data_5YN
#

_chem_comp.id                                   5YN
_chem_comp.name                                 "6-[4-(3,4,5-trichlorophenyl)piperazine-1-carbonyl]pyrimidine-2,4(1H,3H)-dione"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C15 H13 Cl3 N4 O3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-07-27
_chem_comp.pdbx_modified_date                   2021-11-05
_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                       403.648
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    5YN
_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       7RLS
_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
5YN  C16   C1   C   0  1  Y  N  N   8.113  -0.691  18.464  -2.376  -1.021  -0.891  C16   5YN   1  
5YN  C19   C2   C   0  1  N  N  N  15.814  -3.761  17.370   5.086  -0.810   1.812  C19   5YN   2  
5YN  C2    C3   C   0  1  N  N  N  14.261  -0.447  18.065   3.367   1.544  -0.505  C2    5YN   3  
5YN  C1    C4   C   0  1  N  N  N  14.678  -1.633  17.230   4.287   0.498   0.003  C1    5YN   4  
5YN  C6    C5   C   0  1  N  N  N  10.854  -1.358  18.404  -0.151   1.898  -0.784  C6    5YN   5  
5YN  C5    C6   C   0  1  N  N  N  12.259  -1.749  18.825   1.199   2.221  -1.432  C5    5YN   6  
5YN  C8    C7   C   0  1  N  N  N  11.206   0.908  19.277   0.431  -0.445  -0.554  C8    5YN   7  
5YN  C9    C8   C   0  1  N  N  N  12.652   0.551  19.598   1.805  -0.218  -1.193  C9    5YN   8  
5YN  C10   C9   C   0  1  Y  N  N   8.996  -0.062  19.365  -1.827   0.237  -0.676  C10   5YN   9  
5YN  C11   C10  C   0  1  Y  N  N   8.461   0.792  20.351  -2.570   1.215  -0.029  C11   5YN  10  
5YN  C12   C11  C   0  1  Y  N  N   7.092   1.003  20.426  -3.854   0.936   0.401  C12   5YN  11  
5YN  C13   C12  C   0  1  Y  N  N   6.205   0.390  19.547  -4.400  -0.319   0.186  C13   5YN  12  
5YN  O3    O1   O   0  1  N  N  N  14.957   0.577  18.018   3.690   2.714  -0.456  O3    5YN  13  
5YN  C14   C13  C   0  1  Y  N  N   6.748  -0.455  18.570  -3.661  -1.296  -0.459  C14   5YN  14  
5YN  C22   C14  C   0  1  N  N  N  14.862  -2.983  15.218   6.065  -1.131  -0.287  C22   5YN  15  
5YN  C24   C15  C   0  1  N  N  N  14.408  -1.786  15.908   5.165  -0.110  -0.837  C24   5YN  16  
5YN  N18   N1   N   0  1  N  N  N  15.343  -2.601  17.947   4.260   0.134   1.332  N18   5YN  17  
5YN  N21   N2   N   0  1  N  N  N  15.548  -3.889  16.014   5.976  -1.438   1.024  N21   5YN  18  
5YN  N4    N3   N   0  1  N  N  N  13.120  -0.564  18.767   2.172   1.197  -1.023  N4    5YN  19  
5YN  N7    N4   N   0  1  N  N  N  10.370  -0.279  19.293  -0.529   0.517  -1.111  N7    5YN  20  
5YN  O20   O2   O   0  1  N  N  N  16.414  -4.612  18.008   5.030  -1.102   2.991  O20   5YN  21  
5YN  O23   O3   O   0  1  N  N  N  14.680  -3.235  14.023   6.866  -1.700  -1.003  O23   5YN  22  
5YN  CL15  CL1  CL  0  0  N  N  N   5.658  -1.228  17.441  -4.348  -2.868  -0.727  CL15  5YN  23  
5YN  CL17  CL2  CL  0  0  N  N  N   4.488   0.674  19.668  -6.012  -0.667   0.727  CL17  5YN  24  
5YN  CL25  CL3  CL  0  0  N  N  N   6.467   2.069  21.677  -4.783   2.158   1.211  CL25  5YN  25  
5YN  H1    H1   H   0  1  N  N  N   8.494  -1.350  17.698  -1.802  -1.782  -1.398  H1    5YN  26  
5YN  H2    H2   H   0  1  N  N  N  10.866  -1.001  17.363  -0.070   2.006   0.298  H2    5YN  27  
5YN  H3    H3   H   0  1  N  N  N  10.188  -2.230  18.485  -0.910   2.582  -1.163  H3    5YN  28  
5YN  H4    H4   H   0  1  N  N  N  12.241  -2.142  19.852   1.095   2.215  -2.517  H4    5YN  29  
5YN  H5    H5   H   0  1  N  N  N  12.647  -2.521  18.144   1.538   3.204  -1.102  H5    5YN  30  
