data_O56
# 
_chem_comp.id                                    O56 
_chem_comp.name                                  "1-[4-[4-chloranyl-3-(trifluoromethyl)phenyl]-4-oxidanyl-piperidin-1-yl]-3-[2-(dimethylamino)ethyldisulfanyl]propan-1-one" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C19 H26 Cl F3 N2 O2 S2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-08-30 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        471.000 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     O56 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   Y 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        8A6F 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
_chem_comp.pdbx_pcm                              Y 
# 
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.pdbx_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_atom_flag 
_chem_comp_atom.pdbx_c_terminal_atom_flag 
_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 
O56 O2  O1  O  0 1 N N N N N N 19.850 23.273 2.308  2.286  1.263  1.829  O2  O56 1  
O56 C3  C1  C  0 1 N N N N N N 20.468 23.821 1.418  1.977  0.691  0.805  C3  O56 2  
O56 C2  C2  C  0 1 N N N N N N 20.182 25.262 1.061  2.932  -0.286 0.170  C2  O56 3  
O56 C1  C3  C  0 1 N N N N N N 19.018 25.829 1.962  4.207  -0.373 1.011  C1  O56 4  
O56 S   S1  S  0 1 N N N N N N 19.604 25.740 3.694  5.357  -1.550 0.247  S   O56 5  
O56 N   N1  N  0 1 N N N N N N 21.511 23.177 0.643  0.777  0.927  0.238  N   O56 6  
O56 C6  C4  C  0 1 N N N N N N 22.314 23.857 -0.470 0.387  0.238  -1.000 C6  O56 7  
O56 C7  C5  C  0 1 N N N N N N 23.586 23.161 -0.968 -0.963 -0.450 -0.776 C7  O56 8  
O56 C8  C6  C  0 1 N N N N N N 24.173 22.228 0.016  -1.981 0.580  -0.282 C8  O56 9  
O56 O1  O2  O  0 1 N N N N N N 23.932 21.305 -1.052 -2.103 1.628  -1.245 O1  O56 10 
O56 C5  C7  C  0 1 N N N N N N 23.331 21.414 0.940  -1.510 1.166  1.052  C5  O56 11 
O56 C4  C8  C  0 1 N N N N N N 21.864 21.745 0.873  -0.167 1.873  0.848  C4  O56 12 
O56 C9  C9  C  0 1 Y N N N N N 25.690 21.758 0.113  -3.319 -0.086 -0.092 C9  O56 13 
O56 C15 C10 C  0 1 Y N N N N N 26.405 22.391 1.110  -3.382 -1.424 0.252  C15 O56 14 
O56 C14 C11 C  0 1 Y N N N N N 27.718 22.062 1.341  -4.610 -2.036 0.425  C14 O56 15 
O56 C13 C12 C  0 1 Y N N N N N 28.325 21.080 0.579  -5.775 -1.310 0.255  C13 O56 16 
O56 CL  CL1 CL 0 0 N N N N N N 30.023 20.688 0.914  -7.316 -2.078 0.473  CL  O56 17 
O56 C11 C13 C  0 1 Y N N N N N 27.622 20.413 -0.421 -5.711 0.029  -0.090 C11 O56 18 
O56 C10 C14 C  0 1 Y N N N N N 26.289 20.748 -0.645 -4.483 0.641  -0.257 C10 O56 19 
O56 C12 C15 C  0 1 N N N N N N 28.297 19.323 -1.248 -6.980 0.820  -0.276 C12 O56 20 
O56 F1  F1  F  0 1 N N N N N N 29.542 19.730 -1.617 -7.742 0.245  -1.298 F1  O56 21 
O56 F2  F2  F  0 1 N N N N N N 27.562 19.069 -2.379 -7.714 0.813  0.915  F2  O56 22 
O56 F3  F3  F  0 1 N N N N N N 28.429 18.189 -0.490 -6.661 2.139  -0.619 F3  O56 23 
O56 H1  H1  H  0 1 N N N N N N 21.090 25.862 1.221  2.464  -1.269 0.118  H1  O56 24 
