data_GN3
#

_chem_comp.id                                   GN3
_chem_comp.name                                 "[[[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-4-oxidanyl-2-[[oxidanyl(phosphonooxy)phosphoryl]oxymethyl]oxolan-3-yl]oxy-oxidanyl-phosphoryl]amino]phosphonic acid"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C10 H18 N6 O16 P4"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-06-24
_chem_comp.pdbx_modified_date                   2020-07-03
_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                       602.176
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    GN3
_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       6S2U
_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
GN3  O15  O1   O  0  1  N  N  N  79.349  -61.410  101.022  -7.328  -2.824   1.652  O15  GN3   1  
GN3  C9   C1   C  0  1  N  N  N  80.107  -61.435  101.990  -6.741  -2.138   0.832  C9   GN3   2  
GN3  N5   N1   N  0  1  N  N  N  81.325  -62.086  101.913  -7.407  -1.557  -0.190  N5   GN3   3  
GN3  C    C2   C  0  1  N  N  N  82.236  -62.171  102.935  -6.740  -0.793  -1.100  C    GN3   4  
GN3  N    N2   N  0  1  N  N  N  83.363  -62.841  102.684  -7.442  -0.215  -2.127  N    GN3   5  
GN3  C2   C3   C  0  1  Y  N  N  79.890  -60.839  103.287  -5.345  -1.928   0.931  C2   GN3   6  
GN3  N2   N3   N  0  1  Y  N  N  78.826  -60.108  103.788  -4.388  -2.337   1.798  N2   GN3   7  
GN3  C3   C4   C  0  1  Y  N  N  79.177  -59.827  105.023  -3.238  -1.853   1.430  C3   GN3   8  
GN3  N3   N4   N  0  1  Y  N  N  80.407  -60.329  105.364  -3.392  -1.102   0.301  N3   GN3   9  
GN3  C1   C5   C  0  1  Y  N  N  80.871  -60.983  104.247  -4.718  -1.133  -0.035  C1   GN3  10  
GN3  N1   N5   N  0  1  N  N  N  82.050  -61.627  104.138  -5.443  -0.594  -1.023  N1   GN3  11  
GN3  C4   C6   C  0  1  N  N  R  81.093  -60.200  106.658  -2.332  -0.391  -0.418  C4   GN3  12  
GN3  C8   C7   C  0  1  N  N  R  82.564  -59.799  106.529  -2.209   1.059   0.101  C8   GN3  13  
GN3  O14  O2   O  0  1  N  N  N  83.297  -60.208  107.678  -2.902   1.961  -0.764  O14  GN3  14  
GN3  C7   C8   C  0  1  N  N  S  82.430  -58.281  106.483  -0.690   1.341   0.072  C7   GN3  15  
GN3  O8   O3   O  0  1  N  N  N  83.576  -57.582  107.016  -0.399   2.425  -0.812  O8   GN3  16  
GN3  P2   P1   P  0  1  N  N  N  84.774  -56.778  106.405   0.345   3.771  -0.333  P2   GN3  17  
GN3  O10  O4   O  0  1  N  N  N  84.686  -56.520  104.976  -0.245   4.233   0.943  O10  GN3  18  
GN3  N4   N6   N  0  1  N  N  N  84.842  -55.397  107.268   1.984   3.458  -0.113  N4   GN3  19  
GN3  P3   P2   P  0  1  N  N  N  84.536  -53.818  107.005   2.800   4.842   0.388  P3   GN3  20  
GN3  O13  O5   O  0  1  N  N  N  83.459  -53.443  106.102   2.651   5.901  -0.636  O13  GN3  21  
GN3  O12  O6   O  0  1  N  N  N  85.888  -53.191  106.451   2.180   5.355   1.783  O12  GN3  22  
GN3  O11  O7   O  0  1  N  N  N  84.335  -53.039  108.363   4.361   4.503   0.586  O11  GN3  23  
GN3  O9   O8   O  0  1  N  N  N  86.075  -57.637  106.666   0.161   4.913  -1.453  O9   GN3  24  
