data_F7H
#

_chem_comp.id                                   F7H
_chem_comp.name                                 "4-azanyl-1-[(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]-5-methyl-pyrimidin-2-one"
_chem_comp.type                                 "DNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C13 H17 N3 O4"
_chem_comp.mon_nstd_parent_comp_id              DC
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2018-06-06
_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                       279.292
_chem_comp.one_letter_code                      C
_chem_comp.three_letter_code                    F7H
_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       6GMY
_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
F7H  "O5'"   O1   O  0  1  N  N  N   1.719   -8.933  -14.485  -3.033   1.800  -1.681  "O5'"   F7H   1  
F7H  "C5'"   C1   C  0  1  N  N  R   2.824   -8.988  -13.624  -3.041   0.885  -0.584  "C5'"   F7H   2  
F7H  "C4'"   C2   C  0  1  N  N  S   4.173   -8.548  -14.188  -2.264  -0.433  -0.760  "C4'"   F7H   3  
F7H  "O4'"   O2   O  0  1  N  N  N   3.998   -7.431  -15.077  -0.931  -0.136  -1.214  "O4'"   F7H   4  
F7H  "C1'"   C3   C  0  1  N  N  R   4.834   -6.338  -14.667  -0.057  -1.147  -0.692  "C1'"   F7H   5  
F7H  N1      N1   N  0  1  N  N  N   3.989   -5.203  -14.162   1.249  -0.562  -0.377  N1      F7H   6  
F7H  C6      C4   C  0  1  N  N  N   2.632   -5.348  -13.891   1.345   0.765  -0.086  C6      F7H   7  
F7H  C5      C5   C  0  1  N  N  N   1.877   -4.291  -13.470   2.557   1.294   0.203  C5      F7H   8  
F7H  C7      C6   C  0  1  N  N  N   0.392   -4.442  -13.167   2.695   2.759   0.529  C7      F7H   9  
F7H  C4      C7   C  0  1  N  N  N   2.560   -3.012  -13.329   3.689   0.453   0.194  C4      F7H  10  
F7H  N4      N2   N  0  1  N  N  N   1.921   -1.908  -12.938   4.933   0.964   0.485  N4      F7H  11  
F7H  N3      N3   N  0  1  N  N  N   3.874   -2.890  -13.591   3.547  -0.834  -0.095  N3      F7H  12  
F7H  C2      C8   C  0  1  N  N  N   4.628   -3.956  -13.990   2.347  -1.340  -0.372  C2      F7H  13  
F7H  O2      O3   O  0  1  N  N  N   5.835   -3.829  -14.192   2.242  -2.528  -0.630  O2      F7H  14  
F7H  "C3'"   C9   C  0  1  N  N  S   5.045   -8.103  -13.039  -2.057  -0.958   0.694  "C3'"   F7H  15  
F7H  "C2'"   C10  C  0  1  N  N  N   5.772   -6.879  -13.587  -0.705  -1.699   0.591  "C2'"   F7H  16  
F7H  "C7'"   C11  C  0  1  N  N  N   4.063   -7.783  -11.885  -1.872   0.340   1.512  "C7'"   F7H  17  
F7H  "C6'"   C12  C  0  1  N  N  S   2.738   -8.474  -12.207  -2.838   1.376   0.858  "C6'"   F7H  18  
F7H  "C8'"   C13  C  0  1  N  N  N   2.792   -9.948  -12.464  -4.217   0.906   0.395  "C8'"   F7H  19  
F7H  "O3'"   O4   O  0  1  N  N  N   5.916   -9.183  -12.709  -3.124  -1.782   1.168  "O3'"   F7H  20  
F7H  "HO5'"  H1   H  0  0  N  N  N   0.943   -9.229  -14.024  -3.169   1.382  -2.543  "HO5'"  F7H  21  
F7H  "H4'"   H2   H  0  1  N  N  N   4.647   -9.392  -14.710  -2.787  -1.147  -1.397  "H4'"   F7H  22  
F7H  "H1'"   H3   H  0  1  N  N  N   5.438   -5.987  -15.516   0.062  -1.947  -1.422  "H1'"   F7H  23  
F7H  H6      H4   H  0  1  N  N  N   2.167   -6.315  -14.016   0.463   1.389  -0.087  H6      F7H  24  
F7H  H71     H5   H  0  1  N  N  N  -0.018   -3.473  -12.845   2.581   2.904   1.603  H71     F7H  25  
F7H  H72     H6   H  0  1  N  N  N  -0.134   -4.780  -14.072   3.679   3.110   0.217  H72     F7H  26  
F7H  H73     H7   H  0  1  N  N  N   0.255   -5.182  -12.365   1.924   3.323   0.003  H73     F7H  27  
F7H  H41     H8   H  0  1  N  N  N   2.420   -1.045  -12.852   5.033   1.905   0.697  H41     F7H  28  
