data_G8D
#

_chem_comp.id                                   G8D
_chem_comp.name                                 
;[(2R,3S,4R,5R)-5-[2-azanyl-6,8-bis(oxidanylidene)-1,7-dihydropurin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphono
hydrogen phosphate
;

_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C10 H15 N5 O12 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "8-oxoguanosine-5'-diphosphate"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2016-06-17
_chem_comp.pdbx_modified_date                   2020-06-17
_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                       459.200
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    G8D
_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       5GGA
_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
G8D  O3B    O1   O  0  1  N  N  N  18.547  15.917  25.411   6.874   0.258   1.347  O3B    G8D   1  
G8D  PB     P1   P  0  1  N  N  N  19.380  17.188  25.446   5.948   1.356   0.620  PB     G8D   2  
G8D  O2B    O2   O  0  1  N  N  N  19.506  17.844  26.826   5.933   2.709   1.493  O2B    G8D   3  
G8D  O1B    O3   O  0  1  N  N  N  19.014  18.131  24.330   6.489   1.644  -0.727  O1B    G8D   4  
G8D  O3A    O4   O  0  1  N  N  N  20.928  16.681  25.255   4.447   0.789   0.485  O3A    G8D   5  
G8D  PA     P2   P  0  1  N  N  N  21.736  16.071  23.953   3.746  -0.302  -0.469  PA     G8D   6  
G8D  O1A    O5   O  0  1  N  N  N  21.167  16.421  22.605   4.603  -1.506  -0.556  O1A    G8D   7  
G8D  O2A    O6   O  0  1  N  N  N  22.260  14.648  24.188   3.546   0.321  -1.940  O2A    G8D   8  
G8D  "O5'"  O7   O  0  1  N  N  N  23.078  17.005  24.072   2.312  -0.707   0.142  "O5'"  G8D   9  
G8D  "C5'"  C1   C  0  1  N  N  N  23.839  17.079  25.274   1.488  -1.731  -0.419  "C5'"  G8D  10  
G8D  "C4'"  C2   C  0  1  N  N  R  25.234  17.383  24.813   0.203  -1.858   0.401  "C4'"  G8D  11  
G8D  "O4'"  O8   O  0  1  N  N  N  25.700  16.240  24.082  -0.588  -0.666   0.257  "O4'"  G8D  12  
G8D  "C3'"  C3   C  0  1  N  N  S  25.278  18.543  23.821  -0.639  -3.037  -0.123  "C3'"  G8D  13  
G8D  "O3'"  O9   O  0  1  N  N  N  26.263  19.474  24.235  -0.835  -4.008   0.907  "O3'"  G8D  14  
G8D  "C2'"  C4   C  0  1  N  N  R  25.723  17.960  22.488  -1.988  -2.392  -0.523  "C2'"  G8D  15  
G8D  "O2'"  O10  O  0  1  N  N  N  26.586  18.871  21.754  -3.086  -3.220  -0.136  "O2'"  G8D  16  
G8D  "C1'"  C5   C  0  1  N  N  R  26.435  16.679  22.938  -1.973  -1.072   0.298  "C1'"  G8D  17  
G8D  N9     N1   N  0  1  N  N  N  26.495  15.570  21.946  -2.827  -0.063  -0.332  N9     G8D  18  
G8D  C8     C6   C  0  1  N  N  N  27.467  14.618  21.854  -2.618   0.500  -1.537  C8     G8D  19  
G8D  O8     O11  O  0  1  N  N  N  28.638  14.549  22.746  -1.686   0.248  -2.278  O8     G8D  20  
G8D  C4     C7   C  0  1  N  N  N  25.598  15.296  20.976  -3.982   0.464   0.209  C4     G8D  21  
G8D  N3     N2   N  0  1  N  N  N  24.423  15.870  20.571  -4.638   0.258   1.357  N3     G8D  22  
G8D  C2     C8   C  0  1  N  N  N  23.764  15.306  19.507  -5.746   0.910   1.633  C2     G8D  23  
G8D  N2     N3   N  0  1  N  N  N  22.601  15.801  19.042  -6.386   0.669   2.822  N2     G8D  24  
G8D  N1     N4   N  0  1  N  N  N  24.199  14.198  18.828  -6.275   1.820   0.768  N1     G8D  25  
G8D  C6     C9   C  0  1  N  N  N  25.333  13.538  19.127  -5.660   2.073  -0.409  C6     G8D  26  
G8D  O6     O12  O  0  1  N  N  N  25.666  12.518  18.437  -6.124   2.887  -1.192  O6     G8D  27  
G8D  C5     C10  C  0  1  N  N  N  26.135  14.075  20.279  -4.478   1.381  -0.709  C5     G8D  28  
G8D  N7     N5   N  0  1  N  N  N  27.317  13.704  20.875  -3.602   1.384  -1.797  N7     G8D  29  
G8D  H1     H1   H  0  1  N  N  N  17.941  15.955  24.680   6.577   0.020   2.236  H1     G8D  30  
G8D  H2     H2   H  0  1  N  N  N  19.326  18.774  26.753   6.806   3.107   1.615  H2     G8D  31  
G8D  H3     H3   H  0  1  N  N  N  22.150  14.135  23.396   2.993   1.114  -1.959  H3     G8D  32  
G8D  H4     H4   H  0  1  N  N  N  23.461  17.880  25.926   1.239  -1.474  -1.448  H4     G8D  33  
G8D  H5     H5   H  0  1  N  N  N  23.807  16.121  25.814   2.025  -2.680  -0.401  H5     G8D  34  
