  1  N  N  N  12.719  -25.390   9.888   4.715   0.866   1.495  H8   C06  46  
C06  H9   H9   H  0  1  N  N  N   6.348  -22.862  10.626  -1.540   3.693  -1.636  H9   C06  47  
C06  H10  H10  H  0  1  N  N  N  14.688  -26.894  10.506   3.121  -0.929  -1.437  H10  C06  48  
C06  H11  H11  H  0  1  N  N  N  12.379  -31.981   7.032   8.529  -3.808   0.625  H11  C06  49  
C06  H12  H12  H  0  1  N  N  N   9.713  -29.609   6.255   9.599  -2.408   2.163  H12  C06  50  
C06  H13  H13  H  0  1  N  N  N  10.252  -31.229   5.964   8.933  -0.918   2.560  H13  C06  51  
C06  H14  H14  H  0  1  N  N  N   0.598  -26.923   4.392  -6.703  -2.293   3.322  H14  C06  52  
C06  H15  H15  H  0  1  N  N  N   0.816  -25.143   4.480  -8.141  -3.081   2.631  H15  C06  53  
C06  H16  H16  H  0  1  N  N  N   2.226  -26.205   4.148  -6.515  -3.610   2.139  H16  C06  54  
C06  H17  H17  H  0  1  N  N  N   2.011  -27.203   6.403  -7.742  -0.873   1.576  H17  C06  55  
C06  H18  H18  H  0  1  N  N  N  -0.162  -27.155   7.048  -8.756  -2.665   0.219  H18  C06  56  
C06  H19  H19  H  0  1  N  N  N   3.992  -20.963   7.896  -3.118   0.119   2.412  H19  C06  57  
C06  H20  H20  H  0  1  N  N  N  -0.197  -26.242   9.077  -8.300  -0.506  -0.880  H20  C06  58  
C06  H21  H21  H  0  1  N  N  N  13.140  -26.870   6.830   5.874   2.072  -2.252  H21  C06  59  
C06  H22  H22  H  0  1  N  N  N   9.348  -24.400   6.504   5.075   4.243  -1.703  H22  C06  60  
C06  H23  H23  H  0  1  N  N  N   1.505  -26.155  10.794  -4.491  -1.808  -1.851  H23  C06  61  
C06  H24  H24  H  0  1  N  N  N   0.377  -24.025   9.514  -8.153  -1.400  -3.090  H24  C06  62  
C06  H25  H25  H  0  1  N  N  N  -1.529  -25.280   6.825  -6.939  -4.211   0.370  H25  C06  63  
#   #
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
C06  C    C1   SING  N  N   1  
C06  C1   O    SING  N  N   2  
C06  C1   C2   SING  N  N   3  
C06  O3   P    DOUB  N  N   4  
C06  O14  C2   SING  N  N   5  
C06  N4   C14  SING  N  N   6  
C06  O11  C8   SING  N  N   7  
C06  O    C5   SING  N  N   8  
C06  O10  C9   SING  N  N   9  
C06  C2   C3   SING  N  N  10  
C06  C14  N3   SING  N  N  11  
C06  C14  N2   DOUB  N  N  12  
C06  N3   C15  SING  N  N  13  
C06  O4   P    SING  N  N  14  
C06  O4   P1   SING  N  N  15  
C06  P    O2   SING  N  N  16  
C06  P    O1   SING  N  N  17  
C06  N2   C13  SING  N  N  18  
C06  C8   C9   SING  N  N  19  
C06  C8   C7   SING  N  N  20  
C06  C9   C10  SING  N  N  21  
C06  C5   O1   SING  N  N  22  
C06  C5   C4   SING  N  N  23  
C06  C15  O9   DOUB  N  N  24  
C06  C15  C12  SING  N  N  25  
C06  C3   O13  SING  N  N  26  
C06  C3   C4   SING  N  N  27  
C06  O7   P1   SING  N  N  28  
C06  O7   C6   SING  N  N  29  
C06  C13  C12  DOUB  Y  N  30  
C06  C13  N    SING  Y  N  31  
C06  C7   C6   SING  N  N  32  
C06  C7   O8   SING  N  N  33  
C06  C12  N1   SING  Y  N  34  
C06  C4   O12  SING  N  N  35  
C06  P1   O5   DOUB  N  N  36  
C06  P1   O6   SING  N  N  37  
C06  C10  N    SING  N  N  38  
C06  C10  O8   SING  N  N  39  
C06  N    C11  SING  Y  N  40  
C06  N1   C11  DOUB  Y  N  41  
C06  C4   H1   SING  N  N  42  
C06  C5   H2   SING  N  N  43  
C06  C6   H3   SING  N  N  44  
C06  C6   H4   SING  N  N  45  
C06  C7   H5   SING  N  N  46  
C06  C8   H6   SING  N  N  47  
C06  C9   H7   SING  N  N  48  
C06  C10  H8   SING  N  N  49  
C06  O6   H9   SING  N  N  50  
C06  C11  H10  SING  N  N  51  
C06  N3   H11  SING  N  N  52  
C06  N4   H12  SING  N  N  53  
C06  N4   H13  SING  N  N  54  
C06  C    H14  SING  N  N  55  
C06  C    H15  SING  N  N  56  
C06  C    H16  SING  N  N  57  
C06  C1   H17  SING  N  N  58  
C06  C2   H18  SING  N  N  59  
C06  O2   H19  SING  N  N  60  
C06  C3   H20  SING  N  N  61  
C06  O10  H21  SING  N  N  62  
C06  O11  H22  SING  N  N  63  
C06  O12  H23  SING  N  N  64  
C06  O13  H24  SING  N  N  65  
C06  O14  H25  SING  N  N  66  
#   #
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
C06  InChI             InChI                 1.03   "InChI=1S/C16H25N5O15P2/c1-4-7(22)9(24)11(26)15(33-4)35-38(30,31)36-37(28,29)32-2-5-8(23)10(25)14(34-5)21-3-18-6-12(21)19-16(17)20-13(6)27/h3-5,7-11,14-15,22-26H,2H2,1H3,(H,28,29)(H,30,31)(H3,17,19,20,27)/t4-,5+,7+,8+,9+,10+,11+,14-,15+/m1/s1"  
C06  InChIKey          InChI                 1.03   LQEBEXMHBLQMDB-STHOTVMKSA-N  
C06  SMILES_CANONICAL  CACTVS                3.385  "C[C@H]1O[C@@H](O[P](O)(=O)O[P](O)(=O)OC[C@@H]2O[C@H]([C@@H](O)[C@H]2O)n3cnc4C(=O)NC(=Nc34)N)[C@@H](O)[C@@H](O)[C@H]1O"  
C06  SMILES            CACTVS                3.385  "C[CH]1O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)n3cnc4C(=O)NC(=Nc34)N)[CH](O)[CH](O)[CH]1O"  
C06  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "C[C@@H]1[C@@H]([C@@H]([C@@H]([C@@H](O1)OP(=O)(O)OP(=O)(O)OC[C@H]2[C@@H]([C@@H]([C@@H](O2)n3cnc4c3N=C(NC4=O)N)O)O)O)O)O"  
C06  SMILES            "OpenEye OEToolkits"  2.0.6  "CC1C(C(C(C(O1)OP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)n3cnc4c3N=C(NC4=O)N)O)O)O)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          C06
_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~{S},3~{R},4~{S},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{S},3~{S},4~{S},5~{R},6~{R})-6-methyl-3,4,5-tris(oxidanyl)oxan-2-yl] 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
C06  "Create component"  2019-04-02  PDBJ  
C06  "Initial release"   2019-06-26  RCSB  
##
