data_Y54
#

_chem_comp.id                                   Y54
_chem_comp.name                                 "5-[(azetidin-3-yl)amino]-N-[(1R)-1-{3-[5-({[(1R,3S)-3-hydroxycyclopentyl]amino}methyl)thiophen-2-yl]phenyl}ethyl]-2-methylbenzamide"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C29 H36 N4 O2 S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-02-04
_chem_comp.pdbx_modified_date                   2021-02-19
_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                       504.687
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    Y54
_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       7LLF
_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
Y54  C01  C1   C  0  1  N  N  N   2.018  11.862  32.392    1.312   1.389   2.770  C01  Y54   1  
Y54  C02  C2   C  0  1  N  N  R   1.679  11.740  33.822    1.365   0.953   1.304  C02  Y54   2  
Y54  N03  N1   N  0  1  N  N  N   1.940  10.423  34.125    2.762   0.801   0.890  N03  Y54   3  
Y54  C04  C3   C  0  1  N  N  N   1.638   9.751  35.189    3.458   1.872   0.462  C04  Y54   4  
Y54  C05  C4   C  0  1  Y  N  N   1.867   8.408  35.522    4.868   1.719   0.044  C05  Y54   5  
Y54  C06  C5   C  0  1  Y  N  N   0.873   7.555  35.430    5.553   2.798  -0.517  C06  Y54   6  
Y54  C07  C6   C  0  1  N  N  N  -0.439   7.923  34.978    4.856   4.121  -0.698  C07  Y54   7  
Y54  C08  C7   C  0  1  Y  N  N   1.049   6.289  35.751    6.870   2.652  -0.906  C08  Y54   8  
Y54  C09  C8   C  0  1  Y  N  N   2.191   5.825  36.157    7.514   1.441  -0.742  C09  Y54   9  
Y54  C10  C9   C  0  1  Y  N  N   3.244   6.609  36.291    6.840   0.360  -0.185  C10  Y54  10  
Y54  N11  N2   N  0  1  N  N  N   4.403   6.043  36.742    7.495  -0.863  -0.022  N11  Y54  11  
Y54  C12  C10  C  0  1  N  N  N   5.682   6.459  36.919    8.893  -1.007  -0.437  C12  Y54  12  
Y54  C13  C11  C  0  1  N  N  N   6.700   5.412  36.708    9.638  -2.148   0.278  C13  Y54  13  
Y54  N14  N3   N  0  1  N  N  N   7.016   5.938  35.420   10.226  -2.460  -1.043  N14  Y54  14  
Y54  C15  C12  C  0  1  N  N  N   6.375   7.153  35.756    9.075  -1.825  -1.728  C15  Y54  15  
Y54  C16  C13  C  0  1  Y  N  N   3.069   7.950  35.964    5.519   0.497   0.214  C16  Y54  16  
Y54  O17  O1   O  0  1  N  N  N   0.995  10.399  35.982    2.927   2.965   0.419  O17  Y54  17  
Y54  C18  C14  C  0  1  Y  N  N   2.484  12.722  34.591    0.648  -0.363   1.146  C18  Y54  18  
Y54  C19  C15  C  0  1  Y  N  N   3.820  12.669  34.547    1.285  -1.542   1.491  C19  Y54  19  
Y54  C20  C16  C  0  1  Y  N  N   4.571  13.534  35.252    0.634  -2.755   1.348  C20  Y54  20  
Y54  C21  C17  C  0  1  Y  N  N   3.982  14.461  36.013   -0.656  -2.795   0.861  C21  Y54  21  
Y54  C22  C18  C  0  1  Y  N  N   2.651  14.571  36.124   -1.305  -1.610   0.512  C22  Y54  22  
Y54  C23  C19  C  0  1  Y  N  N   2.057  15.561  36.965   -2.688  -1.646  -0.009  C23  Y54  23  