G8D  H6     H6   H  0  1  N  N  N  25.883  17.600  25.674   0.448  -2.015   1.452  H6     G8D  35  
G8D  H7     H7   H  0  1  N  N  N  24.285  19.006  23.727  -0.160  -3.493  -0.989  H7     G8D  36  
G8D  H8     H8   H  0  1  N  N  N  26.010  19.855  25.068  -1.359  -4.773   0.632  H8     G8D  37  
G8D  H9     H9   H  0  1  N  N  N  24.840  17.696  21.887  -2.017  -2.184  -1.592  H9     G8D  38  
G8D  H10    H10  H  0  1  N  N  N  26.092  19.643  21.503  -3.138  -4.056  -0.621  H10    G8D  39  
G8D  H11    H11  H  0  1  N  N  N  27.460  16.942  23.237  -2.288  -1.256   1.326  H11    G8D  40  
G8D  H12    H12  H  0  1  N  N  N  22.191  16.604  19.474  -6.021   0.023   3.447  H12    G8D  41  
G8D  H13    H13  H  0  1  N  N  N  22.147  15.365  18.265  -7.205   1.143   3.037  H13    G8D  42  
G8D  H14    H14  H  0  1  N  N  N  23.643  13.861  18.068  -7.094   2.286   0.997  H14    G8D  43  
G8D  H15    H15  H  0  1  N  N  N  27.919  12.941  20.639  -3.687   1.924  -2.598  H15    G8D  44  
#   #
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
G8D  O6     C6     DOUB  N  N   1  
G8D  N1     C6     SING  N  N   2  
G8D  N1     C2     SING  N  N   3  
G8D  N2     C2     SING  N  N   4  
G8D  C6     C5     SING  N  N   5  
G8D  C2     N3     DOUB  N  N   6  
G8D  C5     N7     SING  N  N   7  
G8D  C5     C4     DOUB  N  N   8  
G8D  N3     C4     SING  N  N   9  
G8D  N7     C8     SING  N  N  10  
G8D  C4     N9     SING  N  N  11  
G8D  "O2'"  "C2'"  SING  N  N  12  
G8D  C8     N9     SING  N  N  13  
G8D  C8     O8     DOUB  N  N  14  
G8D  N9     "C1'"  SING  N  N  15  
G8D  "C2'"  "C1'"  SING  N  N  16  
G8D  "C2'"  "C3'"  SING  N  N  17  
G8D  O1A    PA     DOUB  N  N  18  
G8D  "C1'"  "O4'"  SING  N  N  19  
G8D  "C3'"  "O3'"  SING  N  N  20  
G8D  "C3'"  "C4'"  SING  N  N  21  
G8D  PA     "O5'"  SING  N  N  22  
G8D  PA     O2A    SING  N  N  23  
G8D  PA     O3A    SING  N  N  24  
G8D  "O5'"  "C5'"  SING  N  N  25  
G8D  "O4'"  "C4'"  SING  N  N  26  
G8D  O1B    PB     DOUB  N  N  27  
G8D  "C4'"  "C5'"  SING  N  N  28  
G8D  O3A    PB     SING  N  N  29  
G8D  O3B    PB     SING  N  N  30  
G8D  PB     O2B    SING  N  N  31  
G8D  O3B    H1     SING  N  N  32  
G8D  O2B    H2     SING  N  N  33  
G8D  O2A    H3     SING  N  N  34  
G8D  "C5'"  H4     SING  N  N  35  
G8D  "C5'"  H5     SING  N  N  36  
G8D  "C4'"  H6     SING  N  N  37  
G8D  "C3'"  H7     SING  N  N  38  
G8D  "O3'"  H8     SING  N  N  39  
G8D  "C2'"  H9     SING  N  N  40  
G8D  "O2'"  H10    SING  N  N  41  
G8D  "C1'"  H11    SING  N  N  42  
G8D  N2     H12    SING  N  N  43  
G8D  N2     H13    SING  N  N  44  
G8D  N1     H14    SING  N  N  45  
G8D  N7     H15    SING  N  N  46  
#   #
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
G8D  InChI             InChI                 1.03   "InChI=1S/C10H15N5O12P2/c11-9-13-6-3(7(18)14-9)12-10(19)15(6)8-5(17)4(16)2(26-8)1-25-29(23,24)27-28(20,21)22/h2,4-5,8,16-17H,1H2,(H,12,19)(H,23,24)(H2,20,21,22)(H3,11,13,14,18)/t2-,4-,5-,8-/m1/s1"  
G8D  InChIKey          InChI                 1.03   PQVZQFDCRLHZRP-UMMCILCDSA-N  
G8D  SMILES_CANONICAL  CACTVS                3.385  "NC1=NC2=C(NC(=O)N2[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O)C(=O)N1"  
G8D  SMILES            CACTVS                3.385  "NC1=NC2=C(NC(=O)N2[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O)C(=O)N1"  
G8D  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.5  "C([C@@H]1[C@H]([C@H]([C@@H](O1)N2C3=C(C(=O)NC(=N3)N)NC2=O)O)O)OP(=O)(O)OP(=O)(O)O"  
G8D  SMILES            "OpenEye OEToolkits"  2.0.5  "C(C1C(C(C(O1)N2C3=C(C(=O)NC(=N3)N)NC2=O)O)O)OP(=O)(O)OP(=O)(O)O"  
#
_pdbx_chem_comp_identifier.comp_id          G8D
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  2.0.5
_pdbx_chem_comp_identifier.identifier       "[(2~{R},3~{S},4~{R},5~{R})-5-[2-azanyl-6,8-bis(oxidanylidene)-1,7-dihydropurin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl 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
G8D  "Create component"  2016-06-17  PDBJ  
G8D  "Initial release"   2017-04-19  RCSB  
G8D  "Modify synonyms"   2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     G8D
_pdbx_chem_comp_synonyms.name        "8-oxoguanosine-5'-diphosphate"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
