data_N79
#

_chem_comp.id                                   N79
_chem_comp.name                                 "[(1S,5R,6R,8R)-6-(6-aminopurin-9-yl)spiro[2,4,7-trioxa-3-boranuidabicyclo[3.3.0]octane-3,9'-8-oxa-9-boranuidabicyclo[4.3.0]nona-1(6),2,4-triene]-8-yl]methyl dihydrogen phosphate"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            ?
_chem_comp.formula                              "C17 H18 B N5 O8 P"
_chem_comp.mon_nstd_parent_comp_id              A
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   -1
_chem_comp.pdbx_initial_date                    2012-04-24
_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                       462.138
_chem_comp.one_letter_code                      A
_chem_comp.three_letter_code                    N79
_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       4ARI
_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
N79  P       P       P   0  1  N  N  N  21.789  27.079  32.095   5.573  -0.442  -0.251  P       N79   1  
N79  O1P     O1P     O   0  1  N  N  N  21.638  27.491  33.536   6.278  -0.873  -1.633  O1P     N79   2  
N79  O2P     O2P     O   0  1  N  N  N  21.590  25.689  31.606   6.159   0.831   0.226  O2P     N79   3  
N79  "O5'"   "O5'"   O   0  1  N  N  N  23.282  27.391  31.600   3.993  -0.247  -0.492  "O5'"   N79   4  
N79  "C5'"   "C5'"   C   0  1  N  N  N  24.221  27.636  32.542   3.105   0.235   0.518  "C5'"   N79   5  
N79  "C4'"   "C4'"   C   0  1  N  N  R  25.583  27.494  31.891   1.683   0.298  -0.042  "C4'"   N79   6  
N79  "C3'"   "C3'"   C   0  1  N  N  S  26.501  28.106  32.925   0.727   0.934   0.991  "C3'"   N79   7  
N79  "O3'"   "O3'"   O   0  1  N  N  N  27.385  27.172  33.466   0.371   2.257   0.534  "O3'"   N79   8  
N79  B       B       B  -1  1  N  N  N  28.660  27.494  32.918  -0.992   2.329   0.674  B       N79   9  
N79  C12     C12     C   0  1  Y  N  N  29.231  26.224  32.394  -1.575   3.479  -0.195  C12     N79  10  
N79  C16     C16     C   0  1  Y  N  N  28.630  25.257  31.573  -1.328   3.931  -1.472  C16     N79  11  
N79  C15     C15     C   0  1  Y  N  N  29.352  24.102  31.239  -2.035   5.011  -1.969  C15     N79  12  
N79  C14     C14     C   0  1  Y  N  N  30.671  23.956  31.732  -2.988   5.636  -1.185  C14     N79  13  
N79  C13     C13     C   0  1  Y  N  N  31.281  24.916  32.571  -3.236   5.181   0.098  C13     N79  14  
N79  C11     C11     C   0  1  Y  N  N  30.569  26.059  32.893  -2.534   4.104   0.592  C11     N79  15  
N79  C10     C10     C   0  1  N  N  N  30.932  27.228  33.770  -2.556   3.362   1.908  C10     N79  16  
N79  O1      O1      O   0  1  N  N  N  29.673  27.954  33.851  -1.332   2.607   1.972  O1      N79  17  
N79  "O2'"   "O2'"   O   0  1  N  N  N  28.434  28.350  31.809  -1.510   1.118   0.287  "O2'"   N79  18  
N79  "C2'"   "C2'"   C   0  1  N  N  R  27.289  29.114  32.112  -0.596   0.132   0.816  "C2'"   N79  19  
N79  "C1'"   "C1'"   C   0  1  N  N  R  26.365  29.460  30.943  -0.268  -0.883  -0.299  "C1'"   N79  20  
N79  "O4'"   "O4'"   O   0  1  N  N  N  25.623  28.284  30.702   1.168  -1.033  -0.255  "O4'"   N79  21  
N79  N9      N9      N   0  1  Y  N  N  25.584  30.683  31.274  -0.923  -2.166  -0.030  N9      N79  22  