Y54  C24  C20  C  0  1  Y  N  N   2.479  16.460  37.801   -3.424  -2.761  -0.186  C24  Y54  24  
Y54  C25  C21  C  0  1  Y  N  N   1.499  17.248  38.403   -4.691  -2.542  -0.688  C25  Y54  25  
Y54  C27  C22  C  0  1  N  N  N  -1.001  17.492  38.370   -6.309  -0.767  -1.465  C27  Y54  26  
Y54  C29  C23  C  0  1  N  N  R  -1.670  18.950  36.369   -8.522  -0.003  -0.847  C29  Y54  27  
Y54  C30  C24  C  0  1  N  N  N  -0.497  19.567  35.679   -8.498   1.531  -1.010  C30  Y54  28  
Y54  C32  C25  C  0  1  N  N  S  -2.406  20.858  34.871  -10.704   0.796  -0.171  C32  Y54  29  
Y54  C34  C26  C  0  1  N  N  N  -2.810  20.009  36.062   -9.632  -0.259   0.202  C34  Y54  30  
Y54  C26  C27  C  0  1  Y  N  N   0.286  16.967  38.045   -4.994  -1.262  -0.920  C26  Y54  31  
Y54  N28  N4   N  0  1  N  N  N  -1.303  18.787  37.802   -7.226  -0.488  -0.352  N28  Y54  32  
Y54  C31  C28  C  0  1  N  N  N  -0.951  20.919  35.115   -9.884   2.041  -0.581  C31  Y54  33  
Y54  O33  O2   O  0  1  N  N  N  -2.981  22.130  34.950  -11.531   1.090   0.957  O33  Y54  34  
Y54  S35  S1   S  0  1  Y  N  N   0.404  15.773  37.002   -3.630  -0.239  -0.488  S35  Y54  35  
Y54  C36  C29  C  0  1  Y  N  N   1.963  13.676  35.393   -0.645  -0.389   0.664  C36  Y54  36  
Y54  H1   H1   H  0  1  N  N  N   1.838  12.895  32.059    1.830   2.341   2.884  H1   Y54  37  
Y54  H2   H2   H  0  1  N  N  N   3.078  11.608  32.244    0.272   1.502   3.078  H2   Y54  38  
Y54  H3   H3   H  0  1  N  N  N   1.391  11.173  31.807    1.795   0.635   3.391  H3   Y54  39  
Y54  H4   H4   H  0  1  N  N  N   0.611  11.965  33.960    0.881   1.707   0.683  H4   Y54  40  
Y54  H5   H5   H  0  1  N  N  N   2.434   9.912  33.422    3.185  -0.071   0.924  H5   Y54  41  
Y54  H6   H6   H  0  1  N  N  N  -0.498   7.805  33.886    4.896   4.683   0.235  H6   Y54  42  
Y54  H7   H7   H  0  1  N  N  N  -1.187   7.275  35.457    5.352   4.689  -1.486  H7   Y54  43  
Y54  H8   H8   H  0  1  N  N  N  -0.638   8.971  35.245    3.816   3.949  -0.975  H8   Y54  44  
Y54  H9   H9   H  0  1  N  N  N   0.211   5.612  35.673    7.398   3.488  -1.340  H9   Y54  45  
Y54  H10  H10  H  0  1  N  N  N   2.282   4.774  36.390    8.544   1.333  -1.048  H10  Y54  46  
Y54  H11  H11  H  0  1  N  N  N   4.149   5.725  37.656    7.025  -1.617   0.367  H11  Y54  47  
Y54  H12  H12  H  0  1  N  N  N   5.846   7.004  37.860    9.435  -0.061  -0.438  H12  Y54  48  
Y54  H13  H13  H  0  1  N  N  N   6.290   4.392  36.683   10.366  -1.804   1.013  H13  Y54  49  
Y54  H14  H14  H  0  1  N  N  N   7.535   5.454  37.422    8.981  -2.928   0.664  H14  Y54  50  
Y54  H15  H15  H  0  1  N  N  N   6.587   5.446  34.662   10.240  -3.455  -1.208  H15  Y54  51  
Y54  H17  H17  H  0  1  N  N  N   7.063   7.957  36.057    8.252  -2.511  -1.932  H17  Y54  52  
Y54  H18  H18  H  0  1  N  N  N   5.689   7.529  34.983    9.355  -1.227  -2.595  H18  Y54  53  
Y54  H19  H19  H  0  1  N  N  N   3.898   8.636  36.062    4.995  -0.340   0.651  H19  Y54  54  
