data_KY5
#

_chem_comp.id                                   KY5
_chem_comp.name                                 "(2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-azanylpropyl-[3-(pyridin-2-ylamino)propyl]amino]methyl]oxolane-3,4-diol"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C21 H31 N9 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                       457.529
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    KY5
_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       6S7A
_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
KY5  C02  C1   C  0  1  N  N  S  11.902  12.823  -27.877   1.925   3.281  -0.309  C02  KY5   1  
KY5  C03  C2   C  0  1  N  N  R  11.387  12.118  -26.721   3.024   2.210  -0.135  C03  KY5   2  
KY5  C05  C3   C  0  1  N  N  R  12.488  11.151  -26.480   2.263   0.974   0.396  C05  KY5   3  
KY5  C07  C4   C  0  1  Y  N  N  12.893   9.440  -24.682   3.902  -0.953   0.303  C07  KY5   4  
KY5  C09  C5   C  0  1  Y  N  N  13.041   7.122  -24.688   5.702  -1.676   1.537  C09  KY5   5  
KY5  C11  C6   C  0  1  Y  N  N  13.353   8.269  -22.643   5.117  -2.946  -0.299  C11  KY5   6  
KY5  C13  C7   C  0  1  Y  N  N  13.158   9.498  -23.332   4.067  -2.049  -0.560  C13  KY5   7  
KY5  C15  C8   C  0  1  Y  N  N  12.906  11.556  -24.062   2.367  -0.910  -1.279  C15  KY5   8  
KY5  C17  C9   C  0  1  N  N  R  13.155  12.610  -28.011   0.630   2.566   0.137  C17  KY5   9  
KY5  C18  C10  C  0  1  N  N  N  14.086  13.708  -27.860  -0.547   3.001  -0.739  C18  KY5  10  
KY5  C20  C11  C  0  1  N  N  N  14.871  16.012  -28.541  -2.962   3.161  -0.687  C20  KY5  11  
KY5  C21  C12  C  0  1  N  N  N  14.120  16.798  -27.462  -3.024   4.513   0.026  C21  KY5  12  
KY5  C22  C13  C  0  1  N  N  N  14.583  18.280  -27.461  -4.314   5.237  -0.365  C22  KY5  13  
KY5  C24  C14  C  0  1  N  N  N  14.450  14.384  -30.348  -1.890   0.993  -0.580  C24  KY5  14  
KY5  C25  C15  C  0  1  N  N  N  15.998  14.077  -30.484  -3.041   0.350   0.197  C25  KY5  15  
KY5  C26  C16  C  0  1  N  N  N  16.290  13.329  -31.827  -3.146  -1.129  -0.179  C26  KY5  16  
KY5  C28  C17  C  0  1  Y  N  N  16.474  15.270  -33.292  -4.539  -3.092   0.387  C28  KY5  17  
KY5  C29  C18  C  0  1  Y  N  N  17.909  15.579  -32.832  -3.780  -3.851  -0.498  C29  KY5  18  
KY5  C30  C19  C  0  1  Y  N  N  18.646  16.752  -33.392  -4.081  -5.190  -0.665  C30  KY5  19  
KY5  C31  C20  C  0  1  Y  N  N  17.975  17.619  -34.418  -5.135  -5.729   0.061  C31  KY5  20  
KY5  C32  C21  C  0  1  Y  N  N  16.554  17.302  -34.849  -5.846  -4.918   0.922  C32  KY5  21  
KY5  N06  N1   N  0  1  Y  N  N  12.726  10.743  -25.128   2.823  -0.253  -0.175  N06  KY5  22  
KY5  N08  N2   N  0  1  Y  N  N  12.828   8.255  -25.360   4.735  -0.807   1.329  N08  KY5  23  
KY5  N10  N3   N  0  1  Y  N  N  13.298   7.123  -23.362   5.896  -2.721   0.753  N10  KY5  24  
KY5  N12  N4   N  0  1  N  N  N  13.574   8.228  -21.210   5.328  -4.044  -1.115  N12  KY5  25  
KY5  N14  N5   N  0  1  Y  N  N  13.120  10.818  -22.942   3.098  -1.964  -1.503  N14  KY5  26  
KY5  N19  N6   N  0  1  N  N  N  14.074  14.805  -28.924  -1.788   2.413  -0.218  N19  KY5  27  
KY5  N23  N7   N  0  1  N  N  N  15.855  18.309  -26.771  -4.374   6.535   0.321  N23  KY5  28  
KY5  N27  N8   N  0  1  N  N  N  15.787  14.274  -32.866  -4.248  -1.745   0.564  N27  KY5  29  