O56 H2  H2  H  0 1 N N N N N N 19.884 25.322 0.004  3.182  0.051  -0.835 H2  O56 25 
O56 H3  H3  H  0 1 N N N N N N 18.800 26.872 1.688  4.675  0.610  1.064  H3  O56 26 
O56 H4  H4  H  0 1 N N N N N N 18.111 25.220 1.837  3.957  -0.711 2.017  H4  O56 27 
O56 H7  H6  H  0 1 N N N N N N 22.608 24.851 -0.101 0.297  0.963  -1.809 H7  O56 28 
O56 H6  H7  H  0 1 N N N N N N 21.643 23.971 -1.335 1.140  -0.506 -1.258 H6  O56 29 
O56 H9  H8  H  0 1 N N N N N N 23.339 22.596 -1.879 -1.311 -0.884 -1.713 H9  O56 30 
O56 H8  H9  H  0 1 N N N N N N 24.334 23.932 -1.206 -0.851 -1.237 -0.030 H8  O56 31 
O56 H10 H10 H  0 1 N N N N N N 24.215 20.437 -0.791 -2.734 2.319  -0.997 H10 O56 32 
O56 H11 H11 H  0 1 N N N N N N 23.459 20.352 0.682  -2.247 1.883  1.414  H11 O56 33 
O56 H12 H12 H  0 1 N N N N N N 23.679 21.586 1.969  -1.393 0.364  1.780  H12 O56 34 
O56 H13 H13 H  0 1 N N N N N N 21.409 21.438 1.826  0.219  2.202  1.813  H13 O56 35 
O56 H14 H14 H  0 1 N N N N N N 21.427 21.158 0.052  -0.297 2.733  0.192  H14 O56 36 
O56 H15 H15 H  0 1 N N N N N N 25.928 23.150 1.712  -2.473 -1.990 0.385  H15 O56 37 
O56 H16 H16 H  0 1 N N N N N N 28.275 22.568 2.115  -4.659 -3.081 0.694  H16 O56 38 
O56 H17 H17 H  0 1 N N N N N N 25.720 20.229 -1.402 -4.433 1.686  -0.526 H17 O56 39 
O56 S1  S2  S  0 1 N Y N N N N ?      ?      ?      5.956  -0.572 -1.452 S1  O56 40 
O56 C17 C17 C  0 1 N Y N N N N ?      ?      ?      7.320  0.469  -0.865 C17 O56 41 
O56 C18 C18 C  0 1 N Y N N N N ?      ?      ?      8.518  -0.414 -0.509 C18 O56 42 
O56 N1  N2  N  0 1 N Y N N N N ?      ?      ?      9.623  0.429  -0.033 N1  O56 43 
O56 C19 C19 C  0 1 N Y N N N N ?      ?      ?      9.279  1.080  1.238  C19 O56 44 
O56 C20 C20 C  0 1 N Y N N N N ?      ?      ?      10.863 -0.349 0.093  C20 O56 45 
O56 H5  H5  H  0 1 N Y N N N N ?      ?      ?      7.606  1.170  -1.649 H5  O56 46 
O56 H18 H18 H  0 1 N Y N N N N ?      ?      ?      7.001  1.021  0.019  H18 O56 47 
O56 H19 H19 H  0 1 N Y N N N N ?      ?      ?      8.233  -1.115 0.275  H19 O56 48 
O56 H20 H20 H  0 1 N Y N N N N ?      ?      ?      8.837  -0.967 -1.392 H20 O56 49 
O56 H21 H21 H  0 1 N Y N N N N ?      ?      ?      9.070  0.320  1.991  H21 O56 50 
O56 H22 H22 H  0 1 N Y N N N N ?      ?      ?      10.114 1.698  1.568  H22 O56 51 
O56 H23 H23 H  0 1 N Y N N N N ?      ?      ?      8.397  1.706  1.099  H23 O56 52 
O56 H24 H24 H  0 1 N Y N N N N ?      ?      ?      11.132 -0.763 -0.878 H24 O56 53 
O56 H25 H25 H  0 1 N Y N N N N ?      ?      ?      11.664 0.299  0.447  H25 O56 54 
O56 H26 H26 H  0 1 N Y N N N N ?      ?      ?      10.711 -1.161 0.804  H26 O56 55 
# 
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 
O56 F2  C12 SING N N 1  
O56 F1  C12 SING N N 2  
O56 C12 F3  SING N N 3  
O56 C12 C11 SING N N 4  
O56 O1  C8  SING N N 5  
O56 C7  C6  SING N N 6  
O56 C7  C8  SING N N 7  
O56 C10 C11 DOUB Y N 8  
O56 C10 C9  SING Y N 9  
O56 C6  N   SING N N 10 
O56 C11 C13 SING Y N 11 
O56 C8  C9  SING N N 12 
O56 C8  C5  SING N N 13 