Y54  H20  H20  H  0  1  N  N  N   4.303  11.920  33.936    2.295  -1.516   1.872  H20  Y54  55  
Y54  H21  H21  H  0  1  N  N  N   5.649  13.479  35.203    1.137  -3.671   1.618  H21  Y54  56  
Y54  H22  H22  H  0  1  N  N  N   4.605  15.151  36.562   -1.163  -3.743   0.750  H22  Y54  57  
Y54  H23  H23  H  0  1  N  N  N   3.529  16.590  38.018   -3.052  -3.748   0.045  H23  Y54  58  
Y54  H24  H24  H  0  1  N  N  N   1.732  18.030  39.111   -5.386  -3.346  -0.878  H24  Y54  59  
Y54  H25  H25  H  0  1  N  N  N  -1.066  17.578  39.465   -6.145   0.145  -2.038  H25  Y54  60  
Y54  H26  H26  H  0  1  N  N  N  -1.759  16.779  38.012   -6.744  -1.529  -2.112  H26  Y54  61  
Y54  H27  H27  H  0  1  N  N  N  -1.930  17.983  35.915   -8.772  -0.484  -1.792  H27  Y54  62  
Y54  H28  H28  H  0  1  N  N  N  -0.157  18.915  34.861   -7.727   1.962  -0.372  H28  Y54  63  
Y54  H29  H29  H  0  1  N  N  N   0.324  19.716  36.395   -8.309   1.792  -2.052  H29  Y54  64  
Y54  H30  H30  H  0  1  N  N  N  -2.636  20.344  33.926  -11.311   0.446  -1.006  H30  Y54  65  
Y54  H31  H31  H  0  1  N  N  N  -2.956  20.655  36.940  -10.033  -1.268   0.105  H31  Y54  66  
Y54  H32  H32  H  0  1  N  N  N  -3.748  19.482  35.835   -9.256  -0.087   1.211  H32  Y54  67  
Y54  H33  H33  H  0  1  N  N  N  -0.493  19.354  37.950   -6.818   0.168   0.297  H33  Y54  68  
Y54  H35  H35  H  0  1  N  N  N  -0.424  21.123  34.171   -9.786   2.719   0.267  H35  Y54  69  
Y54  H36  H36  H  0  1  N  N  N  -0.729  21.717  35.839  -10.370   2.550  -1.413  H36  Y54  70  
Y54  H37  H37  H  0  1  N  N  N  -3.915  22.066  34.790  -12.182   1.786   0.796  H37  Y54  71  
Y54  H38  H38  H  0  1  N  N  N   0.886  13.725  35.453   -1.143   0.532   0.399  H38  Y54  72  
#   #
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
Y54  C01  C02  SING  N  N   1  
Y54  C02  N03  SING  N  N   2  
Y54  C02  C18  SING  N  N   3  
Y54  N03  C04  SING  N  N   4  
Y54  C19  C18  DOUB  Y  N   5  
Y54  C19  C20  SING  Y  N   6  
Y54  C18  C36  SING  Y  N   7  
Y54  C32  O33  SING  N  N   8  
Y54  C32  C31  SING  N  N   9  
Y54  C32  C34  SING  N  N  10  
Y54  C07  C06  SING  N  N  11  
Y54  C31  C30  SING  N  N  12  
Y54  C04  C05  SING  N  N  13  
Y54  C04  O17  DOUB  N  N  14  
Y54  C20  C21  DOUB  Y  N  15  
Y54  C36  C22  DOUB  Y  N  16  
Y54  N14  C15  SING  N  N  17  
Y54  N14  C13  SING  N  N  18  
Y54  C06  C05  DOUB  Y  N  19  
Y54  C06  C08  SING  Y  N  20  
Y54  C05  C16  SING  Y  N  21  
Y54  C30  C29  SING  N  N  22  
Y54  C08  C09  DOUB  Y  N  23  
Y54  C15  C12  SING  N  N  24  
Y54  C16  C10  DOUB  Y  N  25  
Y54  C21  C22  SING  Y  N  26  
Y54  C34  C29  SING  N  N  27  
Y54  C22  C23  SING  N  N  28  
Y54  C09  C10  SING  Y  N  29  
Y54  C10  N11  SING  N  N  30  
Y54  C29  N28  SING  N  N  31  
Y54  C13  C12  SING  N  N  32  
Y54  N11  C12  SING  N  N  33  
Y54  C23  S35  SING  Y  N  34  
Y54  C23  C24  DOUB  Y  N  35  
