data_F7K
#

_chem_comp.id                                   F7K
_chem_comp.name                                 "2-azanyl-9-[(1~{S},2~{R},4~{S},6~{S},8~{R})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-1~{H}-purin-6-one"
_chem_comp.type                                 "DNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C13 H15 N5 O4"
_chem_comp.mon_nstd_parent_comp_id              DG
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2018-06-07
_chem_comp.pdbx_modified_date                   2019-05-06
_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                       305.289
_chem_comp.one_letter_code                      G
_chem_comp.three_letter_code                    F7K
_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       6GN4
_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
F7K  C8      C1   C  0  1  Y  N  N   5.834   2.577  14.043  -0.495   1.569  -0.075  C8      F7K   1  
F7K  C2      C2   C  0  1  N  N  N   3.549  -1.131  14.701  -3.931  -1.232   0.298  C2      F7K   2  
F7K  C4      C3   C  0  1  Y  N  N   4.982   0.613  14.461  -1.933  -0.075   0.221  C4      F7K   3  
F7K  C5      C4   C  0  1  Y  N  N   4.010   1.492  14.022  -2.603   1.082  -0.195  C5      F7K   4  
F7K  C6      C5   C  0  1  N  N  N   2.650   1.040  13.900  -4.007   1.029  -0.358  C6      F7K   5  
F7K  "O5'"   O1   O  0  1  N  N  N   9.257   3.960  13.211   4.131   1.490   1.580  "O5'"   F7K   6  
F7K  "C5'"   C6   C  0  1  N  N  R   9.457   2.652  12.728   3.910   0.522   0.552  "C5'"   F7K   7  
F7K  "C4'"   C7   C  0  1  N  N  S   9.401   1.501  13.723   2.805  -0.523   0.792  "C4'"   F7K   8  
F7K  "O4'"   O2   O  0  1  N  N  N   8.462   1.807  14.761   1.594   0.154   1.175  "O4'"   F7K   9  
F7K  "C1'"   C8   C  0  1  N  N  R   7.482   0.769  14.867   0.488  -0.625   0.694  "C1'"   F7K  10  
F7K  N9      N1   N  0  1  Y  N  N   6.160   1.316  14.472  -0.608   0.260   0.294  N9      F7K  11  
F7K  N7      N2   N  0  1  Y  N  N   4.569   2.737  13.760  -1.669   2.050  -0.362  N7      F7K  12  
F7K  O6      O3   O  0  1  N  N  N   1.670   1.686  13.530  -4.632   2.012  -0.719  O6      F7K  13  
F7K  N1      N3   N  0  1  N  N  N   2.507  -0.313  14.266  -4.639  -0.139  -0.105  N1      F7K  14  
F7K  N2      N4   N  0  1  N  N  N   3.237  -2.397  15.009  -4.601  -2.402   0.554  N2      F7K  15  
F7K  N3      N5   N  0  1  N  N  N   4.824  -0.700  14.818  -2.627  -1.194   0.460  N3      F7K  16  
F7K  "C3'"   C9   C  0  1  N  N  S   8.918   0.262  12.988   2.488  -1.086  -0.627  "C3'"   F7K  17  
F7K  "C2'"   C10  C  0  1  N  N  N   7.900  -0.367  13.937   0.986  -1.429  -0.521  "C2'"   F7K  18  
F7K  "C7'"   C11  C  0  1  N  N  N   8.301   0.776  11.660   2.650   0.151  -1.538  "C7'"   F7K  19  
F7K  "C6'"   C12  C  0  1  N  N  S   8.761   2.211  11.471   3.821   0.942  -0.924  "C6'"   F7K  20  
F7K  "C8'"   C13  C  0  1  N  N  N  10.243   2.432  11.471   5.064   0.151  -0.382  "C8'"   F7K  21  
F7K  "O3'"   O4   O  0  1  N  N  N  10.025  -0.601  12.738   3.302  -2.199  -1.001  "O3'"   F7K  22  
F7K  H8      H1   H  0  1  N  N  N   6.561   3.370  13.947   0.431   2.124  -0.118  H8      F7K  23  
F7K  "HO5'"  H2   H  0  0  N  N  N   9.761   4.085  14.007   4.159   1.116   2.472  "HO5'"  F7K  24  
F7K  "H4'"   H3   H  0  1  N  N  N  10.403   1.320  14.138   3.102  -1.291   1.507  "H4'"   F7K  25  
F7K  "H1'"   H4   H  0  1  N  N  N   7.433   0.391  15.899   0.148  -1.306   1.474  "H1'"   F7K  26  
F7K  H1      H5   H  0  1  N  N  N   1.593  -0.715  14.210  -5.602  -0.199  -0.210  H1      F7K  27  
F7K  H21     H6   H  0  1  N  N  N   3.948  -3.024  15.326  -4.111  -3.185   0.850  H21     F7K  28  