F7H  H42     H9   H  0  1  N  N  N   0.943   -1.943  -12.730   5.709   0.383   0.479  H42     F7H  29  
F7H  "H2'"   H10  H  0  1  N  N  N   6.743   -7.163  -14.020  -0.867  -2.773   0.504  "H2'"   F7H  30  
F7H  "H2''"  H11  H  0  0  N  N  N   5.928   -6.131  -12.796  -0.083  -1.476   1.458  "H2''"  F7H  31  
F7H  "H7'"   H12  H  0  1  N  N  N   4.464   -8.163  -10.934  -2.152   0.176   2.552  "H7'"   F7H  32  
F7H  "H7''"  H13  H  0  0  N  N  N   3.912   -6.696  -11.811  -0.840   0.685   1.447  "H7''"  F7H  33  
F7H  "H6'"   H14  H  0  1  N  N  N   1.801   -8.018  -11.855  -2.670   2.432   1.073  "H6'"   F7H  34  
F7H  "H8'"   H15  H  0  1  N  N  N   1.901  -10.569  -12.289  -4.983   1.666   0.244  "H8'"   F7H  35  
F7H  "H8''"  H16  H  0  0  N  N  N   3.694  -10.519  -12.199  -4.574  -0.053   0.772  "H8''"  F7H  36  
F7H  H1      H17  H  0  1  N  N  N   6.477   -8.928  -11.986  -2.998  -2.109   2.069  H1      F7H  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
F7H  "O4'"  "C1'"   SING  N  N   1  
F7H  "O4'"  "C4'"   SING  N  N   2  
F7H  "C1'"  N1      SING  N  N   3  
F7H  "C1'"  "C2'"   SING  N  N   4  
F7H  "O5'"  "C5'"   SING  N  N   5  
F7H  O2     C2      DOUB  N  N   6  
F7H  "C4'"  "C5'"   SING  N  N   7  
F7H  "C4'"  "C3'"   SING  N  N   8  
F7H  N1     C2      SING  N  N   9  
F7H  N1     C6      SING  N  N  10  
F7H  C2     N3      SING  N  N  11  
F7H  C6     C5      DOUB  N  N  12  
F7H  "C5'"  "C8'"   SING  N  N  13  
F7H  "C5'"  "C6'"   SING  N  N  14  
F7H  N3     C4      DOUB  N  N  15  
F7H  "C2'"  "C3'"   SING  N  N  16  
F7H  C5     C4      SING  N  N  17  
F7H  C5     C7      SING  N  N  18  
F7H  C4     N4      SING  N  N  19  
F7H  "C3'"  "O3'"   SING  N  N  20  
F7H  "C3'"  "C7'"   SING  N  N  21  
F7H  "C8'"  "C6'"   SING  N  N  22  
F7H  "C6'"  "C7'"   SING  N  N  23  
F7H  "O5'"  "HO5'"  SING  N  N  24  
F7H  "C4'"  "H4'"   SING  N  N  25  
F7H  "C1'"  "H1'"   SING  N  N  26  
F7H  C6     H6      SING  N  N  27  
F7H  C7     H71     SING  N  N  28  
F7H  C7     H72     SING  N  N  29  
F7H  C7     H73     SING  N  N  30  
F7H  N4     H41     SING  N  N  31  
F7H  N4     H42     SING  N  N  32  
F7H  "C2'"  "H2'"   SING  N  N  33  
F7H  "C2'"  "H2''"  SING  N  N  34  
F7H  "C7'"  "H7'"   SING  N  N  35  
F7H  "C7'"  "H7''"  SING  N  N  36  
F7H  "C6'"  "H6'"   SING  N  N  37  
F7H  "C8'"  "H8'"   SING  N  N  38  
F7H  "C8'"  "H8''"  SING  N  N  39  
F7H  "O3'"  H1      SING  N  N  40  
#   #
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
F7H  InChI             InChI                 1.03   "InChI=1S/C13H17N3O4/c1-6-5-16(11(17)15-9(6)14)8-4-12(18)2-7-3-13(7,19)10(12)20-8/h5,7-8,10,18-19H,2-4H2,1H3,(H2,14,15,17)/t7-,8-,10+,12+,13-/m1/s1"  
F7H  InChIKey          InChI                 1.03   GKRDGXCEGWQOOW-ZIDZYHNGSA-N  
F7H  SMILES_CANONICAL  CACTVS                3.385  "CC1=CN([C@H]2C[C@@]3(O)C[C@@H]4C[C@]4(O)[C@H]3O2)C(=O)N=C1N"  
F7H  SMILES            CACTVS                3.385  "CC1=CN([CH]2C[C]3(O)C[CH]4C[C]4(O)[CH]3O2)C(=O)N=C1N"  
F7H  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "CC1=CN(C(=O)N=C1N)[C@H]2C[C@]3(C[C@@H]4C[C@@]4([C@H]3O2)O)O"  
F7H  SMILES            "OpenEye OEToolkits"  2.0.6  "CC1=CN(C(=O)N=C1N)C2CC3(CC4CC4(C3O2)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          F7H
_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       "4-azanyl-1-[(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]-5-methyl-pyrimidin-2-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
F7H  "Create component"        2018-06-06  EBI   
F7H  "Initial release"         2018-06-13  RCSB  
F7H  "Modify one letter code"  2019-05-06  EBI   
##
