data_5ZT
#

_chem_comp.id                                   5ZT
_chem_comp.name                                 "6-{4-[3-chloro-4-(hydroxymethyl)phenyl]piperazine-1-carbonyl}pyrimidine-2,4(3H,5H)-dione"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C16 H17 Cl N4 O4"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-07-30
_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                       364.784
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    5ZT
_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       7RNK
_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
5ZT  C2    C1   C   0  1  N  N  N  14.188  -0.420  18.047   2.777   1.578  -0.301  C2    5ZT   1  
5ZT  C6    C2   C   0  1  N  N  N  10.712  -1.255  18.469  -0.217  -0.124   0.545  C6    5ZT   2  
5ZT  C5    C3   C   0  1  N  N  N  12.137  -1.657  18.826   1.184   0.269   1.027  C5    5ZT   3  
5ZT  N7    N1   N   0  1  N  N  N  10.268  -0.154  19.345  -1.128   1.016   0.717  N7    5ZT   4  
5ZT  C8    C4   C   0  1  N  N  N  11.139   1.017  19.211  -0.717   2.156  -0.113  C8    5ZT   5  
5ZT  C1    C5   C   0  1  N  N  N  14.644  -1.614  17.238   3.764   0.476  -0.165  C1    5ZT   6  
5ZT  C10   C6   C   0  1  Y  N  N   8.875   0.064  19.452  -2.447   0.648   0.443  C10   5ZT   7  
5ZT  C11   C7   C   0  1  Y  N  N   8.319   0.924  20.414  -3.467   1.585   0.547  C11   5ZT   8  
5ZT  C12   C8   C   0  1  Y  N  N   6.941   1.113  20.495  -4.771   1.218   0.275  C12   5ZT   9  
5ZT  C13   C9   C   0  1  Y  N  N   6.046   0.469  19.639  -5.062  -0.080  -0.100  C13   5ZT  10  
5ZT  C14   C10  C   0  1  Y  N  N   6.622  -0.386  18.686  -4.048  -1.017  -0.205  C14   5ZT  11  
5ZT  C15   C11  C   0  1  Y  N  N   7.988  -0.598  18.578  -2.741  -0.655   0.060  C15   5ZT  12  
5ZT  C17   C12  C   0  1  N  N  N  15.940  -3.664  17.410   4.430  -1.511   0.820  C17   5ZT  13  
5ZT  C20   C13  C   0  1  N  N  N  14.846  -3.032  15.277   5.970  -0.714  -0.760  C20   5ZT  14  
5ZT  C22   C14  C   0  1  N  N  N  14.344  -1.841  15.937   5.036   0.460  -0.991  C22   5ZT  15  
5ZT  C23   C15  C   0  1  N  N  N   4.554   0.681  19.734  -6.485  -0.476  -0.396  C23   5ZT  16  
5ZT  C9    C16  C   0  1  N  N  N  12.584   0.648  19.540   0.664   2.643   0.342  C9    5ZT  17  
5ZT  N16   N2   N   0  1  N  N  N  15.417  -2.505  17.944   3.566  -0.502   0.669  N16   5ZT  18  
5ZT  N19   N3   N   0  1  N  N  N  15.622  -3.868  16.083   5.581  -1.638   0.147  N19   5ZT  19  
5ZT  N4    N4   N   0  1  N  N  N  13.029  -0.492  18.727   1.589   1.500   0.331  N4    5ZT  20  
5ZT  O18   O1   O   0  1  N  N  N  16.629  -4.441  18.061   4.151  -2.375   1.627  O18   5ZT  21  
5ZT  O21   O2   O   0  1  N  N  N  14.635  -3.332  14.101   7.013  -0.822  -1.368  O21   5ZT  22  
5ZT  O24   O3   O   0  1  N  N  N   4.278   1.670  20.722  -7.341   0.654  -0.219  O24   5ZT  23  
5ZT  O3    O4   O   0  1  N  N  N  14.920   0.585  18.037   3.043   2.551  -0.976  O3    5ZT  24  
5ZT  CL25  CL1  CL  0  0  N  N  N   5.574  -1.255  17.547  -4.418  -2.646  -0.676  CL25  5ZT  25  
5ZT  H1    H1   H   0  1  N  N  N  10.678  -0.924  17.421  -0.175  -0.401  -0.508  H1    5ZT  26  
5ZT  H2    H2   H   0  1  N  N  N  10.045  -2.119  18.602  -0.579  -0.970   1.130  H2    5ZT  27  
5ZT  H3    H3   H   0  1  N  N  N  12.159  -2.046  19.855   1.165   0.447   2.102  H3    5ZT  28  
5ZT  H4    H4   H   0  1  N  N  N  12.480  -2.438  18.131   1.887  -0.532   0.800  H4    5ZT  29  
5ZT  H5    H5   H   0  1  N  N  N  11.087   1.391  18.178  -0.668   1.848  -1.157  H5    5ZT  30  
5ZT  H6    H6   H   0  1  N  N  N  10.799   1.802  19.903  -1.441   2.964  -0.005  H6    5ZT  31  
5ZT  H7    H7   H   0  1  N  N  N   8.969   1.446  21.100  -3.241   2.599   0.841  H7    5ZT  32  