N79  C8      C8      C   0  1  Y  N  N  25.217  31.181  32.476  -0.366  -3.239   0.599  C8      N79  23  
N79  N7      N7      N   0  1  Y  N  N  24.603  32.364  32.281  -1.229  -4.211   0.668  N7      N79  24  
N79  C5      C5      C   0  1  Y  N  N  24.575  32.635  30.973  -2.391  -3.823   0.090  C5      N79  25  
N79  C4      C4      C   0  1  Y  N  N  25.199  31.583  30.355  -2.211  -2.504  -0.360  C4      N79  26  
N79  C6      C6      C   0  1  Y  N  N  24.104  33.696  30.200  -3.639  -4.432  -0.125  C6      N79  27  
N79  N6      N6      N   0  1  N  N  N  23.447  34.778  30.710  -3.878  -5.727   0.301  N6      N79  28  
N79  N1      N1      N   0  1  Y  N  N  24.270  33.636  28.864  -4.585  -3.736  -0.747  N1      N79  29  
N79  N3      N3      N   0  1  Y  N  N  25.352  31.578  29.015  -3.218  -1.885  -0.966  N3      N79  30  
N79  C2      C2      C   0  1  Y  N  N  24.879  32.597  28.291  -4.366  -2.500  -1.157  C2      N79  31  
N79  O3P     O3P     O   0  1  N  Y  N  21.078  28.147  31.146   5.811  -1.589   0.854  O3P     N79  32  
N79  H1P     H1P     H   0  1  N  N  N  21.402  26.734  34.059   7.233  -1.007  -1.561  H1P     N79  33  
N79  H3P     H3P     H   0  1  N  N  N  20.649  27.697  30.428   5.451  -2.452   0.607  H3P     N79  34  
N79  "H5'1"  "H5'1"  H   0  0  N  N  N  24.099  28.656  32.935   3.129  -0.438   1.375  "H5'1"  N79  35  
N79  "H5'2"  "H5'2"  H   0  0  N  N  N  24.123  26.912  33.365   3.417   1.232   0.830  "H5'2"  N79  36  
N79  "H4'"   "H4'"   H   0  1  N  N  N  25.831  26.438  31.708   1.667   0.866  -0.972  "H4'"   N79  37  
N79  "H3'"   "H3'"   H   0  1  N  N  N  25.914  28.618  33.701   1.124   0.922   2.006  "H3'"   N79  38  
N79  "H2'"   "H2'"   H   0  1  N  N  N  27.520  30.009  32.708  -0.949  -0.328   1.740  "H2'"   N79  39  
N79  HC2     HC2     H   0  1  N  N  N  24.993  32.579  27.217  -5.163  -1.970  -1.658  HC2     N79  40  
N79  H16     H16     H   0  1  N  N  N  27.625  25.400  31.204  -0.584   3.443  -2.084  H16     N79  41  
N79  H15     H15     H   0  1  N  N  N  28.910  23.338  30.617  -1.843   5.367  -2.970  H15     N79  42  
N79  H14     H14     H   0  1  N  N  N  31.233  23.076  31.456  -3.538   6.480  -1.574  H14     N79  43  
N79  H13     H13     H   0  1  N  N  N  32.280  24.762  32.952  -3.980   5.669   0.711  H13     N79  44  
N79  H101    H101    H   0  0  N  N  N  31.264  26.893  34.764  -2.601   4.070   2.735  H101    N79  45  
N79  H102    H102    H   0  0  N  N  N  31.718  27.844  33.309  -3.412   2.690   1.943  H102    N79  46  
N79  "H1'"   "H1'"   H   0  1  N  N  N  26.996  29.679  30.069  -0.578  -0.494  -1.269  "H1'"   N79  47  
N79  H8      H8      H   0  1  N  N  N  25.388  30.709  33.432   0.643  -3.278   0.982  H8      N79  48  
N79  H61N    H61N    H   0  0  N  N  N  23.179  35.388  29.964  -3.180  -6.225   0.754  H61N    N79  49  
N79  H62N    H62N    H   0  0  N  N  N  22.631  34.472  31.200  -4.744  -6.136   0.147  H62N    N79  50  
#   #
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
N79  P      O1P     SING  N  N   1  
N79  P      O2P     DOUB  N  N   2  
N79  P      "O5'"   SING  N  N   3  
N79  P      O3P     SING  N  N   4  
N79  "O5'"  "C5'"   SING  N  N   5  
N79  "C5'"  "C4'"   SING  N  N   6  
N79  "C4'"  "C3'"   SING  N  N   7  
