data_QPY
#

_chem_comp.id                                   QPY
_chem_comp.name                                 "benzyl (2S)-2-(4-{[2-(6-amino-9H-purin-9-yl)ethyl]carbamoyl}-5-hydroxy-6-oxo-1,6-dihydropyrimidin-2-yl)pyrrolidine-1-carboxylate"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C24 H25 N9 O5"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-12-06
_chem_comp.pdbx_modified_date                   2020-12-04
_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                       519.513
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    QPY
_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       6V56
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 RCSB
#   #
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
QPY  C15  C1   C  0  1  N  N  N  37.595  13.465  15.159   3.035  -2.976   1.035  C15  QPY   1  
QPY  C17  C2   C  0  1  Y  N  N  39.757  14.685  14.177   3.086  -5.398   0.407  C17  QPY   2  
QPY  C1   C3   C  0  1  N  N  N  39.353  15.137  18.240   3.538   3.932   0.901  C1   QPY   3  
QPY  C10  C4   C  0  1  Y  N  N  41.679  14.413  10.682  -6.312   1.515  -1.860  C10  QPY   4  
QPY  C11  C5   C  0  1  Y  N  N  41.450  12.084  10.754  -7.374   0.130  -0.351  C11  QPY   5  
QPY  C12  C6   C  0  1  N  N  N  39.523  12.829  17.530   3.391   2.054  -0.495  C12  QPY   6  
QPY  C13  C7   C  0  1  N  N  S  38.924  11.431  17.380   4.065   1.109  -1.456  C13  QPY   7  
QPY  C14  C8   C  0  1  N  N  N  38.898  11.480  14.727   3.525  -0.994  -0.202  C14  QPY   8  
QPY  C16  C9   C  0  1  Y  N  N  38.262  14.673  14.494   2.357  -4.308   0.847  C16  QPY   9  
QPY  C18  C10  C  0  1  Y  N  N  40.309  15.745  13.620   2.463  -6.619   0.229  C18  QPY  10  
QPY  C19  C11  C  0  1  Y  N  N  39.462  16.977  13.310   1.112  -6.751   0.491  C19  QPY  11  
QPY  C2   C12  C  0  1  N  N  N  40.678  15.374  17.689   2.120   3.734   1.228  C2   QPY  12  
QPY  C20  C13  C  0  1  Y  N  N  38.179  16.973  13.603   0.384  -5.662   0.932  C20  QPY  13  
QPY  C21  C14  C  0  1  Y  N  N  37.538  15.743  14.241   1.008  -4.442   1.115  C21  QPY  14  
QPY  C22  C15  C  0  1  N  N  N  40.313   9.889  16.229   2.878  -0.625  -2.600  C22  QPY  15  
QPY  C23  C16  C  0  1  N  N  N  40.262   9.462  17.711   3.612   0.227  -3.665  C23  QPY  16  
QPY  C24  C17  C  0  1  N  N  N  39.470  10.510  18.437   3.812   1.567  -2.908  C24  QPY  17  
QPY  C3   C18  C  0  1  N  N  N  41.368  14.328  17.071   1.463   2.669   0.633  C3   QPY  18  
QPY  C4   C19  C  0  1  N  N  N  42.755  14.497  16.454   0.034   2.418   0.922  C4   QPY  19  
QPY  C5   C20  C  0  1  N  N  N  44.708  13.458  15.260  -2.015   1.131   0.626  C5   QPY  20  