GN3  C5   C9   C  0  1  N  N  R  81.306  -58.012  107.481  -0.075   0.028  -0.461  C5   GN3  25  
GN3  O    O9   O  0  1  N  N  N  80.455  -59.178  107.403  -1.048  -0.991  -0.143  O    GN3  26  
GN3  C6   C10  C  0  1  N  N  N  80.492  -56.774  107.204   1.253  -0.262   0.242  C6   GN3  27  
GN3  O1   O10  O  0  1  N  N  N  79.367  -56.740  108.108   1.861  -1.414  -0.346  O1   GN3  28  
GN3  P    P3   P  0  1  N  N  N  79.346  -56.753  109.689   3.274  -2.007   0.148  P    GN3  29  
GN3  O3   O11  O  0  1  N  N  N  78.100  -57.359  110.204   4.439  -0.937  -0.149  O3   GN3  30  
GN3  O2   O12  O  0  1  N  N  N  80.630  -57.443  110.140   3.214  -2.281   1.601  O2   GN3  31  
GN3  O4   O13  O  0  1  N  N  N  79.466  -55.224  110.115   3.587  -3.375  -0.643  O4   GN3  32  
GN3  P1   P4   P  0  1  N  N  N  80.382  -54.462  111.174   4.558  -4.629  -0.366  P1   GN3  33  
GN3  O7   O14  O  0  1  N  N  N  80.544  -53.030  110.791   4.438  -5.043   1.049  O7   GN3  34  
GN3  O6   O15  O  0  1  N  N  N  81.709  -55.226  111.209   4.136  -5.855  -1.321  O6   GN3  35  
GN3  O5   O16  O  0  1  N  N  N  79.698  -54.643  112.532   6.081  -4.208  -0.675  O5   GN3  36  
GN3  H1   H1   H  0  1  N  N  N  81.559  -62.528  101.047  -8.365  -1.684  -0.276  H1   GN3  37  
GN3  H2   H2   H  0  1  N  N  N  84.060  -62.932  103.396  -8.400  -0.352  -2.198  H2   GN3  38  
GN3  H3   H3   H  0  1  N  N  N  83.510  -63.252  101.784  -6.982   0.332  -2.783  H3   GN3  39  
GN3  H4   H4   H  0  1  N  N  N  78.559  -59.258  105.701  -2.301  -2.020   1.942  H4   GN3  40  
GN3  H5   H5   H  0  1  N  N  N  81.036  -61.156  107.199  -2.532  -0.396  -1.489  H5   GN3  41  
GN3  H6   H6   H  0  1  N  N  N  82.995  -60.185  105.594  -2.594   1.135   1.118  H6   GN3  42  
GN3  H7   H7   H  0  1  N  N  N  83.369  -61.155  107.688  -3.852   1.791  -0.830  H7   GN3  43  
GN3  H8   H8   H  0  1  N  N  N  82.158  -57.935  105.475  -0.323   1.558   1.075  H8   GN3  44  
GN3  H9   H9   H  0  1  N  N  N  84.248  -55.602  108.046   2.123   2.701   0.538  H9   GN3  45  
GN3  H10  H10  H  0  1  N  N  N  85.710  -52.707  105.653   2.243   4.710   2.501  H10  GN3  46  
GN3  H11  H11  H  0  1  N  N  N  83.559  -52.494  108.304   4.894   5.256   0.876  H11  GN3  47  
GN3  H12  H12  H  0  1  N  N  N  86.518  -57.800  105.842   0.525   4.677  -2.318  H12  GN3  48  
GN3  H13  H13  H  0  1  N  N  N  81.741  -57.935  108.489   0.072   0.088  -1.539  H13  GN3  49  
GN3  H14  H14  H  0  1  N  N  N  81.115  -55.881  107.357   1.917   0.595   0.131  H14  GN3  50  
GN3  H15  H15  H  0  1  N  N  N  80.130  -56.795  106.165   1.071  -0.447   1.300  H15  GN3  51  
GN3  H16  H16  H  0  1  N  N  N  78.313  -58.106  110.751   4.535  -0.710  -1.085  H16  GN3  52  
GN3  H17  H17  H  0  1  N  N  N  82.419  -54.640  110.975   4.680  -6.646  -1.209  H17  GN3  53  
GN3  H18  H18  H  0  1  N  N  N  79.493  -53.791  112.900   6.233  -3.924  -1.587  H18  GN3  54  
#   #
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
GN3  O15  C9   DOUB  N  N   1  
GN3  N5   C9   SING  N  N   2  
GN3  N5   C    SING  N  N   3  
GN3  C9   C2   SING  N  N   4  