N79  "C4'"  "O4'"   SING  N  N   8  
N79  "C3'"  "O3'"   SING  N  N   9  
N79  "C3'"  "C2'"   SING  N  N  10  
N79  "O3'"  B       SING  N  N  11  
N79  B      C12     SING  N  N  12  
N79  B      O1      SING  N  N  13  
N79  B      "O2'"   SING  N  N  14  
N79  C12    C16     SING  Y  N  15  
N79  C12    C11     DOUB  Y  N  16  
N79  C16    C15     DOUB  Y  N  17  
N79  C15    C14     SING  Y  N  18  
N79  C14    C13     DOUB  Y  N  19  
N79  C13    C11     SING  Y  N  20  
N79  C11    C10     SING  N  N  21  
N79  C10    O1      SING  N  N  22  
N79  "O2'"  "C2'"   SING  N  N  23  
N79  "C2'"  "C1'"   SING  N  N  24  
N79  "C1'"  "O4'"   SING  N  N  25  
N79  "C1'"  N9      SING  N  N  26  
N79  N9     C8      SING  Y  N  27  
N79  N9     C4      SING  Y  N  28  
N79  C8     N7      DOUB  Y  N  29  
N79  N7     C5      SING  Y  N  30  
N79  C5     C4      SING  Y  N  31  
N79  C5     C6      DOUB  Y  N  32  
N79  C4     N3      DOUB  Y  N  33  
N79  C6     N6      SING  N  N  34  
N79  C6     N1      SING  Y  N  35  
N79  N1     C2      DOUB  Y  N  36  
N79  N3     C2      SING  Y  N  37  
N79  C2     HC2     SING  N  N  38  
N79  O1P    H1P     SING  N  N  39  
N79  O3P    H3P     SING  N  N  40  
N79  "C5'"  "H5'1"  SING  N  N  41  
N79  "C5'"  "H5'2"  SING  N  N  42  
N79  "C4'"  "H4'"   SING  N  N  43  
N79  "C3'"  "H3'"   SING  N  N  44  
N79  "C2'"  "H2'"   SING  N  N  45  
N79  C16    H16     SING  N  N  46  
N79  C15    H15     SING  N  N  47  
N79  C14    H14     SING  N  N  48  
N79  C13    H13     SING  N  N  49  
N79  C10    H101    SING  N  N  50  
N79  C10    H102    SING  N  N  51  
N79  "C1'"  "H1'"   SING  N  N  52  
N79  C8     H8      SING  N  N  53  
N79  N6     H61N    SING  N  N  54  
N79  N6     H62N    SING  N  N  55  
#   #
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
N79  InChI             InChI                 1.03   "InChI=1S/C17H18BN5O8P/c19-15-12-16(21-7-20-15)23(8-22-12)17-14-13(11(29-17)6-28-32(24,25)26)30-18(31-14)10-4-2-1-3-9(10)5-27-18/h1-4,7-8,11,13-14,17H,5-6H2,(H2,19,20,21)(H2,24,25,26)/q-1/t11-,13-,14-,17-,18+/m1/s1"  
N79  InChIKey          InChI                 1.03   WVTCQRMVQMUXKS-LBTDBDNISA-N  
N79  SMILES_CANONICAL  CACTVS                3.385  "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@H]4O[B-]5(OCc6ccccc56)O[C@@H]34"  
N79  SMILES            CACTVS                3.385  "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH]4O[B-]5(OCc6ccccc56)O[CH]34"  
N79  SMILES_CANONICAL  "OpenEye OEToolkits"  1.9.2  "[B-]12(c3ccccc3CO1)O[C@@H]4[C@H](O[C@H]([C@@H]4O2)n5cnc6c5ncnc6N)COP(=O)(O)O"  
N79  SMILES            "OpenEye OEToolkits"  1.9.2  "[B-]12(c3ccccc3CO1)OC4C(OC(C4O2)n5cnc6c5ncnc6N)COP(=O)(O)O"  
#
_pdbx_chem_comp_identifier.comp_id          N79
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  1.9.2
_pdbx_chem_comp_identifier.identifier       "[(1S,5R,6R,8R)-6-(6-aminopurin-9-yl)spiro[2,4,7-trioxa-3-boranuidabicyclo[3.3.0]octane-3,9'-8-oxa-9-boranuidabicyclo[4.3.0]nona-1(6),2,4-triene]-8-yl]methyl 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
N79  "Create component"        2012-04-24  EBI   
N79  "Modify descriptor"       2014-09-05  RCSB  
N79  "Modify one letter code"  2019-05-06  EBI   
##