F7K  H22     H7   H  0  1  N  N  N   2.293  -2.715  14.922  -5.563  -2.445   0.439  H22     F7K  29  
F7K  "H2''"  H8   H  0  0  N  N  N   7.033  -0.749  13.378   0.851  -2.497  -0.351  "H2''"  F7K  30  
F7K  "H2'"   H9   H  0  1  N  N  N   8.358  -1.187  14.509   0.460  -1.117  -1.424  "H2'"   F7K  31  
F7K  "H7''"  H10  H  0  0  N  N  N   7.203   0.737  11.716   2.892  -0.156  -2.556  "H7''"  F7K  32  
F7K  "H7'"   H11  H  0  1  N  N  N   8.648   0.156  10.820   1.739   0.750  -1.530  "H7'"   F7K  33  
F7K  "H6'"   H12  H  0  1  N  N  N   8.107   2.917  10.938   3.949   1.975  -1.247  "H6'"   F7K  34  
F7K  "H8''"  H13  H  0  0  N  N  N  10.927   1.574  11.394   6.003   0.697  -0.283  "H8''"  F7K  35  
F7K  "H8'"   H14  H  0  1  N  N  N  10.670   3.291  10.933   5.158  -0.896  -0.669  "H8'"   F7K  36  
F7K  H2      H15  H  0  1  N  N  N  10.385  -0.902  13.564   3.108  -2.551  -1.880  H2      F7K  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
F7K  "C6'"  "C8'"   SING  N  N   1  
F7K  "C6'"  "C7'"   SING  N  N   2  
F7K  "C6'"  "C5'"   SING  N  N   3  
F7K  "C8'"  "C5'"   SING  N  N   4  
F7K  "C7'"  "C3'"   SING  N  N   5  
F7K  "C5'"  "O5'"   SING  N  N   6  
F7K  "C5'"  "C4'"   SING  N  N   7  
F7K  "O3'"  "C3'"   SING  N  N   8  
F7K  "C3'"  "C4'"   SING  N  N   9  
F7K  "C3'"  "C2'"   SING  N  N  10  
F7K  O6     C6      DOUB  N  N  11  
F7K  "C4'"  "O4'"   SING  N  N  12  
F7K  N7     C5      SING  Y  N  13  
F7K  N7     C8      DOUB  Y  N  14  
F7K  C6     C5      SING  N  N  15  
F7K  C6     N1      SING  N  N  16  
F7K  "C2'"  "C1'"   SING  N  N  17  
F7K  C5     C4      DOUB  Y  N  18  
F7K  C8     N9      SING  Y  N  19  
F7K  N1     C2      SING  N  N  20  
F7K  C4     N9      SING  Y  N  21  
F7K  C4     N3      SING  N  N  22  
F7K  N9     "C1'"   SING  N  N  23  
F7K  C2     N3      DOUB  N  N  24  
F7K  C2     N2      SING  N  N  25  
F7K  "O4'"  "C1'"   SING  N  N  26  
F7K  C8     H8      SING  N  N  27  
F7K  "O5'"  "HO5'"  SING  N  N  28  
F7K  "C4'"  "H4'"   SING  N  N  29  
F7K  "C1'"  "H1'"   SING  N  N  30  
F7K  N1     H1      SING  N  N  31  
F7K  N2     H21     SING  N  N  32  
F7K  N2     H22     SING  N  N  33  
F7K  "C2'"  "H2''"  SING  N  N  34  
F7K  "C2'"  "H2'"   SING  N  N  35  
F7K  "C7'"  "H7''"  SING  N  N  36  
F7K  "C7'"  "H7'"   SING  N  N  37  
F7K  "C6'"  "H6'"   SING  N  N  38  
F7K  "C8'"  "H8''"  SING  N  N  39  
F7K  "C8'"  "H8'"   SING  N  N  40  
F7K  "O3'"  H2      SING  N  N  41  
#   #
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
F7K  InChI             InChI                 1.03   "InChI=1S/C13H15N5O4/c14-11-16-8-7(9(19)17-11)15-4-18(8)6-3-12(20)1-5-2-13(5,21)10(12)22-6/h4-6,10,20-21H,1-3H2,(H3,14,16,17,19)/t5-,6-,10+,12+,13-/m1/s1"  
F7K  InChIKey          InChI                 1.03   AFXULUSIHCQUMJ-CFFIBIDHSA-N  
F7K  SMILES_CANONICAL  CACTVS                3.385  "NC1=Nc2n(cnc2C(=O)N1)[C@H]3C[C@@]4(O)C[C@@H]5C[C@]5(O)[C@H]4O3"  
F7K  SMILES            CACTVS                3.385  "NC1=Nc2n(cnc2C(=O)N1)[CH]3C[C]4(O)C[CH]5C[C]5(O)[CH]4O3"  
F7K  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "c1nc2c(n1[C@H]3C[C@]4(C[C@@H]5C[C@@]5([C@H]4O3)O)O)N=C(NC2=O)N"  
F7K  SMILES            "OpenEye OEToolkits"  2.0.6  "c1nc2c(n1C3CC4(CC5CC5(C4O3)O)O)N=C(NC2=O)N"  
#
_pdbx_chem_comp_identifier.comp_id          F7K
_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-azanyl-9-[(1~{S},2~{R},4~{S},6~{S},8~{R})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-1~{H}-purin-6-one"
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
F7K  "Create component"        2018-06-07  EBI   
F7K  "Initial release"         2018-06-13  RCSB  
F7K  "Modify one letter code"  2019-05-06  EBI   
##