QPY  C6   C21  C  0  1  N  N  N  44.671  13.814  13.772  -2.485  -0.097  -0.156  C6   QPY  21  
QPY  C7   C22  C  0  1  Y  N  N  43.890  11.588  13.276  -4.395  -1.201   1.069  C7   QPY  22  
QPY  C8   C23  C  0  1  Y  N  N  42.393  12.046  11.712  -6.118  -0.301   0.106  C8   QPY  23  
QPY  C9   C24  C  0  1  Y  N  N  42.972  13.213  12.145  -4.970   0.240  -0.498  C9   QPY  24  
QPY  N1   N1   N  0  1  N  N  N  38.786  13.895  18.157   4.115   3.068   0.037  N1   QPY  25  
QPY  N2   N2   N  0  1  N  N  N  43.394  13.334  15.859  -0.600   1.380   0.340  N2   QPY  26  
QPY  N3   N3   N  0  1  Y  N  N  43.809  12.879  13.063  -3.900  -0.345   0.130  N3   QPY  27  
QPY  N4   N4   N  0  1  Y  N  N  42.999  10.901  12.475  -5.696  -1.176   1.051  N4   QPY  28  
QPY  N5   N5   N  0  1  Y  N  N  42.637  14.389  11.654  -5.114   1.141  -1.465  N5   QPY  29  
QPY  N6   N6   N  0  1  Y  N  N  41.099  13.255  10.246  -7.418   1.031  -1.327  N6   QPY  30  
QPY  N7   N7   N  0  1  N  N  N  40.832  10.856  10.289  -8.539  -0.368   0.206  N7   QPY  31  
QPY  N8   N8   N  0  1  N  N  N  40.779  13.063  16.989   2.136   1.865  -0.210  N8   QPY  32  
QPY  N9   N9   N  0  1  N  N  N  39.318  10.978  16.039   3.493  -0.238  -1.317  N9   QPY  33  
QPY  O1   O1   O  0  1  N  N  N  38.652  16.174  18.860   4.173   4.850   1.390  O1   QPY  34  
QPY  O2   O2   O  0  1  N  N  N  41.249  16.647  17.784   1.474   4.566   2.083  O2   QPY  35  
QPY  O3   O3   O  0  1  N  N  N  43.326  15.534  16.495  -0.570   3.147   1.684  O3   QPY  36  
QPY  O4   O4   O  0  1  N  N  N  37.740  12.248  14.477   2.963  -2.217  -0.201  O4   QPY  37  
QPY  O5   O5   O  0  1  N  N  N  39.583  11.208  13.800   4.062  -0.572   0.803  O5   QPY  38  
QPY  H1   H1   H  0  1  N  N  N  36.520  13.678  15.249   2.534  -2.423   1.830  H1   QPY  39  
QPY  H2   H2   H  0  1  N  N  N  38.031  13.346  16.162   4.079  -3.133   1.304  H2   QPY  40  
QPY  H3   H3   H  0  1  N  N  N  40.363  13.822  14.410   4.140  -5.294   0.198  H3   QPY  41  
QPY  H4   H4   H  0  1  N  N  N  41.376  15.357  10.253  -6.393   2.250  -2.648  H4   QPY  42  
QPY  H5   H5   H  0  1  N  N  N  37.828  11.488  17.460   5.137   1.081  -1.258  H5   QPY  43  
QPY  H6   H6   H  0  1  N  N  N  41.363  15.742  13.383   3.032  -7.470  -0.114  H6   QPY  44  
QPY  H7   H7   H  0  1  N  N  N  39.913  17.846  12.853   0.625  -7.704   0.348  H7   QPY  45  
QPY  H8   H8   H  0  1  N  N  N  37.577  17.844  13.391  -0.671  -5.765   1.137  H8   QPY  46  
QPY  H9   H9   H  0  1  N  N  N  36.486  15.751  14.486   0.439  -3.591   1.459  H9   QPY  47  
QPY  H10  H10  H  0  1  N  N  N  40.061   9.034  15.584   1.813  -0.392  -2.595  H10  QPY  48  
