data_Q9K
#

_chem_comp.id                                   Q9K
_chem_comp.name                                 "(2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynyl-(3-azanylpropyl)amino]methyl]oxolane-3,4-diol"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C26 H34 N12 O7"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-05-28
_chem_comp.pdbx_modified_date                   2021-05-21
_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                       626.624
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    Q9K
_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       6Z64
_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
Q9K  O3   O1   O  0  1  N  N  N  19.046   9.625  16.164  -6.922  -0.949   0.320  O3   Q9K   1  
Q9K  C4   C1   C  0  1  N  N  N  15.858  10.875  12.837  -1.603  -0.809   0.082  C4   Q9K   2  
Q9K  C5   C2   C  0  1  N  N  N  17.044  10.988  12.888  -2.402   0.006  -0.193  C5   Q9K   3  
Q9K  O4   O2   O  0  1  N  N  N  15.703   8.402   9.812   3.250  -0.700  -0.232  O4   Q9K   4  
Q9K  C6   C3   C  0  1  Y  N  N  18.416  11.331  12.860  -3.377   0.999  -0.528  C6   Q9K   5  
Q9K  N1   N1   N  0  1  N  N  N  13.781   9.852  11.906   0.552  -1.711  -0.476  N1   Q9K   6  
Q9K  C7   C4   C  0  1  Y  N  N  20.264  12.286  12.412  -4.362   2.658  -1.531  C7   Q9K   7  
Q9K  C8   C5   C  0  1  Y  N  N  21.322  13.079  11.938  -4.781   3.737  -2.332  C8   Q9K   8  
Q9K  N2   N2   N  0  1  Y  N  N  18.883  12.449  12.353  -3.260   1.877  -1.497  N2   Q9K   9  
Q9K  C9   C6   C  0  1  Y  N  N  22.755  11.450  12.741  -6.733   3.845  -1.105  C9   Q9K  10  
Q9K  O5   O3   O  0  1  N  N  N  17.839  10.295   7.953   6.399  -2.194  -0.861  O5   Q9K  11  
Q9K  C10  C7   C  0  1  Y  N  N  20.595  11.085  12.998  -5.219   2.222  -0.505  C10  Q9K  12  
Q9K  O6   O4   O  0  1  N  N  N  15.503  11.640   8.322   4.518  -3.896  -1.082  O6   Q9K  13  
Q9K  C11  C8   C  0  1  N  N  R  19.282   9.135  13.868  -5.085   0.393   1.241  C11  Q9K  14  
Q9K  C12  C9   C  0  1  N  N  R  18.482   7.015  13.714  -4.446  -1.056   2.931  C12  Q9K  15  
Q9K  N3   N3   N  0  1  N  N  N  21.150  14.198  11.222  -3.981   4.212  -3.356  N3   Q9K  16  
Q9K  C13  C10  C  0  1  N  N  N  17.275   6.333  13.133  -3.242  -1.936   3.271  C13  Q9K  17  
Q9K  C14  C11  C  0  1  N  N  S  18.348   7.473  15.182  -5.443  -1.844   2.060  C14  Q9K  18  
Q9K  C15  C12  C  0  1  N  N  R  18.381   8.998  15.080  -5.566  -1.002   0.767  C15  Q9K  19  
Q9K  N4   N4   N  0  1  Y  N  N  22.579  12.628  12.131  -5.962   4.291  -2.080  N4   Q9K  20  
Q9K  N    N5   N  0  1  N  N  N  12.543   6.971  15.058  -1.298  -5.185  -3.390  N    Q9K  21  
Q9K  C    C13  C  0  1  N  N  N  11.974   8.110  14.314  -0.738  -3.828  -3.348  C    Q9K  22  
Q9K  O    O5   O  0  1  N  N  N  18.776   8.200  12.939  -4.021   0.086   2.168  O    Q9K  23  
Q9K  C1   C14  C  0  1  N  N  N  12.294   8.086  12.827  -0.408  -3.457  -1.900  C1   Q9K  24  
Q9K  C16  C15  C  0  1  N  N  N  13.869   9.864  10.436   1.668  -2.549  -0.019  C16  Q9K  25  
