data_KY8
#

_chem_comp.id                                   KY8
_chem_comp.name                                 "(2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-azanylpropyl-[3-(pyrimidin-2-ylamino)propyl]amino]methyl]oxolane-3,4-diol"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C20 H30 N10 O3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-07-04
_chem_comp.pdbx_modified_date                   2020-02-28
_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                       458.517
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    KY8
_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       6S74
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBE
#   #
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
KY8  C02  C1   C  0  1  N  N  S  13.116  28.653  13.455   1.542   0.392   2.906  C02  KY8   1  
KY8  C03  C2   C  0  1  N  N  R  13.360  27.433  13.262   2.872   0.094   2.172  C03  KY8   2  
KY8  C05  C3   C  0  1  N  N  R  14.575  27.474  12.694   2.380  -0.579   0.866  C05  KY8   3  
KY8  C07  C4   C  0  1  Y  N  N  16.119  25.300  11.737   4.457  -1.233  -0.424  C07  KY8   4  
KY8  N12  N1   N  0  1  N  N  N  17.934  21.937  12.096   6.968  -0.862  -3.100  N12  KY8   5  
KY8  C13  C5   C  0  1  Y  N  N  16.623  24.126  12.368   5.115  -0.698  -1.545  C13  KY8   6  
KY8  C15  C6   C  0  1  Y  N  N  15.421  25.314  14.177   3.388   0.553  -1.152  C15  KY8   7  
KY8  C17  C7   C  0  1  N  N  R  14.428  29.164  13.725   0.482   0.378   1.786  C17  KY8   8  
KY8  C18  C8   C  0  1  N  N  N  14.709  29.283  15.145  -0.239   1.726   1.737  C18  KY8   9  
KY8  C20  C9   C  0  1  N  N  N  15.383  31.674  14.882  -1.695   3.060   0.335  C20  KY8  10  
KY8  C09  C10  C  0  1  Y  N  N  17.011  24.635   9.691   6.042  -2.893  -0.308  C09  KY8  11  
KY8  C11  C11  C  0  1  Y  N  N  17.345  23.197  11.547   6.278  -1.342  -2.001  C11  KY8  12  
KY8  C21  C12  C  0  1  N  N  N  14.480  32.933  14.602  -0.615   3.760  -0.493  C21  KY8  13  
KY8  C22  C13  C  0  1  N  N  N  15.179  33.846  13.501  -1.128   5.126  -0.951  C22  KY8  14  
KY8  C24  C14  C  0  1  N  N  N  15.256  30.697  17.087  -2.389   0.853   1.047  C24  KY8  15  
KY8  C25  C15  C  0  1  N  N  N  14.308  30.533  18.186  -3.296   0.649  -0.169  C25  KY8  16  
KY8  C26  C16  C  0  1  N  N  N  14.994  31.078  19.528  -4.483  -0.234   0.222  C26  KY8  17  
KY8  C28  C17  C  0  1  Y  N  N  13.690  31.054  21.623  -6.496  -1.199  -0.829  C28  KY8  18  
KY8  C30  C18  C  0  1  Y  N  N  12.428  30.846  23.744  -8.370  -2.095  -1.819  C30  KY8  19  
KY8  C31  C19  C  0  1  Y  N  N  12.011  32.241  23.617  -8.709  -2.689  -0.613  C31  KY8  20  
KY8  C32  C20  C  0  1  Y  N  N  12.427  33.022  22.479  -7.872  -2.503   0.475  C32  KY8  21  
KY8  N06  N2   N  0  1  Y  N  N  15.258  26.078  12.855   3.373  -0.423  -0.200  N06  KY8  22  
KY8  N08  N3   N  0  1  Y  N  N  16.300  25.556  10.407   4.952  -2.321   0.157  N08  KY8  23  
KY8  N10  N4   N  0  1  Y  N  N  17.504  23.482  10.247   6.699  -2.423  -1.352  N10  KY8  24  
KY8  N14  N5   N  0  1  Y  N  N  16.186  24.152  13.923   4.411   0.389  -1.940  N14  KY8  25  
KY8  N19  N6   N  0  1  N  N  N  14.554  30.676  15.699  -1.250   1.701   0.671  N19  KY8  26  
KY8  N23  N7   N  0  1  N  N  N  16.639  34.046  13.536  -0.091   5.798  -1.746  N23  KY8  27  
KY8  N27  N8   N  0  1  N  N  N  14.406  30.473  20.756  -5.351  -0.429  -0.941  N27  KY8  28  