QPY  H11  H11  H  0  1  N  N  N  41.320  10.253  15.978   3.032  -1.687  -2.792  H11  QPY  49  
QPY  H12  H12  H  0  1  N  N  N  39.771   8.482  17.806   4.570  -0.219  -3.930  H12  QPY  50  
QPY  H13  H13  H  0  1  N  N  N  41.280   9.403  18.123   2.990   0.368  -4.549  H13  QPY  51  
QPY  H14  H14  H  0  1  N  N  N  40.119  11.066  19.130   2.914   2.181  -2.967  H14  QPY  52  
QPY  H15  H15  H  0  1  N  N  N  38.647  10.045  18.999   4.675   2.105  -3.299  H15  QPY  53  
QPY  H16  H16  H  0  1  N  N  N  45.235  12.499  15.375  -2.603   1.999   0.329  H16  QPY  54  
QPY  H17  H17  H  0  1  N  N  N  45.260  14.246  15.793  -2.144   0.953   1.694  H17  QPY  55  
QPY  H18  H18  H  0  1  N  N  N  45.689  13.759  13.358  -2.356   0.081  -1.224  H18  QPY  56  
QPY  H19  H19  H  0  1  N  N  N  44.280  14.835  13.650  -1.896  -0.965   0.141  H19  QPY  57  
QPY  H20  H20  H  0  1  N  N  N  44.563  11.124  13.982  -3.796  -1.811   1.728  H20  QPY  58  
QPY  H21  H21  H  0  1  N  N  N  37.872  13.730  18.527   5.048   3.174  -0.203  H21  QPY  59  
QPY  H22  H22  H  0  1  N  N  N  42.927  12.450  15.863  -0.118   0.797  -0.268  H22  QPY  60  
QPY  H23  H23  H  0  1  N  N  N  40.159  11.068   9.580  -8.494  -1.023   0.920  H23  QPY  61  
QPY  H24  H24  H  0  1  N  N  N  41.534  10.252   9.912  -9.401  -0.062  -0.118  H24  QPY  62  
QPY  H25  H25  H  0  1  N  N  N  42.109  16.640  17.380   2.030   5.273   2.438  H25  QPY  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
QPY  N6   C10  DOUB  Y  N   1  
QPY  N6   C11  SING  Y  N   2  
QPY  N7   C11  SING  N  N   3  
QPY  C10  N5   SING  Y  N   4  
QPY  C11  C8   DOUB  Y  N   5  
QPY  N5   C9   DOUB  Y  N   6  
QPY  C8   C9   SING  Y  N   7  
QPY  C8   N4   SING  Y  N   8  
QPY  C9   N3   SING  Y  N   9  
QPY  N4   C7   DOUB  Y  N  10  
QPY  N3   C7   SING  Y  N  11  
QPY  N3   C6   SING  N  N  12  
QPY  C19  C20  DOUB  Y  N  13  
QPY  C19  C18  SING  Y  N  14  
QPY  C20  C21  SING  Y  N  15  
QPY  C18  C17  DOUB  Y  N  16  
QPY  C6   C5   SING  N  N  17  
QPY  O5   C14  DOUB  N  N  18  
QPY  C17  C16  SING  Y  N  19  
QPY  C21  C16  DOUB  Y  N  20  
QPY  O4   C14  SING  N  N  21  
QPY  O4   C15  SING  N  N  22  
QPY  C16  C15  SING  N  N  23  
QPY  C14  N9   SING  N  N  24  
QPY  C5   N2   SING  N  N  25  
QPY  N2   C4   SING  N  N  26  
QPY  N9   C22  SING  N  N  27  
QPY  N9   C13  SING  N  N  28  
QPY  C22  C23  SING  N  N  29  
QPY  C4   O3   DOUB  N  N  30  
QPY  C4   C3   SING  N  N  31  
QPY  N8   C3   SING  N  N  32  
QPY  N8   C12  DOUB  N  N  33  
QPY  C3   C2   DOUB  N  N  34  
QPY  C13  C12  SING  N  N  35  