GN3  N    C    SING  N  N   5  
GN3  C    N1   DOUB  N  N   6  
GN3  C2   N2   SING  Y  N   7  
GN3  C2   C1   DOUB  Y  N   8  
GN3  N2   C3   DOUB  Y  N   9  
GN3  N1   C1   SING  N  N  10  
GN3  C1   N3   SING  Y  N  11  
GN3  O10  P2   DOUB  N  N  12  
GN3  C3   N3   SING  Y  N  13  
GN3  N3   C4   SING  N  N  14  
GN3  O13  P3   DOUB  N  N  15  
GN3  P2   O9   SING  N  N  16  
GN3  P2   O8   SING  N  N  17  
GN3  P2   N4   SING  N  N  18  
GN3  O12  P3   SING  N  N  19  
GN3  C7   C8   SING  N  N  20  
GN3  C7   O8   SING  N  N  21  
GN3  C7   C5   SING  N  N  22  
GN3  C8   C4   SING  N  N  23  
GN3  C8   O14  SING  N  N  24  
GN3  C4   O    SING  N  N  25  
GN3  P3   N4   SING  N  N  26  
GN3  P3   O11  SING  N  N  27  
GN3  C6   C5   SING  N  N  28  
GN3  C6   O1   SING  N  N  29  
GN3  O    C5   SING  N  N  30  
GN3  O1   P    SING  N  N  31  
GN3  P    O4   SING  N  N  32  
GN3  P    O2   DOUB  N  N  33  
GN3  P    O3   SING  N  N  34  
GN3  O4   P1   SING  N  N  35  
GN3  O7   P1   DOUB  N  N  36  
GN3  P1   O6   SING  N  N  37  
GN3  P1   O5   SING  N  N  38  
GN3  N5   H1   SING  N  N  39  
GN3  N    H2   SING  N  N  40  
GN3  N    H3   SING  N  N  41  
GN3  C3   H4   SING  N  N  42  
GN3  C4   H5   SING  N  N  43  
GN3  C8   H6   SING  N  N  44  
GN3  O14  H7   SING  N  N  45  
GN3  C7   H8   SING  N  N  46  
GN3  N4   H9   SING  N  N  47  
GN3  O12  H10  SING  N  N  48  
GN3  O11  H11  SING  N  N  49  
GN3  O9   H12  SING  N  N  50  
GN3  C5   H13  SING  N  N  51  
GN3  C6   H14  SING  N  N  52  
GN3  C6   H15  SING  N  N  53  
GN3  O3   H16  SING  N  N  54  
GN3  O6   H17  SING  N  N  55  
GN3  O5   H18  SING  N  N  56  
#   #
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
GN3  InChI             InChI                 1.03   "InChI=1S/C10H18N6O16P4/c11-10-13-7-4(8(18)14-10)12-2-16(7)9-5(17)6(31-34(22,23)15-33(19,20)21)3(30-9)1-29-36(27,28)32-35(24,25)26/h2-3,5-6,9,17H,1H2,(H,27,28)(H2,24,25,26)(H3,11,13,14,18)(H4,15,19,20,21,22,23)/t3-,5-,6-,9-/m1/s1"  
GN3  InChIKey          InChI                 1.03   XBDJLYDZMOIGRH-UUOKFMHZSA-N  
GN3  SMILES_CANONICAL  CACTVS                3.385  "NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(O)=O)[C@@H](O[P](O)(=O)N[P](O)(O)=O)[C@H]3O"  
GN3  SMILES            CACTVS                3.385  "NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O[P](O)(=O)N[P](O)(O)=O)[CH]3O"  
GN3  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)O)OP(=O)(NP(=O)(O)O)O)O)N=C(NC2=O)N"  
GN3  SMILES            "OpenEye OEToolkits"  2.0.7  "c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)OP(=O)(NP(=O)(O)O)O)O)N=C(NC2=O)N"  
#
_pdbx_chem_comp_identifier.comp_id          GN3
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  2.0.7
_pdbx_chem_comp_identifier.identifier       "[[[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-4-oxidanyl-2-[[oxidanyl(phosphonooxy)phosphoryl]oxymethyl]oxolan-3-yl]oxy-oxidanyl-phosphoryl]amino]phosphonic acid"
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
GN3  "Create component"  2019-06-24  EBI   
GN3  "Initial release"   2020-07-08  RCSB  
##
