data_UDK
#

_chem_comp.id                                   UDK
_chem_comp.name                                 "(R)-N-((3-hydroxy-1-(6-(methylamino)pyrimidin-4-yl)piperidin-3-yl)methyl)-4-((4-methylpiperidin-1-yl)methyl)benzamide"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C25 H36 N6 O2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "~{N}-[[(3~{R})-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-4-[(4-methylpiperidin-1-yl)methyl]benzamide"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-02-10
_chem_comp.pdbx_modified_date                   2021-10-15
_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                       452.592
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    UDK
_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       7NHH
_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
UDK  C10  C1   C  0  1  Y  N  N  -16.333  23.754  -13.904   3.751  -0.472   1.120  C10  UDK   1  
UDK  C13  C2   C  0  1  N  N  N  -13.620  22.147  -11.935   0.501  -0.703  -0.749  C13  UDK   2  
UDK  C15  C3   C  0  1  N  N  N  -12.392  20.931  -10.153  -1.634   0.445  -0.503  C15  UDK   3  
UDK  C17  C4   C  0  1  N  N  N  -10.456  20.894  -11.712  -2.118   1.086   1.865  C17  UDK   4  
UDK  C20  C5   C  0  1  N  N  N  -11.818  18.816  -11.321  -3.738   1.673   0.057  C20  UDK   5  
UDK  C22  C6   C  0  1  Y  N  N  -10.381  16.771  -11.573  -5.751   0.472  -0.144  C22  UDK   6  
UDK  C24  C7   C  0  1  Y  N  N  -10.251  15.147   -9.914  -7.480   1.673  -1.080  C24  UDK   7  
UDK  C26  C8   C  0  1  Y  N  N   -9.395  14.698  -12.027  -7.903  -0.511  -0.479  C26  UDK   8  
UDK  C28  C9   C  0  1  N  N  N   -7.767  14.309  -13.921  -8.323  -2.855   0.176  C28  UDK   9  
UDK  C01  C10  C  0  1  N  N  N  -22.488  24.489  -13.183   9.759   2.108  -1.125  C01  UDK  10  
UDK  C02  C11  C  0  1  N  N  N  -21.489  24.545  -14.328   8.916   1.230  -0.198  C02  UDK  11  
UDK  C03  C12  C  0  1  N  N  N  -21.358  23.163  -14.964   9.134  -0.244  -0.552  C03  UDK  12  
UDK  C04  C13  C  0  1  N  N  N  -20.073  23.061  -15.796   8.243  -1.114   0.338  C04  UDK  13  
UDK  C06  C14  C  0  1  N  N  N  -17.892  23.183  -15.790   5.943  -1.652   0.866  C06  UDK  14  
UDK  C07  C15  C  0  1  Y  N  N  -16.759  22.813  -14.819   4.518  -1.403   0.443  C07  UDK  15  
UDK  C08  C16  C  0  1  Y  N  N  -16.138  21.573  -14.810   3.982  -2.108  -0.621  C08  UDK  16  
UDK  C09  C17  C  0  1  Y  N  N  -15.119  21.309  -13.886   2.678  -1.885  -1.013  C09  UDK  17  
UDK  C11  C18  C  0  1  Y  N  N  -15.334  23.518  -13.001   2.445  -0.240   0.738  C11  UDK  18  
UDK  C12  C19  C  0  1  Y  N  N  -14.720  22.294  -12.986   1.899  -0.947  -0.335  C12  UDK  19  
UDK  C16  C20  C  0  1  N  N  R  -11.247  20.082  -10.680  -2.255   1.513   0.400  C16  UDK  20  
UDK  C18  C21  C  0  1  N  N  N   -9.432  20.077  -12.506  -2.892  -0.217   2.083  C18  UDK  21  