QPY  C13  C24  SING  N  N  36  
QPY  C12  N1   SING  N  N  37  
QPY  C2   O2   SING  N  N  38  
QPY  C2   C1   SING  N  N  39  
QPY  C23  C24  SING  N  N  40  
QPY  N1   C1   SING  N  N  41  
QPY  C1   O1   DOUB  N  N  42  
QPY  C15  H1   SING  N  N  43  
QPY  C15  H2   SING  N  N  44  
QPY  C17  H3   SING  N  N  45  
QPY  C10  H4   SING  N  N  46  
QPY  C13  H5   SING  N  N  47  
QPY  C18  H6   SING  N  N  48  
QPY  C19  H7   SING  N  N  49  
QPY  C20  H8   SING  N  N  50  
QPY  C21  H9   SING  N  N  51  
QPY  C22  H10  SING  N  N  52  
QPY  C22  H11  SING  N  N  53  
QPY  C23  H12  SING  N  N  54  
QPY  C23  H13  SING  N  N  55  
QPY  C24  H14  SING  N  N  56  
QPY  C24  H15  SING  N  N  57  
QPY  C5   H16  SING  N  N  58  
QPY  C5   H17  SING  N  N  59  
QPY  C6   H18  SING  N  N  60  
QPY  C6   H19  SING  N  N  61  
QPY  C7   H20  SING  N  N  62  
QPY  N1   H21  SING  N  N  63  
QPY  N2   H22  SING  N  N  64  
QPY  N7   H23  SING  N  N  65  
QPY  N7   H24  SING  N  N  66  
QPY  O2   H25  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
QPY  SMILES            ACDLabs               12.01  "C(c1ccccc1)OC(N5C(C=4NC(=O)C(O)=C(C(=O)NCCn3cnc2c(ncnc23)N)N=4)CCC5)=O"  
QPY  InChI             InChI                 1.03   "InChI=1S/C24H25N9O5/c25-19-17-21(28-12-27-19)32(13-29-17)10-8-26-22(35)16-18(34)23(36)31-20(30-16)15-7-4-9-33(15)24(37)38-11-14-5-2-1-3-6-14/h1-3,5-6,12-13,15,34H,4,7-11H2,(H,26,35)(H2,25,27,28)(H,30,31,36)/t15-/m0/s1"  
QPY  InChIKey          InChI                 1.03   GEKIERMMQOYZBF-HNNXBMFYSA-N  
QPY  SMILES_CANONICAL  CACTVS                3.385  "Nc1ncnc2n(CCNC(=O)C3=C(O)C(=O)NC(=N3)[C@@H]4CCCN4C(=O)OCc5ccccc5)cnc12"  
QPY  SMILES            CACTVS                3.385  "Nc1ncnc2n(CCNC(=O)C3=C(O)C(=O)NC(=N3)[CH]4CCCN4C(=O)OCc5ccccc5)cnc12"  
QPY  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1ccc(cc1)COC(=O)N2CCC[C@H]2C3=NC(=C(C(=O)N3)O)C(=O)NCCn4cnc5c4ncnc5N"  
QPY  SMILES            "OpenEye OEToolkits"  2.0.7  "c1ccc(cc1)COC(=O)N2CCCC2C3=NC(=C(C(=O)N3)O)C(=O)NCCn4cnc5c4ncnc5N"  
#   #
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
_pdbx_chem_comp_identifier.identifier
QPY  "SYSTEMATIC NAME"  ACDLabs               12.01  "benzyl (2S)-2-(4-{[2-(6-amino-9H-purin-9-yl)ethyl]carbamoyl}-5-hydroxy-6-oxo-1,6-dihydropyrimidin-2-yl)pyrrolidine-1-carboxylate"  
QPY  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "(phenylmethyl) (2~{S})-2-[4-[2-(6-aminopurin-9-yl)ethylcarbamoyl]-5-oxidanyl-6-oxidanylidene-1~{H}-pyrimidin-2-yl]pyrrolidine-1-carboxylate"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
QPY  "Create component"  2019-12-06  RCSB  
QPY  "Initial release"   2020-12-09  RCSB  
##
