data_DZ
#

_chem_comp.id                                   DZ
_chem_comp.name                                 "[(2~{R},3~{S},5~{R})-5-(6-azanyl-5-nitro-2-oxidanylidene-1~{H}-pyridin-3-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate"
_chem_comp.type                                 "DNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C10 H14 N3 O9 P"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2018-11-12
_chem_comp.pdbx_modified_date                   2019-06-07
_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                       351.207
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    DZ
_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       6I4O
_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
DZ  P       P1   P   0  1  N  N  N  40.099  20.048  20.447   4.648   1.157   0.341  P       DZ   1  
DZ  OP1     O1   O   0  1  N  N  N  39.989  18.607  20.107   5.985   0.282   0.147  OP1     DZ   2  
DZ  OP2     O2   O   0  1  N  N  N  40.745  20.966  19.475   4.387   1.938  -0.888  OP2     DZ   3  
DZ  "O5'"   O3   O   0  1  N  N  N  38.633  20.600  20.757   3.403   0.177   0.628  "O5'"   DZ   4  
DZ  "C5'"   C1   C   0  1  N  N  N  37.821  19.926  21.706   2.913  -0.761  -0.332  "C5'"   DZ   5  
DZ  "C4'"   C2   C   0  1  N  N  R  36.659  20.801  22.193   1.730  -1.528   0.261  "C4'"   DZ   6  
DZ  "O4'"   O4   O   0  1  N  N  N  37.127  22.046  22.698   0.623  -0.635   0.468  "O4'"   DZ   7  
DZ  "C1'"   C3   C   0  1  N  N  R  36.092  22.990  22.525  -0.582  -1.394   0.229  "C1'"   DZ   8  
DZ  C1      C4   C   0  1  N  N  N  36.708  24.374  22.541  -1.732  -0.475  -0.093  C1      DZ   9  
DZ  C2      C5   C   0  1  N  N  N  36.155  25.385  23.355  -1.615   0.469  -1.119  C2      DZ  10  
DZ  O2      O5   O   0  1  N  N  N  35.152  25.238  24.053  -0.575   0.548  -1.755  O2      DZ  11  
DZ  N3      N1   N   0  1  N  N  N  36.781  26.576  23.348  -2.641   1.290  -1.408  N3      DZ  12  
DZ  C4      C6   C   0  1  N  N  N  37.863  26.856  22.642  -3.809   1.219  -0.710  C4      DZ  13  
DZ  C5      C7   C   0  1  N  N  N  38.465  25.906  21.797  -3.960   0.301   0.308  C5      DZ  14  
DZ  C6      C8   C   0  1  N  N  N  37.842  24.640  21.752  -2.911  -0.563   0.618  C6      DZ  15  
DZ  N       N2   N   1  1  N  N  N  39.677  26.164  20.973  -5.231   0.228   1.062  N       DZ  16  
DZ  ON1     O6   O  -1  1  N  N  N  39.905  25.398  20.045  -5.324  -0.507   2.029  ON1     DZ  17  
DZ  ON2     O7   O   0  1  N  N  N  40.441  27.074  21.284  -6.183   0.905   0.717  ON2     DZ  18  
DZ  N4      N3   N   0  1  N  N  N  38.338  28.081  22.783  -4.845   2.068  -1.023  N4      DZ  19  
DZ  "C2'"   C9   C   0  1  N  N  N  35.425  22.600  21.211  -0.221  -2.267  -1.000  "C2'"   DZ  20  
DZ  "C3'"   C10  C   0  1  N  N  S  35.608  21.085  21.107   1.262  -2.616  -0.725  "C3'"   DZ  21  
DZ  "O3'"   O8   O   0  1  N  N  N  34.424  20.343  21.390   1.369  -3.911  -0.130  "O3'"   DZ  22  
DZ  OP3     O9   O   0  1  N  Y  N  40.835  20.174  21.881   4.838   2.161   1.585  OP3     DZ  23  
DZ  H1      H1   H   0  1  N  N  N  40.374  18.453  19.252   6.218  -0.257   0.916  H1      DZ  24  
DZ  "H5''"  H2   H   0  0  N  N  N  37.411  19.018  21.241   2.590  -0.230  -1.227  "H5''"  DZ  25  
DZ  "H5'"   H3   H   0  1  N  N  N  38.442  19.647  22.570   3.706  -1.462  -0.593  "H5'"   DZ  26  
DZ  "H4'"   H4   H   0  1  N  N  N  36.154  20.256  23.004   2.020  -1.984   1.208  "H4'"   DZ  27  
DZ  "H1'"   H5   H   0  1  N  N  N  35.356  22.912  23.339  -0.820  -2.018   1.090  "H1'"   DZ  28  