UDK  C19  C22  C  0  1  N  N  N  -10.011  18.777  -13.053  -4.357  -0.007   1.690  C19  UDK  22  
UDK  C29  C23  C  0  1  Y  N  N   -9.766  15.931  -12.444  -6.590  -0.633  -0.033  C29  UDK  23  
UDK  C32  C24  C  0  1  N  N  N  -19.115  24.772  -14.879   6.593   0.653   0.511  C32  UDK  24  
UDK  C33  C25  C  0  1  N  N  N  -20.146  25.006  -13.780   7.435   1.575  -0.373  C33  UDK  25  
UDK  N05  N1   N  0  1  N  N  N  -19.007  23.475  -15.126   6.836  -0.746   0.133  N05  UDK  26  
UDK  N14  N2   N  0  1  N  N  N  -13.461  20.947  -11.135  -0.248   0.204  -0.092  N14  UDK  27  
UDK  N21  N3   N  0  1  N  N  N  -10.774  18.092  -12.027  -4.434   0.399   0.281  N21  UDK  28  
UDK  N23  N4   N  0  1  Y  N  N  -10.626  16.387  -10.324  -6.231   1.597  -0.669  N23  UDK  29  
UDK  N25  N5   N  0  1  Y  N  N   -9.636  14.304  -10.780  -8.306   0.650  -0.992  N25  UDK  30  
UDK  N27  N6   N  0  1  N  N  N   -8.738  13.807  -12.962  -8.778  -1.583  -0.390  N27  UDK  31  
UDK  O30  O1   O  0  1  N  N  N  -10.454  19.719   -9.585  -1.582   2.757   0.201  O30  UDK  32  
UDK  O31  O2   O  0  1  N  N  N  -12.890  23.067  -11.750   0.028  -1.320  -1.683  O31  UDK  33  
UDK  H1   H1   H  0  1  N  N  N  -16.811  24.722  -13.901   4.173   0.071   1.953  H1   UDK  34  
UDK  H2   H2   H  0  1  N  N  N  -12.039  21.958   -9.976  -2.204  -0.480  -0.418  H2   UDK  35  
UDK  H3   H3   H  0  1  N  N  N  -12.764  20.504   -9.210  -1.651   0.789  -1.537  H3   UDK  36  
UDK  H4   H4   H  0  1  N  N  N   -9.921  21.696  -11.183  -1.066   0.929   2.102  H4   UDK  37  
UDK  H5   H5   H  0  1  N  N  N  -11.170  21.336  -12.423  -2.525   1.864   2.510  H5   UDK  38  
UDK  H6   H6   H  0  1  N  N  N  -12.610  19.095  -12.032  -4.176   2.443   0.691  H6   UDK  39  
UDK  H7   H7   H  0  1  N  N  N  -12.240  18.171  -10.536  -3.839   1.962  -0.989  H7   UDK  40  
UDK  H8   H8   H  0  1  N  N  N  -10.443  14.833   -8.899  -7.839   2.601  -1.501  H8   UDK  41  
UDK  H9   H9   H  0  1  N  N  N   -7.390  13.476  -14.532  -9.144  -3.572   0.163  H9   UDK  42  
UDK  H10  H10  H  0  1  N  N  N   -8.247  15.054  -14.573  -7.494  -3.241  -0.417  H10  UDK  43  
UDK  H11  H11  H  0  1  N  N  N   -6.929  14.777  -13.383  -7.994  -2.698   1.203  H11  UDK  44  
UDK  H12  H12  H  0  1  N  N  N  -22.580  25.486  -12.727   9.599   3.157  -0.876  H12  UDK  45  
UDK  H13  H13  H  0  1  N  N  N  -23.468  24.170  -13.567  10.814   1.862  -0.999  H13  UDK  46  
UDK  H14  H14  H  0  1  N  N  N  -22.139  23.771  -12.427   9.465   1.931  -2.160  H14  UDK  47  
UDK  H15  H15  H  0  1  N  N  N  -21.840  25.262  -15.085   9.211   1.405   0.837  H15  UDK  48  
UDK  H16  H16  H  0  1  N  N  N  -22.225  22.984  -15.617   8.877  -0.409  -1.598  H16  UDK  49  
UDK  H17  H17  H  0  1  N  N  N  -21.334  22.402  -14.170  10.179  -0.507  -0.388  H17  UDK  50  
