data_F7R
#

_chem_comp.id                                   F7R
_chem_comp.name                                 "[(2R)-2-[2-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)ethanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate"
_chem_comp.type                                 "DNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C9 H15 N4 O7 P"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-04-07
_chem_comp.pdbx_modified_date                   2020-11-20
_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                       322.212
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    F7R
_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       7BPG
_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
F7R  O2     O1   O  0  1  N  N  N  -5.260  18.989  22.599  -3.283  -1.443   1.445  O2     F7R   1  
F7R  C6     C1   C  0  1  N  N  N  -5.321  22.370  23.491  -3.843   1.562  -0.167  C6     F7R   2  
F7R  N1     N1   N  0  1  N  N  N  -4.938  21.168  22.888  -3.205   0.561   0.501  N1     F7R   3  
F7R  C4     C2   C  0  1  N  N  N  -6.947  21.157  24.771  -5.820   0.235  -0.107  C4     F7R   4  
F7R  C2     C3   C  0  1  N  N  N  -5.578  20.029  23.173  -3.870  -0.557   0.847  C2     F7R   5  
F7R  C5     C4   C  0  1  N  N  N  -6.325  22.370  24.456  -5.153   1.420  -0.479  C5     F7R   6  
F7R  OP1    O2   O  0  1  N  N  N  -0.070  25.998  19.283   5.814  -0.124  -0.747  OP1    F7R   7  
F7R  P      P1   P  0  1  N  N  N  -1.626  25.830  18.870   4.762   0.464   0.321  P      F7R   8  
F7R  OP2    O3   O  0  1  N  N  N  -2.335  27.008  17.898   4.789   1.943   0.276  OP2    F7R   9  
F7R  "O3'"  O4   O  0  1  N  N  N  -2.085  24.288  18.869   3.282  -0.057  -0.040  "O3'"  F7R  10  
F7R  "C3'"  C5   C  0  1  N  N  N  -3.354  23.982  18.283   2.601   0.308  -1.242  "C3'"  F7R  11  
F7R  "C2'"  C6   C  0  1  N  N  R  -4.264  24.146  19.459   1.223  -0.358  -1.269  "C2'"  F7R  12  
F7R  "C1'"  C7   C  0  1  N  N  N  -5.733  24.322  19.094   1.384  -1.869  -1.093  "C1'"  F7R  13  
F7R  "O1'"  O5   O  0  1  N  N  N  -6.312  25.107  20.151   2.121  -2.134   0.102  "O1'"  F7R  14  
F7R  "N2'"  N2   N  0  1  N  N  N  -3.908  23.050  20.394   0.401   0.176  -0.180  "N2'"  F7R  15  
F7R  C2A    C8   C  0  1  N  N  N  -4.634  21.990  20.806  -0.943   0.152  -0.276  C2A    F7R  16  
F7R  O2A    O6   O  0  1  N  N  N  -5.822  21.722  20.598  -1.472  -0.311  -1.264  O2A    F7R  17  
F7R  C2B    C9   C  0  1  N  N  N  -3.893  21.182  21.841  -1.788   0.701   0.845  C2B    F7R  18  
F7R  N3     N3   N  0  1  N  N  N  -6.578  20.012  24.131  -5.159  -0.711   0.547  N3     F7R  19  
F7R  N4     N4   N  0  1  N  N  N  -7.938  20.991  25.653  -7.150   0.065  -0.411  N4     F7R  20  
F7R  OP3    O7   O  0  1  N  Y  N  -2.070  26.319  20.220   5.161  -0.035   1.798  OP4    F7R  21  
F7R  H1     H1   H  0  1  N  N  N  -4.840  23.295  23.209  -3.311   2.461  -0.442  H1     F7R  22  
F7R  H2     H2   H  0  1  N  N  N  -6.617  23.285  24.950  -5.679   2.203  -1.005  H2     F7R  23  
F7R  H3     H3   H  0  1  N  N  N   0.276  26.796  18.900   5.850  -1.090  -0.772  H3     F7R  24  
F7R  H4     H4   H  0  1  N  N  N  -3.606  24.687  17.477   2.481   1.391  -1.278  H4     F7R  25  
F7R  H5     H5   H  0  1  N  N  N  -3.381  22.954  17.893   3.181  -0.023  -2.103  H5     F7R  26  
F7R  H6     H6   H  0  1  N  N  N  -3.962  25.082  19.951   0.739  -0.153  -2.224  H6     F7R  27  