KY5  N33  N9   N  0  1  Y  N  N  15.817  16.143  -34.317  -5.540  -3.641   1.058  N33  KY5  30  
KY5  O01  O1   O  0  1  N  N  N  11.255  12.348  -29.119   2.190   4.411   0.526  O01  KY5  31  
KY5  O04  O2   O  0  1  N  N  N  10.196  11.535  -26.852   4.000   2.643   0.816  O04  KY5  32  
KY5  O16  O3   O  0  1  N  N  N  13.543  11.725  -26.877   0.902   1.160  -0.049  O16  KY5  33  
KY5  H1   H1   H  0  1  N  N  N  11.687  13.896  -27.762   1.852   3.588  -1.352  H1   KY5  34  
KY5  H2   H2   H  0  1  N  N  N  11.367  12.819  -25.874   3.495   1.986  -1.092  H2   KY5  35  
KY5  H3   H3   H  0  1  N  N  N  12.281  10.253  -27.081   2.308   0.940   1.485  H3   KY5  36  
KY5  H4   H4   H  0  1  N  N  N  13.007   6.181  -25.217   6.358  -1.531   2.382  H4   KY5  37  
KY5  H5   H5   H  0  1  N  N  N  12.883  12.635  -24.096   1.524  -0.603  -1.879  H5   KY5  38  
KY5  H6   H6   H  0  1  N  N  N  13.376  12.083  -28.951   0.421   2.779   1.185  H6   KY5  39  
KY5  H7   H7   H  0  1  N  N  N  15.099  13.279  -27.843  -0.627   4.088  -0.726  H7   KY5  40  
KY5  H8   H8   H  0  1  N  N  N  13.874  14.187  -26.893  -0.384   2.661  -1.761  H8   KY5  41  
KY5  H9   H9   H  0  1  N  N  N  15.850  15.696  -28.150  -3.866   2.593  -0.468  H9   KY5  42  
KY5  H10  H10  H  0  1  N  N  N  15.017  16.650  -29.425  -2.885   3.321  -1.763  H10  KY5  43  
KY5  H11  H11  H  0  1  N  N  N  13.040  16.755  -27.666  -3.009   4.356   1.105  H11  KY5  44  
KY5  H12  H12  H  0  1  N  N  N  14.326  16.352  -26.478  -2.166   5.117  -0.265  H12  KY5  45  
KY5  H13  H13  H  0  1  N  N  N  14.701  18.643  -28.493  -4.330   5.394  -1.443  H13  KY5  46  
KY5  H14  H14  H  0  1  N  N  N  13.849  18.908  -26.934  -5.173   4.632  -0.073  H14  KY5  47  
KY5  H15  H15  H  0  1  N  N  N  14.187  15.197  -31.040  -0.957   0.487  -0.331  H15  KY5  48  
KY5  H16  H16  H  0  1  N  N  N  13.883  13.479  -30.613  -2.078   0.903  -1.649  H16  KY5  49  
KY5  H17  H17  H  0  1  N  N  N  16.318  13.447  -29.641  -2.852   0.440   1.267  H17  KY5  50  
KY5  H18  H18  H  0  1  N  N  N  16.558  15.024  -30.467  -3.974   0.856  -0.052  H18  KY5  51  
KY5  H19  H19  H  0  1  N  N  N  15.749  12.372  -31.870  -3.335  -1.219  -1.249  H19  KY5  52  
KY5  H20  H20  H  0  1  N  N  N  17.368  13.147  -31.950  -2.213  -1.635   0.069  H20  KY5  53  
KY5  H21  H21  H  0  1  N  N  N  18.387  14.944  -32.100  -2.967  -3.400  -1.048  H21  KY5  54  
KY5  H22  H22  H  0  1  N  N  N  19.650  16.974  -33.062  -3.509  -5.804  -1.346  H22  KY5  55  
KY5  H23  H23  H  0  1  N  N  N  18.499  18.461  -34.846  -5.395  -6.771  -0.047  H23  KY5  56  
KY5  H24  H24  H  0  1  N  N  N  16.069  17.946  -35.568  -6.667  -5.332   1.489  H24  KY5  57  
KY5  H25  H25  H  0  1  N  N  N  13.665   7.277  -20.913   4.748  -4.202  -1.876  H25  KY5  58  
KY5  H26  H26  H  0  1  N  N  N  14.411   8.728  -20.987   6.056  -4.657  -0.924  H26  KY5  59  
KY5  H28  H28  H  0  1  N  N  N  16.198  19.248  -26.743  -5.218   7.033   0.079  H28  KY5  60  
KY5  H29  H29  H  0  1  N  N  N  15.736  17.970  -25.838  -4.296   6.420   1.320  H29  KY5  61  
KY5  H31  H31  H  0  1  N  N  N  14.939  14.659  -32.502  -4.775  -1.212   1.180  H31  KY5  62  
KY5  H32  H32  H  0  1  N  N  N  10.317  12.488  -29.062   3.022   4.860   0.326  H32  KY5  63  
KY5  H33  H33  H  0  1  N  N  N   9.961  11.106  -26.037   4.466   3.451   0.560  H33  KY5  64  