UDK  H18  H18  H  0  1  N  N  N  -20.186  23.679  -16.699   8.385  -2.163   0.079  H18  UDK  51  
UDK  H19  H19  H  0  1  N  N  N  -19.922  22.011  -16.087   8.510  -0.958   1.383  H19  UDK  52  
UDK  H20  H20  H  0  1  N  N  N  -18.084  22.333  -16.461   6.040  -1.472   1.936  H20  UDK  53  
UDK  H21  H21  H  0  1  N  N  N  -17.587  24.057  -16.384   6.212  -2.685   0.645  H21  UDK  54  
UDK  H22  H22  H  0  1  N  N  N  -16.440  20.812  -15.514   4.586  -2.833  -1.145  H22  UDK  55  
UDK  H23  H23  H  0  1  N  N  N  -14.642  20.340  -13.871   2.262  -2.435  -1.844  H23  UDK  56  
UDK  H24  H24  H  0  1  N  N  N  -15.032  24.289  -12.307   1.847   0.484   1.270  H24  UDK  57  
UDK  H25  H25  H  0  1  N  N  N   -8.587  19.835  -11.845  -2.460  -1.005   1.466  H25  UDK  58  
UDK  H26  H26  H  0  1  N  N  N   -9.075  20.685  -13.350  -2.834  -0.504   3.132  H26  UDK  59  
UDK  H27  H27  H  0  1  N  N  N  -10.670  19.004  -13.904  -4.907  -0.937   1.831  H27  UDK  60  
UDK  H28  H28  H  0  1  N  N  N   -9.189  18.127  -13.388  -4.792   0.771   2.317  H28  UDK  61  
UDK  H29  H29  H  0  1  N  N  N   -9.575  16.244  -13.460  -6.232  -1.561   0.388  H29  UDK  62  
UDK  H30  H30  H  0  1  N  N  N  -18.140  25.164  -14.554   6.868   0.800   1.555  H30  UDK  63  
UDK  H31  H31  H  0  1  N  N  N  -19.433  25.293  -15.794   5.537   0.886   0.377  H31  UDK  64  
UDK  H32  H32  H  0  1  N  N  N  -19.883  24.424  -12.884   7.266   2.612  -0.082  H32  UDK  65  
UDK  H33  H33  H  0  1  N  N  N  -20.189  26.075  -13.523   7.150   1.439  -1.417  H33  UDK  66  
UDK  H35  H35  H  0  1  N  N  N  -14.066  20.160  -11.256   0.129   0.697   0.654  H35  UDK  67  
UDK  H36  H36  H  0  1  N  N  N   -9.463  13.369  -13.494  -9.691  -1.490  -0.703  H36  UDK  68  
UDK  H37  H37  H  0  1  N  N  N  -10.975  19.219   -8.968  -0.637   2.730   0.403  H37  UDK  69  
#   #
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
UDK  C04  N05  SING  N  N   1  
UDK  C04  C03  SING  N  N   2  
UDK  C06  N05  SING  N  N   3  
UDK  C06  C07  SING  N  N   4  
UDK  N05  C32  SING  N  N   5  
UDK  C03  C02  SING  N  N   6  
UDK  C32  C33  SING  N  N   7  
UDK  C07  C08  DOUB  Y  N   8  
UDK  C07  C10  SING  Y  N   9  
UDK  C08  C09  SING  Y  N  10  
UDK  C02  C33  SING  N  N  11  
UDK  C02  C01  SING  N  N  12  
UDK  C28  N27  SING  N  N  13  
UDK  C10  C11  DOUB  Y  N  14  
UDK  C09  C12  DOUB  Y  N  15  
UDK  C19  C18  SING  N  N  16  
UDK  C19  N21  SING  N  N  17  
UDK  C11  C12  SING  Y  N  18  
UDK  C12  C13  SING  N  N  19  
UDK  N27  C26  SING  N  N  20  
UDK  C18  C17  SING  N  N  21  
UDK  C29  C26  DOUB  Y  N  22  
UDK  C29  C22  SING  Y  N  23  
UDK  C26  N25  SING  Y  N  24  
UDK  N21  C22  SING  N  N  25  
UDK  N21  C20  SING  N  N  26  
UDK  C13  O31  DOUB  N  N  27  
UDK  C13  N14  SING  N  N  28  
UDK  C17  C16  SING  N  N  29  
UDK  C22  N23  DOUB  Y  N  30  
UDK  C20  C16  SING  N  N  31  