Q9K  C17  C16  C  0  1  N  N  R  15.262   9.772   9.838   2.970  -2.053  -0.652  C17  Q9K  26  
Q9K  C18  C17  C  0  1  N  N  R  16.809   8.325   8.932   4.666  -0.519  -0.452  C18  Q9K  27  
Q9K  C19  C18  C  0  1  N  N  R  16.672   9.481   7.920   5.309  -1.850  -0.003  C19  Q9K  28  
Q9K  C2   C19  C  0  1  N  N  N  13.711   8.500  12.469   0.175  -2.043  -1.857  C2   Q9K  29  
Q9K  C20  C20  C  0  1  N  N  S  15.407  10.223   8.390   4.168  -2.882  -0.138  C20  Q9K  30  
Q9K  C21  C21  C  0  1  Y  N  N  15.793   6.379   7.667   4.609   1.075   1.504  C21  Q9K  31  
Q9K  C22  C22  C  0  1  Y  N  N  17.426   5.035   7.547   6.369   2.288   1.138  C22  Q9K  32  
Q9K  C23  C23  C  0  1  Y  N  N  18.371   4.022   7.269   7.441   3.197   1.126  C23  Q9K  33  
Q9K  C24  C24  C  0  1  Y  N  N  19.919   5.307   8.406   8.214   2.207  -0.811  C24  Q9K  34  
Q9K  C25  C25  C  0  1  Y  N  N  17.886   6.126   8.268   6.292   1.339   0.104  C25  Q9K  35  
Q9K  C3   C26  C  0  1  N  N  N  14.389  10.892  12.740  -0.601  -1.831   0.427  C3   Q9K  36  
Q9K  N10  N6   N  0  1  Y  N  N  19.630   4.199   7.719   8.328   3.117   0.139  N10  Q9K  37  
Q9K  N11  N7   N  0  1  Y  N  N  19.116   6.320   8.741   7.228   1.336  -0.840  N11  Q9K  38  
Q9K  N5   N8   N  0  1  Y  N  N  21.830  10.605  13.207  -6.384   2.839  -0.331  N5   Q9K  39  
Q9K  N6   N9   N  0  1  Y  N  N  19.401  10.452  13.291  -4.579   1.176   0.111  N6   Q9K  40  
Q9K  N7   N10  N  0  1  Y  N  N  16.819   6.996   8.328   5.170   0.593   0.358  N7   Q9K  41  
Q9K  N8   N11  N  0  1  Y  N  N  16.104   5.197   7.181   5.315   2.069   1.959  N8   Q9K  42  
Q9K  N9   N12  N  0  1  N  N  N  18.090   2.912   6.565   7.569   4.154   2.117  N9   Q9K  43  
Q9K  O1   O6   O  0  1  N  N  N  16.250   7.274  12.906  -2.381  -1.238   4.173  O1   Q9K  44  
Q9K  O2   O7   O  0  1  N  N  N  19.497   7.038  15.883  -6.709  -1.944   2.714  O2   Q9K  45  
Q9K  H1   H1   H  0  1  N  N  N  18.510   9.560  16.946  -7.269  -1.798   0.013  H1   Q9K  46  
Q9K  H3   H3   H  0  1  N  N  N  23.781  11.141  12.875  -7.686   4.324  -0.936  H3   Q9K  47  
Q9K  H4   H4   H  0  1  N  N  N  18.586   9.790   7.655   6.802  -3.050  -0.661  H4   Q9K  48  
Q9K  H5   H5   H  0  1  N  N  N  14.691  12.028   8.626   5.301  -4.407  -0.838  H5   Q9K  49  
Q9K  H6   H6   H  0  1  N  N  N  20.286   8.808  14.175  -5.891   0.926   1.746  H6   Q9K  50  
Q9K  H7   H7   H  0  1  N  N  N  19.335   6.323  13.652  -4.935  -0.727   3.848  H7   Q9K  51  
Q9K  H8   H8   H  0  1  N  N  N  22.040  14.544  10.925  -4.280   4.956  -3.901  H8   Q9K  52  
Q9K  H9   H9   H  0  1  N  N  N  20.586  13.998  10.421  -3.120   3.799  -3.530  H9   Q9K  53  
Q9K  H10  H10  H  0  1  N  N  N  16.916   5.567  13.836  -3.587  -2.859   3.738  H10  Q9K  54  
Q9K  H11  H11  H  0  1  N  N  N  17.549   5.857  12.180  -2.696  -2.174   2.358  H11  Q9K  55  
Q9K  H12  H12  H  0  1  N  N  N  17.406   7.119  15.626  -5.051  -2.836   1.835  H12  Q9K  56  
Q9K  H13  H13  H  0  1  N  N  N  17.379   9.410  14.889  -4.915  -1.392  -0.015  H13  Q9K  57  
Q9K  H14  H14  H  0  1  N  N  N  12.297   7.047  16.024  -1.524  -5.454  -4.335  H14  Q9K  58  