5YN  H6    H6   H   0  1  N  N  N  11.161   1.369  18.279   0.095  -1.460  -0.767  H6    5YN  31  
5YN  H7    H7   H   0  1  N  N  N  10.835   1.622  20.027   0.504  -0.304   0.524  H7    5YN  32  
5YN  H8    H8   H   0  1  N  N  N  12.724   0.264  20.657   2.546  -0.849  -0.703  H8    5YN  33  
5YN  H9    H9   H   0  1  N  N  N  13.288   1.429  19.412   1.761  -0.462  -2.255  H9    5YN  34  
5YN  H10   H10  H   0  1  N  N  N   9.120   1.284  21.051  -2.145   2.194   0.139  H10   5YN  35  
5YN  H11   H11  H   0  1  N  N  N  13.860  -1.024  15.373   5.208   0.161  -1.881  H11   5YN  36  
5YN  H13   H13  H   0  1  N  N  N  15.884  -4.717  15.566   6.559  -2.116   1.401  H13   5YN  37  
5YN  H12   H12  H   0  1  N  N  N  15.490  -2.457  18.926   3.633   0.568   1.932  H12   5YN  38  
#   #
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
5YN  O23   C22   DOUB  N  N   1  
5YN  C22   C24   SING  N  N   2  
5YN  C22   N21   SING  N  N   3  
5YN  C24   C1    DOUB  N  N   4  
5YN  N21   C19   SING  N  N   5  
5YN  C1    N18   SING  N  N   6  
5YN  C1    C2    SING  N  N   7  
5YN  C19   N18   SING  N  N   8  
5YN  C19   O20   DOUB  N  N   9  
5YN  CL15  C14   SING  N  N  10  
5YN  O3    C2    DOUB  N  N  11  
5YN  C2    N4    SING  N  N  12  
5YN  C6    C5    SING  N  N  13  
5YN  C6    N7    SING  N  N  14  
5YN  C16   C14   DOUB  Y  N  15  
5YN  C16   C10   SING  Y  N  16  
5YN  C14   C13   SING  Y  N  17  
5YN  N4    C5    SING  N  N  18  
5YN  N4    C9    SING  N  N  19  
5YN  C8    N7    SING  N  N  20  
5YN  C8    C9    SING  N  N  21  
5YN  N7    C10   SING  N  N  22  
5YN  C10   C11   DOUB  Y  N  23  
5YN  C13   CL17  SING  N  N  24  
5YN  C13   C12   DOUB  Y  N  25  
5YN  C11   C12   SING  Y  N  26  
5YN  C12   CL25  SING  N  N  27  
5YN  C16   H1    SING  N  N  28  
5YN  C6    H2    SING  N  N  29  
5YN  C6    H3    SING  N  N  30  
5YN  C5    H4    SING  N  N  31  
5YN  C5    H5    SING  N  N  32  
5YN  C8    H6    SING  N  N  33  
5YN  C8    H7    SING  N  N  34  
5YN  C9    H8    SING  N  N  35  
5YN  C9    H9    SING  N  N  36  
5YN  C11   H10   SING  N  N  37  
5YN  C24   H11   SING  N  N  38  
5YN  N21   H13   SING  N  N  39  
5YN  N18   H12   SING  N  N  40  
#   #
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
5YN  SMILES            ACDLabs               12.01  "O=C(C1=CC(=O)NC(=O)N1)N1CCN(CC1)c1cc(Cl)c(Cl)c(Cl)c1"  
5YN  InChI             InChI                 1.03   "InChI=1S/C15H13Cl3N4O3/c16-9-5-8(6-10(17)13(9)18)21-1-3-22(4-2-21)14(24)11-7-12(23)20-15(25)19-11/h5-7H,1-4H2,(H2,19,20,23,25)"  
5YN  InChIKey          InChI                 1.03   BYGXXTSBJDGVES-UHFFFAOYSA-N  
5YN  SMILES_CANONICAL  CACTVS                3.385  "Clc1cc(cc(Cl)c1Cl)N2CCN(CC2)C(=O)C3=CC(=O)NC(=O)N3"  
5YN  SMILES            CACTVS                3.385  "Clc1cc(cc(Cl)c1Cl)N2CCN(CC2)C(=O)C3=CC(=O)NC(=O)N3"  
5YN  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1c(cc(c(c1Cl)Cl)Cl)N2CCN(CC2)C(=O)C3=CC(=O)NC(=O)N3"  
5YN  SMILES            "OpenEye OEToolkits"  2.0.7  "c1c(cc(c(c1Cl)Cl)Cl)N2CCN(CC2)C(=O)C3=CC(=O)NC(=O)N3"  
#   #
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
5YN  "SYSTEMATIC NAME"  ACDLabs               12.01  "6-[4-(3,4,5-trichlorophenyl)piperazine-1-carbonyl]pyrimidine-2,4(1H,3H)-dione"  
5YN  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "6-[4-[3,4,5-tris(chloranyl)phenyl]piperazin-1-yl]carbonyl-1~{H}-pyrimidine-2,4-dione"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
5YN  "Create component"  2021-07-27  RCSB  
5YN  "Initial release"   2021-11-10  RCSB  
##