5ZT  H8    H8   H   0  1  N  N  N   6.551   1.782  21.248  -5.564   1.947   0.356  H8    5ZT  33  
5ZT  H9    H9   H   0  1  N  N  N   8.373  -1.270  17.825  -1.950  -1.386  -0.022  H9    5ZT  34  
5ZT  H10   H10  H   0  1  N  N  N  14.722  -0.979  15.368   4.756   0.470  -2.044  H10   5ZT  35  
5ZT  H11   H11  H   0  1  N  N  N  13.247  -1.876  15.865   5.586   1.378  -0.783  H11   5ZT  36  
5ZT  H12   H12  H   0  1  N  N  N   4.168   1.018  18.760  -6.558  -0.830  -1.424  H12   5ZT  37  
5ZT  H13   H13  H   0  1  N  N  N   4.066  -0.264  20.015  -6.790  -1.272   0.284  H13   5ZT  38  
5ZT  H14   H14  H   0  1  N  N  N  12.655   0.381  20.605   1.024   3.412  -0.341  H14   5ZT  39  
5ZT  H15   H15  H   0  1  N  N  N  13.233   1.512  19.335   0.594   3.052   1.350  H15   5ZT  40  
5ZT  H16   H16  H   0  1  N  N  N  15.983  -4.697  15.656   6.152  -2.403   0.321  H16   5ZT  41  
5ZT  H17   H17  H   0  1  N  N  N   3.340   1.804  20.783  -8.275   0.472  -0.393  H17   5ZT  42  
#   #
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
5ZT  O21   C20  DOUB  N  N   1  
5ZT  C20   C22  SING  N  N   2  
5ZT  C20   N19  SING  N  N   3  
5ZT  C22   C1   SING  N  N   4  
5ZT  N19   C17  SING  N  N   5  
5ZT  C1    N16  DOUB  N  N   6  
5ZT  C1    C2   SING  N  N   7  
5ZT  C17   N16  SING  N  N   8  
5ZT  C17   O18  DOUB  N  N   9  
5ZT  CL25  C14  SING  N  N  10  
5ZT  O3    C2   DOUB  N  N  11  
5ZT  C2    N4   SING  N  N  12  
5ZT  C6    C5   SING  N  N  13  
5ZT  C6    N7   SING  N  N  14  
5ZT  C15   C14  DOUB  Y  N  15  
5ZT  C15   C10  SING  Y  N  16  
5ZT  C14   C13  SING  Y  N  17  
5ZT  N4    C5   SING  N  N  18  
5ZT  N4    C9   SING  N  N  19  
5ZT  C8    N7   SING  N  N  20  
5ZT  C8    C9   SING  N  N  21  
5ZT  N7    C10  SING  N  N  22  
5ZT  C10   C11  DOUB  Y  N  23  
5ZT  C13   C23  SING  N  N  24  
5ZT  C13   C12  DOUB  Y  N  25  
5ZT  C23   O24  SING  N  N  26  
5ZT  C11   C12  SING  Y  N  27  
5ZT  C6    H1   SING  N  N  28  
5ZT  C6    H2   SING  N  N  29  
5ZT  C5    H3   SING  N  N  30  
5ZT  C5    H4   SING  N  N  31  
5ZT  C8    H5   SING  N  N  32  
5ZT  C8    H6   SING  N  N  33  
5ZT  C11   H7   SING  N  N  34  
5ZT  C12   H8   SING  N  N  35  
5ZT  C15   H9   SING  N  N  36  
5ZT  C22   H10  SING  N  N  37  
5ZT  C22   H11  SING  N  N  38  
5ZT  C23   H12  SING  N  N  39  
5ZT  C23   H13  SING  N  N  40  
5ZT  C9    H14  SING  N  N  41  
5ZT  C9    H15  SING  N  N  42  
5ZT  N19   H16  SING  N  N  43  
5ZT  O24   H17  SING  N  N  44  
#   #
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
5ZT  SMILES            ACDLabs               12.01  "O=C(C=1CC(=O)NC(=O)N=1)N1CCN(CC1)c1ccc(CO)c(Cl)c1"  
5ZT  InChI             InChI                 1.03   "InChI=1S/C16H17ClN4O4/c17-12-7-11(2-1-10(12)9-22)20-3-5-21(6-4-20)15(24)13-8-14(23)19-16(25)18-13/h1-2,7,22H,3-6,8-9H2,(H,19,23,25)"  
5ZT  InChIKey          InChI                 1.03   LOQJVSKMCQMDKR-UHFFFAOYSA-N  
5ZT  SMILES_CANONICAL  CACTVS                3.385  "OCc1ccc(cc1Cl)N2CCN(CC2)C(=O)C3=NC(=O)NC(=O)C3"  
5ZT  SMILES            CACTVS                3.385  "OCc1ccc(cc1Cl)N2CCN(CC2)C(=O)C3=NC(=O)NC(=O)C3"  
5ZT  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1cc(c(cc1N2CCN(CC2)C(=O)C3=NC(=O)NC(=O)C3)Cl)CO"  
5ZT  SMILES            "OpenEye OEToolkits"  2.0.7  "c1cc(c(cc1N2CCN(CC2)C(=O)C3=NC(=O)NC(=O)C3)Cl)CO"  
#   #
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
5ZT  "SYSTEMATIC NAME"  ACDLabs               12.01  "6-{4-[3-chloro-4-(hydroxymethyl)phenyl]piperazine-1-carbonyl}pyrimidine-2,4(3H,5H)-dione"  
5ZT  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "6-[4-[3-chloranyl-4-(hydroxymethyl)phenyl]piperazin-1-yl]carbonyl-5~{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
5ZT  "Create component"  2021-07-30  RCSB  
5ZT  "Initial release"   2021-11-10  RCSB  
##