F7R  H7     H7   H  0  1  N  N  N  -5.828  24.847  18.132   0.400  -2.333  -1.023  H7     F7R  28  
F7R  H8     H8   H  0  1  N  N  N  -6.231  23.343  19.028   1.919  -2.280  -1.949  H8     F7R  29  
F7R  H9     H9   H  0  1  N  Y  N  -7.234  25.248  19.973   2.261  -3.075   0.277  H9     F7R  30  
F7R  H10    H10  H  0  1  N  N  N  -2.987  23.106  20.779   0.825   0.546   0.611  H10    F7R  31  
F7R  H11    H11  H  0  1  N  N  N  -3.650  20.171  21.483  -1.553   1.755   0.994  H11    F7R  32  
F7R  H12    H12  H  0  1  N  N  N  -2.973  21.682  22.178  -1.580   0.149   1.761  H12    F7R  33  
F7R  H13    H13  H  0  1  N  N  N  -8.337  20.085  25.792  -7.633   0.762  -0.883  H13    F7R  34  
F7R  H14    H14  H  0  1  N  N  N  -8.280  21.773  26.174  -7.606  -0.752  -0.153  H14    F7R  35  
F7R  H15    H15  H  0  1  N  N  N  -2.591  27.107  20.116   6.043   0.243   2.083  H15    F7R  36  
#   #
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
F7R  OP2    P      DOUB  N  N   1  
F7R  "C3'"  "O3'"  SING  N  N   2  
F7R  "C3'"  "C2'"  SING  N  N   3  
F7R  "O3'"  P      SING  N  N   4  
F7R  P      OP1    SING  N  N   5  
F7R  "C1'"  "C2'"  SING  N  N   6  
F7R  "C1'"  "O1'"  SING  N  N   7  
F7R  "C2'"  "N2'"  SING  N  N   8  
F7R  "N2'"  C2A    SING  N  N   9  
F7R  O2A    C2A    DOUB  N  N  10  
F7R  C2A    C2B    SING  N  N  11  
F7R  C2B    N1     SING  N  N  12  
F7R  O2     C2     DOUB  N  N  13  
F7R  N1     C2     SING  N  N  14  
F7R  N1     C6     SING  N  N  15  
F7R  C2     N3     SING  N  N  16  
F7R  C6     C5     DOUB  N  N  17  
F7R  N3     C4     DOUB  N  N  18  
F7R  C5     C4     SING  N  N  19  
F7R  C4     N4     SING  N  N  20  
F7R  P      OP3    SING  N  N  21  
F7R  C6     H1     SING  N  N  22  
F7R  C5     H2     SING  N  N  23  
F7R  OP1    H3     SING  N  N  24  
F7R  "C3'"  H4     SING  N  N  25  
F7R  "C3'"  H5     SING  N  N  26  
F7R  "C2'"  H6     SING  N  N  27  
F7R  "C1'"  H7     SING  N  N  28  
F7R  "C1'"  H8     SING  N  N  29  
F7R  "O1'"  H9     SING  N  N  30  
F7R  "N2'"  H10    SING  N  N  31  
F7R  C2B    H11    SING  N  N  32  
F7R  C2B    H12    SING  N  N  33  
F7R  N4     H13    SING  N  N  34  
F7R  N4     H14    SING  N  N  35  
F7R  OP3    H15    SING  N  N  36  
#   #
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
F7R  InChI             InChI                 1.03   "InChI=1S/C9H15N4O7P/c10-7-1-2-13(9(16)12-7)3-8(15)11-6(4-14)5-20-21(17,18)19/h1-2,6,14H,3-5H2,(H,11,15)(H2,10,12,16)(H2,17,18,19)/t6-/m1/s1"  
F7R  InChIKey          InChI                 1.03   WZINKHQUEQYIEP-ZCFIWIBFSA-N  
F7R  SMILES_CANONICAL  CACTVS                3.385  "NC1=NC(=O)N(CC(=O)N[C@H](CO)CO[P](O)(O)=O)C=C1"  
F7R  SMILES            CACTVS                3.385  "NC1=NC(=O)N(CC(=O)N[CH](CO)CO[P](O)(O)=O)C=C1"  
F7R  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "C1=CN(C(=O)N=C1N)CC(=O)N[C@H](CO)COP(=O)(O)O"  
F7R  SMILES            "OpenEye OEToolkits"  2.0.7  "C1=CN(C(=O)N=C1N)CC(=O)NC(CO)COP(=O)(O)O"  
#
_pdbx_chem_comp_identifier.comp_id          F7R
_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})-2-[2-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)ethanoylamino]-3-oxidanyl-propyl] 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
F7R  "Create component"      2020-04-07  PDBJ  
F7R  "Modify internal type"  2020-10-29  PDBJ  
F7R  "Modify linking type"   2020-10-29  PDBJ  
F7R  "Modify atom id"        2020-11-18  PDBJ  
F7R  "Initial release"       2020-11-25  RCSB  
##