KY8  N29  N9   N  0  1  Y  N  N  13.286  30.270  22.767  -7.270  -1.365  -1.892  N29  KY8  29  
KY8  N33  N10  N  0  1  Y  N  N  13.244  32.414  21.482  -6.788  -1.757   0.336  N33  KY8  30  
KY8  O01  O1   O  0  1  N  N  N  12.565  29.373  12.346   1.262  -0.624   3.871  O01  KY8  31  
KY8  O04  O2   O  0  1  N  N  N  12.392  26.712  12.411   3.685  -0.801   2.934  O04  KY8  32  
KY8  O16  O3   O  0  1  N  N  N  15.257  28.350  13.353   1.173   0.147   0.547  O16  KY8  33  
KY8  H1   H1   H  0  1  N  N  N  12.480  28.809  14.338   1.579   1.371   3.383  H1   KY8  34  
KY8  H2   H2   H  0  1  N  N  N  13.424  26.894  14.219   3.411   1.017   1.956  H2   KY8  35  
KY8  H3   H3   H  0  1  N  N  N  14.513  27.709  11.621   2.163  -1.633   1.036  H3   KY8  36  
KY8  H4   H4   H  0  1  N  N  N  18.402  21.441  11.365   6.650  -0.072  -3.565  H4   KY8  37  
KY8  H5   H5   H  0  1  N  N  N  18.589  22.162  12.817   7.769  -1.315  -3.406  H5   KY8  38  
KY8  H6   H6   H  0  1  N  N  N  15.021  25.612  15.135   2.659   1.344  -1.239  H6   KY8  39  
KY8  H7   H7   H  0  1  N  N  N  14.545  30.148  13.248  -0.237  -0.421   1.966  H7   KY8  40  
KY8  H8   H8   H  0  1  N  N  N  14.021  28.619  15.688  -0.725   1.914   2.694  H8   KY8  41  
KY8  H9   H9   H  0  1  N  N  N  15.745  28.958  15.318   0.483   2.517   1.534  H9   KY8  42  
KY8  H10  H10  H  0  1  N  N  N  15.691  31.215  13.931  -1.870   3.623   1.253  H10  KY8  43  
KY8  H11  H11  H  0  1  N  N  N  16.276  31.973  15.451  -2.618   3.009  -0.241  H11  KY8  44  
KY8  H12  H12  H  0  1  N  N  N  17.193  24.823   8.643   6.420  -3.774   0.190  H12  KY8  45  
KY8  H13  H13  H  0  1  N  N  N  14.354  33.509  15.531   0.280   3.893   0.115  H13  KY8  46  
KY8  H14  H14  H  0  1  N  N  N  13.495  32.605  14.237  -0.375   3.151  -1.365  H14  KY8  47  
KY8  H15  H15  H  0  1  N  N  N  14.719  34.842  13.574  -2.023   4.993  -1.559  H15  KY8  48  
KY8  H16  H16  H  0  1  N  N  N  14.941  33.404  12.522  -1.368   5.735  -0.079  H16  KY8  49  
KY8  H17  H17  H  0  1  N  N  N  15.989  29.878  17.126  -2.954   1.335   1.845  H17  KY8  50  
KY8  H18  H18  H  0  1  N  N  N  15.775  31.659  17.207  -2.024  -0.114   1.393  H18  KY8  51  
KY8  H19  H19  H  0  1  N  N  N  13.393  31.107  17.977  -3.662   1.616  -0.515  H19  KY8  52  
KY8  H20  H20  H  0  1  N  N  N  14.055  29.469  18.303  -2.732   0.167  -0.966  H20  KY8  53  
KY8  H21  H21  H  0  1  N  N  N  16.068  30.840  19.497  -4.117  -1.201   0.569  H21  KY8  54  
KY8  H22  H22  H  0  1  N  N  N  14.861  32.169  19.574  -5.047   0.248   1.020  H22  KY8  55  
KY8  H23  H23  H  0  1  N  N  N  12.085  30.253  24.579  -8.997  -2.227  -2.688  H23  KY8  56  
KY8  H24  H24  H  0  1  N  N  N  11.389  32.688  24.378  -9.602  -3.290  -0.526  H24  KY8  57  
KY8  H25  H25  H  0  1  N  N  N  12.124  34.054  22.383  -8.107  -2.952   1.429  H25  KY8  58  
KY8  H27  H27  H  0  1  N  N  N  16.913  34.641  12.780  -0.407   6.703  -2.060  H27  KY8  59  
KY8  H28  H28  H  0  1  N  N  N  16.896  34.470  14.404   0.770   5.875  -1.226  H28  KY8  60  
KY8  H30  H30  H  0  1  N  N  N  13.846  29.713  20.426  -5.123  -0.019  -1.790  H30  KY8  61  
KY8  H31  H31  H  0  1  N  N  N  12.420  30.278  12.596   1.898  -0.661   4.599  H31  KY8  62  
KY8  H32  H32  H  0  1  N  N  N  11.543  26.699  12.837   3.943  -0.458   3.800  H32  KY8  63  
#   #
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