Q9K  H15  H15  H  0  1  N  N  N  12.179   6.116  14.688  -0.668  -5.850  -2.966  H15  Q9K  59  
Q9K  H17  H17  H  0  1  N  N  N  12.376   9.040  14.741   0.171  -3.791  -3.948  H17  Q9K  60  
Q9K  H18  H18  H  0  1  N  N  N  10.881   8.093  14.435  -1.466  -3.122  -3.747  H18  Q9K  61  
Q9K  H19  H19  H  0  1  N  N  N  11.599   8.770  12.317  -1.317  -3.493  -1.300  H19  Q9K  62  
Q9K  H20  H20  H  0  1  N  N  N  12.135   7.061  12.460   0.320  -4.162  -1.501  H20  Q9K  63  
Q9K  H21  H21  H  0  1  N  N  N  13.415  10.801  10.082   1.746  -2.490   1.066  H21  Q9K  64  
Q9K  H22  H22  H  0  1  N  N  N  13.287   9.010  10.060   1.491  -3.583  -0.315  H22  Q9K  65  
Q9K  H23  H23  H  0  1  N  N  N  15.948  10.368  10.458   2.908  -2.108  -1.739  H23  Q9K  66  
Q9K  H24  H24  H  0  1  N  N  N  17.743   8.473   9.494   4.865  -0.338  -1.508  H24  Q9K  67  
Q9K  H25  H25  H  0  1  N  N  N  16.503   9.069   6.914   5.645  -1.784   1.032  H25  Q9K  68  
Q9K  H26  H26  H  0  1  N  N  N  14.109   7.790  11.729  -0.571  -1.331  -2.211  H26  Q9K  69  
Q9K  H27  H27  H  0  1  N  N  N  14.328   8.465  13.379   1.057  -1.994  -2.496  H27  Q9K  70  
Q9K  H28  H28  H  0  1  N  N  N  14.544   9.864   7.810   3.939  -3.327   0.831  H28  Q9K  71  
Q9K  H29  H29  H  0  1  N  N  N  14.815   6.823   7.554   3.710   0.691   1.963  H29  Q9K  72  
Q9K  H30  H30  H  0  1  N  N  N  20.943   5.396   8.736   8.958   2.177  -1.593  H30  Q9K  73  
Q9K  H31  H31  H  0  1  N  N  N  14.092  11.868  12.329  -0.272  -1.685   1.456  H31  Q9K  74  
Q9K  H32  H32  H  0  1  N  N  N  13.985  10.785  13.757  -1.042  -2.822   0.324  H32  Q9K  75  
Q9K  H33  H33  H  0  1  N  N  N  18.915   2.353   6.479   6.914   4.202   2.832  H33  Q9K  76  
Q9K  H34  H34  H  0  1  N  N  N  17.381   2.389   7.037   8.313   4.776   2.098  H34  Q9K  77  
Q9K  H35  H35  H  0  1  N  N  N  15.492   6.835  12.539  -1.594  -1.738   4.432  H35  Q9K  78  
Q9K  H36  H36  H  0  1  N  N  N  19.436   7.310  16.791  -6.680  -2.412   3.560  H36  Q9K  79  
#   #
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
Q9K  N9   C23  SING  N  N   1  
Q9K  N8   C22  SING  Y  N   2  
Q9K  N8   C21  DOUB  Y  N   3  
Q9K  C23  C22  DOUB  Y  N   4  
Q9K  C23  N10  SING  Y  N   5  
Q9K  C22  C25  SING  Y  N   6  
Q9K  C21  N7   SING  Y  N   7  
Q9K  N10  C24  DOUB  Y  N   8  
Q9K  C19  O5   SING  N  N   9  
Q9K  C19  C20  SING  N  N  10  
Q9K  C19  C18  SING  N  N  11  
Q9K  C25  N7   SING  Y  N  12  
Q9K  C25  N11  DOUB  Y  N  13  
Q9K  O6   C20  SING  N  N  14  
Q9K  N7   C18  SING  N  N  15  
Q9K  C20  C17  SING  N  N  16  
Q9K  C24  N11  SING  Y  N  17  
Q9K  C18  O4   SING  N  N  18  
Q9K  O4   C17  SING  N  N  19  
Q9K  C17  C16  SING  N  N  20  
Q9K  C16  N1   SING  N  N  21  
Q9K  N3   C8   SING  N  N  22  
Q9K  N1   C2   SING  N  N  23  
Q9K  N1   C3   SING  N  N  24  
Q9K  C8   N4   DOUB  Y  N  25  
Q9K  C8   C7   SING  Y  N  26  
Q9K  N4   C9   SING  Y  N  27  
Q9K  N2   C7   SING  Y  N  28  
Q9K  N2   C6   DOUB  Y  N  29  
Q9K  C7   C10  DOUB  Y  N  30  
Q9K  C2   C1   SING  N  N  31  