DZ  H3      H6   H   0  1  N  N  N  36.400  27.303  23.919  -2.549   1.941  -2.121  H3      DZ  29  
DZ  H6      H7   H   0  1  N  N  N  38.239  23.870  21.107  -3.016  -1.287   1.413  H6      DZ  30  
DZ  H42     H8   H   0  1  N  N  N  37.765  28.589  23.426  -4.716   2.768  -1.681  H42     DZ  31  
DZ  H41     H9   H   0  1  N  N  N  39.274  28.037  23.134  -5.704   1.967  -0.584  H41     DZ  32  
DZ  "H2''"  H10  H   0  0  N  N  N  35.912  23.107  20.365  -0.833  -3.168  -1.030  "H2''"  DZ  33  
DZ  "H2'"   H11  H   0  1  N  N  N  34.356  22.860  21.228  -0.322  -1.699  -1.924  "H2'"   DZ  34  
DZ  "H3'"   H12  H   0  1  N  N  N  36.016  20.826  20.119   1.842  -2.572  -1.647  "H3'"   DZ  35  
DZ  H2      H13  H   0  1  N  N  N  34.605  19.414  21.308   1.034  -4.628  -0.685  H2      DZ  36  
DZ  H4      H14  H   0  1  N  N  N  41.537  20.811  21.822   5.572   2.782   1.481  H4      DZ  37  
#   #
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
DZ  OP2    P       DOUB  N  N   1  
DZ  ON1    N       SING  N  N   2  
DZ  OP1    P       SING  N  N   3  
DZ  P      "O5'"   SING  N  N   4  
DZ  "O5'"  "C5'"   SING  N  N   5  
DZ  N      ON2     DOUB  N  N   6  
DZ  N      C5      SING  N  N   7  
DZ  "C3'"  "C2'"   SING  N  N   8  
DZ  "C3'"  "O3'"   SING  N  N   9  
DZ  "C3'"  "C4'"   SING  N  N  10  
DZ  "C2'"  "C1'"   SING  N  N  11  
DZ  "C5'"  "C4'"   SING  N  N  12  
DZ  C6     C5      SING  N  N  13  
DZ  C6     C1      DOUB  N  N  14  
DZ  C5     C4      DOUB  N  N  15  
DZ  "C4'"  "O4'"   SING  N  N  16  
DZ  "C1'"  C1      SING  N  N  17  
DZ  "C1'"  "O4'"   SING  N  N  18  
DZ  C1     C2      SING  N  N  19  
DZ  C4     N4      SING  N  N  20  
DZ  C4     N3      SING  N  N  21  
DZ  N3     C2      SING  N  N  22  
DZ  C2     O2      DOUB  N  N  23  
DZ  P      OP3     SING  N  N  24  
DZ  OP1    H1      SING  N  N  25  
DZ  "C5'"  "H5''"  SING  N  N  26  
DZ  "C5'"  "H5'"   SING  N  N  27  
DZ  "C4'"  "H4'"   SING  N  N  28  
DZ  "C1'"  "H1'"   SING  N  N  29  
DZ  N3     H3      SING  N  N  30  
DZ  C6     H6      SING  N  N  31  
DZ  N4     H42     SING  N  N  32  
DZ  N4     H41     SING  N  N  33  
DZ  "C2'"  "H2''"  SING  N  N  34  
DZ  "C2'"  "H2'"   SING  N  N  35  
DZ  "C3'"  "H3'"   SING  N  N  36  
DZ  "O3'"  H2      SING  N  N  37  
DZ  OP3    H4      SING  N  N  38  
#   #
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
DZ  InChI             InChI                 1.03   "InChI=1S/C10H14N3O9P/c11-9-5(13(16)17)1-4(10(15)12-9)7-2-6(14)8(22-7)3-21-23(18,19)20/h1,6-8,14H,2-3H2,(H3,11,12,15)(H2,18,19,20)/t6-,7+,8+/m0/s1"  
DZ  InChIKey          InChI                 1.03   IUUXEDXPTYNSEU-XLPZGREQSA-N  
DZ  SMILES_CANONICAL  CACTVS                3.385  "NC1=C(C=C([C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2)C(=O)N1)[N+]([O-])=O"  
DZ  SMILES            CACTVS                3.385  "NC1=C(C=C([CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2)C(=O)N1)[N+]([O-])=O"  
DZ  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "C1[C@@H]([C@H](O[C@H]1C2=CC(=C(NC2=O)N)[N+](=O)[O-])COP(=O)(O)O)O"  
DZ  SMILES            "OpenEye OEToolkits"  2.0.6  "C1C(C(OC1C2=CC(=C(NC2=O)N)[N+](=O)[O-])COP(=O)(O)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          DZ
_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},5~{R})-5-(6-azanyl-5-nitro-2-oxidanylidene-1~{H}-pyridin-3-yl)-3-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
DZ  "Create component"  2018-11-12  EBI   
DZ  "Initial release"   2019-06-12  RCSB  
##