Y54  S35  C26  SING  Y  N  36  
Y54  C24  C25  SING  Y  N  37  
Y54  N28  C27  SING  N  N  38  
Y54  C26  C27  SING  N  N  39  
Y54  C26  C25  DOUB  Y  N  40  
Y54  C01  H1   SING  N  N  41  
Y54  C01  H2   SING  N  N  42  
Y54  C01  H3   SING  N  N  43  
Y54  C02  H4   SING  N  N  44  
Y54  N03  H5   SING  N  N  45  
Y54  C07  H6   SING  N  N  46  
Y54  C07  H7   SING  N  N  47  
Y54  C07  H8   SING  N  N  48  
Y54  C08  H9   SING  N  N  49  
Y54  C09  H10  SING  N  N  50  
Y54  N11  H11  SING  N  N  51  
Y54  C12  H12  SING  N  N  52  
Y54  C13  H13  SING  N  N  53  
Y54  C13  H14  SING  N  N  54  
Y54  N14  H15  SING  N  N  55  
Y54  C15  H17  SING  N  N  56  
Y54  C15  H18  SING  N  N  57  
Y54  C16  H19  SING  N  N  58  
Y54  C19  H20  SING  N  N  59  
Y54  C20  H21  SING  N  N  60  
Y54  C21  H22  SING  N  N  61  
Y54  C24  H23  SING  N  N  62  
Y54  C25  H24  SING  N  N  63  
Y54  C27  H25  SING  N  N  64  
Y54  C27  H26  SING  N  N  65  
Y54  C29  H27  SING  N  N  66  
Y54  C30  H28  SING  N  N  67  
Y54  C30  H29  SING  N  N  68  
Y54  C32  H30  SING  N  N  69  
Y54  C34  H31  SING  N  N  70  
Y54  C34  H32  SING  N  N  71  
Y54  N28  H33  SING  N  N  72  
Y54  C31  H35  SING  N  N  73  
Y54  C31  H36  SING  N  N  74  
Y54  O33  H37  SING  N  N  75  
Y54  C36  H38  SING  N  N  76  
#   #
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
Y54  SMILES            ACDLabs               12.01  "CC(NC(c1cc(ccc1C)NC2CNC2)=O)c3cc(ccc3)c4sc(cc4)CNC5CCC(O)C5"  
Y54  InChI             InChI                 1.03   "InChI=1S/C29H36N4O2S/c1-18-6-7-23(33-24-15-30-16-24)14-27(18)29(35)32-19(2)20-4-3-5-21(12-20)28-11-10-26(36-28)17-31-22-8-9-25(34)13-22/h3-7,10-12,14,19,22,24-25,30-31,33-34H,8-9,13,15-17H2,1-2H3,(H,32,35)/t19-,22-,25+/m1/s1"  
Y54  InChIKey          InChI                 1.03   IGVYCVBUHQMNRZ-QNIAMRLHSA-N  
Y54  SMILES_CANONICAL  CACTVS                3.385  "C[C@@H](NC(=O)c1cc(NC2CNC2)ccc1C)c3cccc(c3)c4sc(CN[C@@H]5CC[C@H](O)C5)cc4"  
Y54  SMILES            CACTVS                3.385  "C[CH](NC(=O)c1cc(NC2CNC2)ccc1C)c3cccc(c3)c4sc(CN[CH]5CC[CH](O)C5)cc4"  
Y54  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "Cc1ccc(cc1C(=O)N[C@H](C)c2cccc(c2)c3ccc(s3)CN[C@@H]4CC[C@@H](C4)O)NC5CNC5"  
Y54  SMILES            "OpenEye OEToolkits"  2.0.7  "Cc1ccc(cc1C(=O)NC(C)c2cccc(c2)c3ccc(s3)CNC4CCC(C4)O)NC5CNC5"  
#   #
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
Y54  "SYSTEMATIC NAME"  ACDLabs               12.01  "5-[(azetidin-3-yl)amino]-N-[(1R)-1-{3-[5-({[(1R,3S)-3-hydroxycyclopentyl]amino}methyl)thiophen-2-yl]phenyl}ethyl]-2-methylbenzamide"  
Y54  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "5-(azetidin-3-ylamino)-2-methyl-~{N}-[(1~{R})-1-[3-[5-[[[(1~{R},3~{S})-3-oxidanylcyclopentyl]amino]methyl]thiophen-2-yl]phenyl]ethyl]benzamide"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
Y54  "Create component"  2021-02-04  RCSB  
Y54  "Initial release"   2021-02-24  RCSB  
##