UDK  N14  C15  SING  N  N  32  
UDK  N25  C24  DOUB  Y  N  33  
UDK  C16  C15  SING  N  N  34  
UDK  C16  O30  SING  N  N  35  
UDK  N23  C24  SING  Y  N  36  
UDK  C10  H1   SING  N  N  37  
UDK  C15  H2   SING  N  N  38  
UDK  C15  H3   SING  N  N  39  
UDK  C17  H4   SING  N  N  40  
UDK  C17  H5   SING  N  N  41  
UDK  C20  H6   SING  N  N  42  
UDK  C20  H7   SING  N  N  43  
UDK  C24  H8   SING  N  N  44  
UDK  C28  H9   SING  N  N  45  
UDK  C28  H10  SING  N  N  46  
UDK  C28  H11  SING  N  N  47  
UDK  C01  H12  SING  N  N  48  
UDK  C01  H13  SING  N  N  49  
UDK  C01  H14  SING  N  N  50  
UDK  C02  H15  SING  N  N  51  
UDK  C03  H16  SING  N  N  52  
UDK  C03  H17  SING  N  N  53  
UDK  C04  H18  SING  N  N  54  
UDK  C04  H19  SING  N  N  55  
UDK  C06  H20  SING  N  N  56  
UDK  C06  H21  SING  N  N  57  
UDK  C08  H22  SING  N  N  58  
UDK  C09  H23  SING  N  N  59  
UDK  C11  H24  SING  N  N  60  
UDK  C18  H25  SING  N  N  61  
UDK  C18  H26  SING  N  N  62  
UDK  C19  H27  SING  N  N  63  
UDK  C19  H28  SING  N  N  64  
UDK  C29  H29  SING  N  N  65  
UDK  C32  H30  SING  N  N  66  
UDK  C32  H31  SING  N  N  67  
UDK  C33  H32  SING  N  N  68  
UDK  C33  H33  SING  N  N  69  
UDK  N14  H35  SING  N  N  70  
UDK  N27  H36  SING  N  N  71  
UDK  O30  H37  SING  N  N  72  
#   #
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
UDK  InChI             InChI                 1.03   "InChI=1S/C25H36N6O2/c1-19-8-12-30(13-9-19)15-20-4-6-21(7-5-20)24(32)27-16-25(33)10-3-11-31(17-25)23-14-22(26-2)28-18-29-23/h4-7,14,18-19,33H,3,8-13,15-17H2,1-2H3,(H,27,32)(H,26,28,29)/t25-/m1/s1"  
UDK  InChIKey          InChI                 1.03   WWAIRFCQIINAHC-RUZDIDTESA-N  
UDK  SMILES_CANONICAL  CACTVS                3.385  "CNc1cc(ncn1)N2CCC[C@@](O)(CNC(=O)c3ccc(CN4CCC(C)CC4)cc3)C2"  
UDK  SMILES            CACTVS                3.385  "CNc1cc(ncn1)N2CCC[C](O)(CNC(=O)c3ccc(CN4CCC(C)CC4)cc3)C2"  
UDK  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CC1CCN(CC1)Cc2ccc(cc2)C(=O)NC[C@@]3(CCCN(C3)c4cc(ncn4)NC)O"  
UDK  SMILES            "OpenEye OEToolkits"  2.0.7  "CC1CCN(CC1)Cc2ccc(cc2)C(=O)NCC3(CCCN(C3)c4cc(ncn4)NC)O"  
#
_pdbx_chem_comp_identifier.comp_id          UDK
_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       "~{N}-[[(3~{R})-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-4-[(4-methylpiperidin-1-yl)methyl]benzamide"
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     UDK
_pdbx_chem_comp_synonyms.name        "~{N}-[[(3~{R})-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-4-[(4-methylpiperidin-1-yl)methyl]benzamide"
_pdbx_chem_comp_synonyms.provenance  PDB
_pdbx_chem_comp_synonyms.type        ?
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
UDK  "Create component"  2021-02-10  PDBE  
UDK  "Modify synonyms"   2021-02-11  PDBE  
UDK  "Initial release"   2021-10-20  RCSB  
##