KY8  C09  N10  DOUB  Y  N   1  
KY8  C09  N08  SING  Y  N   2  
KY8  N10  C11  SING  Y  N   3  
KY8  N08  C07  DOUB  Y  N   4  
KY8  C11  N12  SING  N  N   5  
KY8  C11  C13  DOUB  Y  N   6  
KY8  C07  C13  SING  Y  N   7  
KY8  C07  N06  SING  Y  N   8  
KY8  O01  C02  SING  N  N   9  
KY8  C13  N14  SING  Y  N  10  
KY8  O04  C03  SING  N  N  11  
KY8  C05  N06  SING  N  N  12  
KY8  C05  C03  SING  N  N  13  
KY8  C05  O16  SING  N  N  14  
KY8  N06  C15  SING  Y  N  15  
KY8  C03  C02  SING  N  N  16  
KY8  O16  C17  SING  N  N  17  
KY8  C02  C17  SING  N  N  18  
KY8  C22  N23  SING  N  N  19  
KY8  C22  C21  SING  N  N  20  
KY8  C17  C18  SING  N  N  21  
KY8  N14  C15  DOUB  Y  N  22  
KY8  C21  C20  SING  N  N  23  
KY8  C20  N19  SING  N  N  24  
KY8  C18  N19  SING  N  N  25  
KY8  N19  C24  SING  N  N  26  
KY8  C24  C25  SING  N  N  27  
KY8  C25  C26  SING  N  N  28  
KY8  C26  N27  SING  N  N  29  
KY8  N27  C28  SING  N  N  30  
KY8  N33  C28  DOUB  Y  N  31  
KY8  N33  C32  SING  Y  N  32  
KY8  C28  N29  SING  Y  N  33  
KY8  C32  C31  DOUB  Y  N  34  
KY8  N29  C30  DOUB  Y  N  35  
KY8  C31  C30  SING  Y  N  36  
KY8  C02  H1   SING  N  N  37  
KY8  C03  H2   SING  N  N  38  
KY8  C05  H3   SING  N  N  39  
KY8  N12  H4   SING  N  N  40  
KY8  N12  H5   SING  N  N  41  
KY8  C15  H6   SING  N  N  42  
KY8  C17  H7   SING  N  N  43  
KY8  C18  H8   SING  N  N  44  
KY8  C18  H9   SING  N  N  45  
KY8  C20  H10  SING  N  N  46  
KY8  C20  H11  SING  N  N  47  
KY8  C09  H12  SING  N  N  48  
KY8  C21  H13  SING  N  N  49  
KY8  C21  H14  SING  N  N  50  
KY8  C22  H15  SING  N  N  51  
KY8  C22  H16  SING  N  N  52  
KY8  C24  H17  SING  N  N  53  
KY8  C24  H18  SING  N  N  54  
KY8  C25  H19  SING  N  N  55  
KY8  C25  H20  SING  N  N  56  
KY8  C26  H21  SING  N  N  57  
KY8  C26  H22  SING  N  N  58  
KY8  C30  H23  SING  N  N  59  
KY8  C31  H24  SING  N  N  60  
KY8  C32  H25  SING  N  N  61  
KY8  N23  H27  SING  N  N  62  
KY8  N23  H28  SING  N  N  63  
KY8  N27  H30  SING  N  N  64  
KY8  O01  H31  SING  N  N  65  
KY8  O04  H32  SING  N  N  66  
#   #
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
KY8  InChI             InChI                 1.03   "InChI=1S/C20H30N10O3/c21-4-1-8-29(9-3-7-25-20-23-5-2-6-24-20)10-13-15(31)16(32)19(33-13)30-12-28-14-17(22)26-11-27-18(14)30/h2,5-6,11-13,15-16,19,31-32H,1,3-4,7-10,21H2,(H2,22,26,27)(H,23,24,25)/t13-,15-,16-,19-/m1/s1"  
KY8  InChIKey          InChI                 1.03   WJNNCQSJBOESHI-NVQRDWNXSA-N  
KY8  SMILES_CANONICAL  CACTVS                3.385  "NCCCN(CCCNc1ncccn1)C[C@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(N)ncnc34"  
KY8  SMILES            CACTVS                3.385  "NCCCN(CCCNc1ncccn1)C[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(N)ncnc34"  
KY8  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1cnc(nc1)NCCCN(CCCN)C[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O"  
KY8  SMILES            "OpenEye OEToolkits"  2.0.7  "c1cnc(nc1)NCCCN(CCCN)CC2C(C(C(O2)n3cnc4c3ncnc4N)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          KY8
_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~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-azanylpropyl-[3-(pyrimidin-2-ylamino)propyl]amino]methyl]oxolane-3,4-diol"
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
KY8  "Create component"  2019-07-04  PDBE  
KY8  "Initial release"   2020-03-04  RCSB  
##