Q9K  C3   C4   SING  N  N  32  
Q9K  C9   N5   DOUB  Y  N  33  
Q9K  C1   C    SING  N  N  34  
Q9K  C4   C5   TRIP  N  N  35  
Q9K  C6   C5   SING  N  N  36  
Q9K  C6   N6   SING  Y  N  37  
Q9K  O1   C13  SING  N  N  38  
Q9K  O    C12  SING  N  N  39  
Q9K  O    C11  SING  N  N  40  
Q9K  C10  N5   SING  Y  N  41  
Q9K  C10  N6   SING  Y  N  42  
Q9K  C13  C12  SING  N  N  43  
Q9K  N6   C11  SING  N  N  44  
Q9K  C12  C14  SING  N  N  45  
Q9K  C11  C15  SING  N  N  46  
Q9K  C    N    SING  N  N  47  
Q9K  C15  C14  SING  N  N  48  
Q9K  C15  O3   SING  N  N  49  
Q9K  C14  O2   SING  N  N  50  
Q9K  O3   H1   SING  N  N  51  
Q9K  C9   H3   SING  N  N  52  
Q9K  O5   H4   SING  N  N  53  
Q9K  O6   H5   SING  N  N  54  
Q9K  C11  H6   SING  N  N  55  
Q9K  C12  H7   SING  N  N  56  
Q9K  N3   H8   SING  N  N  57  
Q9K  N3   H9   SING  N  N  58  
Q9K  C13  H10  SING  N  N  59  
Q9K  C13  H11  SING  N  N  60  
Q9K  C14  H12  SING  N  N  61  
Q9K  C15  H13  SING  N  N  62  
Q9K  N    H14  SING  N  N  63  
Q9K  N    H15  SING  N  N  64  
Q9K  C    H17  SING  N  N  65  
Q9K  C    H18  SING  N  N  66  
Q9K  C1   H19  SING  N  N  67  
Q9K  C1   H20  SING  N  N  68  
Q9K  C16  H21  SING  N  N  69  
Q9K  C16  H22  SING  N  N  70  
Q9K  C17  H23  SING  N  N  71  
Q9K  C18  H24  SING  N  N  72  
Q9K  C19  H25  SING  N  N  73  
Q9K  C2   H26  SING  N  N  74  
Q9K  C2   H27  SING  N  N  75  
Q9K  C20  H28  SING  N  N  76  
Q9K  C21  H29  SING  N  N  77  
Q9K  C24  H30  SING  N  N  78  
Q9K  C3   H31  SING  N  N  79  
Q9K  C3   H32  SING  N  N  80  
Q9K  N9   H33  SING  N  N  81  
Q9K  N9   H34  SING  N  N  82  
Q9K  O1   H35  SING  N  N  83  
Q9K  O2   H36  SING  N  N  84  
#   #
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
Q9K  InChI             InChI                 1.03   "InChI=1S/C26H34N12O7/c27-4-2-6-36(7-12-17(40)19(42)25(44-12)37-11-34-15-21(28)30-9-32-23(15)37)5-1-3-14-35-16-22(29)31-10-33-24(16)38(14)26-20(43)18(41)13(8-39)45-26/h9-13,17-20,25-26,39-43H,2,4-8,27H2,(H2,28,30,32)(H2,29,31,33)/t12-,13-,17-,18-,19-,20-,25-,26-/m1/s1"  
Q9K  InChIKey          InChI                 1.03   WXECJKFATFMCJP-DQSURDJZSA-N  
Q9K  SMILES_CANONICAL  CACTVS                3.385  "NCCCN(CC#Cc1nc2c(N)ncnc2n1[C@@H]3O[C@H](CO)[C@@H](O)[C@H]3O)C[C@H]4O[C@H]([C@H](O)[C@@H]4O)n5cnc6c(N)ncnc56"  
Q9K  SMILES            CACTVS                3.385  "NCCCN(CC#Cc1nc2c(N)ncnc2n1[CH]3O[CH](CO)[CH](O)[CH]3O)C[CH]4O[CH]([CH](O)[CH]4O)n5cnc6c(N)ncnc56"  
Q9K  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CN(CCCN)CC#Cc4nc5c(ncnc5n4[C@H]6[C@@H]([C@@H]([C@H](O6)CO)O)O)N)O)O)N"  
Q9K  SMILES            "OpenEye OEToolkits"  2.0.7  "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CN(CCCN)CC#Cc4nc5c(ncnc5n4C6C(C(C(O6)CO)O)O)N)O)O)N"  
#
_pdbx_chem_comp_identifier.comp_id          Q9K
_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-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynyl-(3-azanylpropyl)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
Q9K  "Create component"  2020-05-28  PDBE  
Q9K  "Initial release"   2021-05-26  RCSB  
##