O56 C9  C15 DOUB Y N 14 
O56 C13 CL  SING N N 15 
O56 C13 C14 DOUB Y N 16 
O56 N   C4  SING N N 17 
O56 N   C3  SING N N 18 
O56 C4  C5  SING N N 19 
O56 C2  C3  SING N N 20 
O56 C2  C1  SING N N 21 
O56 C15 C14 SING Y N 22 
O56 C3  O2  DOUB N N 23 
O56 C1  S   SING N N 24 
O56 C2  H1  SING N N 25 
O56 C2  H2  SING N N 26 
O56 C1  H3  SING N N 27 
O56 C1  H4  SING N N 28 
O56 C6  H7  SING N N 29 
O56 C6  H6  SING N N 30 
O56 C7  H9  SING N N 31 
O56 C7  H8  SING N N 32 
O56 O1  H10 SING N N 33 
O56 C5  H11 SING N N 34 
O56 C5  H12 SING N N 35 
O56 C4  H13 SING N N 36 
O56 C4  H14 SING N N 37 
O56 C15 H15 SING N N 38 
O56 C14 H16 SING N N 39 
O56 C10 H17 SING N N 40 
O56 S   S1  SING N N 41 
O56 S1  C17 SING N N 42 
O56 C17 C18 SING N N 43 
O56 C18 N1  SING N N 44 
O56 N1  C19 SING N N 45 
O56 N1  C20 SING N N 46 
O56 C17 H5  SING N N 47 
O56 C17 H18 SING N N 48 
O56 C18 H19 SING N N 49 
O56 C18 H20 SING N N 50 
O56 C19 H21 SING N N 51 
O56 C19 H22 SING N N 52 
O56 C19 H23 SING N N 53 
O56 C20 H24 SING N N 54 
O56 C20 H25 SING N N 55 
O56 C20 H26 SING N N 56 
# 
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 
O56 InChI            InChI                1.06    "InChI=1S/C19H26ClF3N2O2S2/c1-24(2)10-12-29-28-11-5-17(26)25-8-6-18(27,7-9-25)14-3-4-16(20)15(13-14)19(21,22)23/h3-4,13,27H,5-12H2,1-2H3" 
O56 InChIKey         InChI                1.06    SSTMQKOHFHMVOP-UHFFFAOYSA-N                                                                                                               
O56 SMILES_CANONICAL CACTVS               3.385   "CN(C)CCSSCCC(=O)N1CCC(O)(CC1)c2ccc(Cl)c(c2)C(F)(F)F"                                                                                     
O56 SMILES           CACTVS               3.385   "CN(C)CCSSCCC(=O)N1CCC(O)(CC1)c2ccc(Cl)c(c2)C(F)(F)F"                                                                                     
O56 SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "CN(C)CCSSCCC(=O)N1CCC(CC1)(c2ccc(c(c2)C(F)(F)F)Cl)O"                                                                                     
O56 SMILES           "OpenEye OEToolkits" 3.1.0.0 "CN(C)CCSSCCC(=O)N1CCC(CC1)(c2ccc(c(c2)C(F)(F)F)Cl)O"                                                                                     
# 
_pdbx_chem_comp_identifier.comp_id           O56 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   3.1.0.0 
_pdbx_chem_comp_identifier.identifier        "1-[4-[4-chloranyl-3-(trifluoromethyl)phenyl]-4-oxidanyl-piperidin-1-yl]-3-[2-(dimethylamino)ethyldisulfanyl]propan-1-one" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
O56 "Create component" 2022-08-30 PDBE 
O56 "Initial release"  2023-04-26 RCSB 
O56 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            O56 
_pdbx_chem_comp_pcm.modified_residue_id                CYS 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               S 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   SG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