#   #
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
KY5  C32  C31  DOUB  Y  N   1  
KY5  C32  N33  SING  Y  N   2  
KY5  C31  C30  SING  Y  N   3  
KY5  N33  C28  DOUB  Y  N   4  
KY5  C30  C29  DOUB  Y  N   5  
KY5  C28  N27  SING  N  N   6  
KY5  C28  C29  SING  Y  N   7  
KY5  N27  C26  SING  N  N   8  
KY5  C26  C25  SING  N  N   9  
KY5  C25  C24  SING  N  N  10  
KY5  C24  N19  SING  N  N  11  
KY5  O01  C02  SING  N  N  12  
KY5  N19  C20  SING  N  N  13  
KY5  N19  C18  SING  N  N  14  
KY5  C20  C21  SING  N  N  15  
KY5  C17  C02  SING  N  N  16  
KY5  C17  C18  SING  N  N  17  
KY5  C17  O16  SING  N  N  18  
KY5  C02  C03  SING  N  N  19  
KY5  C21  C22  SING  N  N  20  
KY5  C22  N23  SING  N  N  21  
KY5  O16  C05  SING  N  N  22  
KY5  O04  C03  SING  N  N  23  
KY5  C03  C05  SING  N  N  24  
KY5  C05  N06  SING  N  N  25  
KY5  N08  C09  DOUB  Y  N  26  
KY5  N08  C07  SING  Y  N  27  
KY5  N06  C07  SING  Y  N  28  
KY5  N06  C15  SING  Y  N  29  
KY5  C09  N10  SING  Y  N  30  
KY5  C07  C13  DOUB  Y  N  31  
KY5  C15  N14  DOUB  Y  N  32  
KY5  N10  C11  DOUB  Y  N  33  
KY5  C13  N14  SING  Y  N  34  
KY5  C13  C11  SING  Y  N  35  
KY5  C11  N12  SING  N  N  36  
KY5  C02  H1   SING  N  N  37  
KY5  C03  H2   SING  N  N  38  
KY5  C05  H3   SING  N  N  39  
KY5  C09  H4   SING  N  N  40  
KY5  C15  H5   SING  N  N  41  
KY5  C17  H6   SING  N  N  42  
KY5  C18  H7   SING  N  N  43  
KY5  C18  H8   SING  N  N  44  
KY5  C20  H9   SING  N  N  45  
KY5  C20  H10  SING  N  N  46  
KY5  C21  H11  SING  N  N  47  
KY5  C21  H12  SING  N  N  48  
KY5  C22  H13  SING  N  N  49  
KY5  C22  H14  SING  N  N  50  
KY5  C24  H15  SING  N  N  51  
KY5  C24  H16  SING  N  N  52  
KY5  C25  H17  SING  N  N  53  
KY5  C25  H18  SING  N  N  54  
KY5  C26  H19  SING  N  N  55  
KY5  C26  H20  SING  N  N  56  
KY5  C29  H21  SING  N  N  57  
KY5  C30  H22  SING  N  N  58  
KY5  C31  H23  SING  N  N  59  
KY5  C32  H24  SING  N  N  60  
KY5  N12  H25  SING  N  N  61  
KY5  N12  H26  SING  N  N  62  
KY5  N23  H28  SING  N  N  63  
KY5  N23  H29  SING  N  N  64  
KY5  N27  H31  SING  N  N  65  
KY5  O01  H32  SING  N  N  66  
KY5  O04  H33  SING  N  N  67  
#   #
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
KY5  InChI             InChI                 1.03   "InChI=1S/C21H31N9O3/c22-6-3-9-29(10-4-8-25-15-5-1-2-7-24-15)11-14-17(31)18(32)21(33-14)30-13-28-16-19(23)26-12-27-20(16)30/h1-2,5,7,12-14,17-18,21,31-32H,3-4,6,8-11,22H2,(H,24,25)(H2,23,26,27)/t14-,17-,18-,21-/m1/s1"  
KY5  InChIKey          InChI                 1.03   YWUJVBSQHYBLFQ-HAXDFEGKSA-N  
KY5  SMILES_CANONICAL  CACTVS                3.385  "NCCCN(CCCNc1ccccn1)C[C@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(N)ncnc34"  
KY5  SMILES            CACTVS                3.385  "NCCCN(CCCNc1ccccn1)C[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(N)ncnc34"  
KY5  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1ccnc(c1)NCCCN(CCCN)C[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O"  
KY5  SMILES            "OpenEye OEToolkits"  2.0.7  "c1ccnc(c1)NCCCN(CCCN)CC2C(C(C(O2)n3cnc4c3ncnc4N)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          KY5
_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-(pyridin-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
KY5  "Create component"  2019-07-04  EBI   
KY5  "Initial release"   2020-03-04  RCSB  
##
