data_YC3
# 
_chem_comp.id                                    YC3 
_chem_comp.name                                  "3-[2-(sulfanylmethyl)phenyl]-L-phenylalanine" 
_chem_comp.type                                  "L-peptide linking" 
_chem_comp.pdbx_type                             ATOMP 
_chem_comp.formula                               "C16 H17 N O2 S" 
_chem_comp.mon_nstd_parent_comp_id               PHE 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-01-23 
_chem_comp.pdbx_modified_date                    2024-10-11 
_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                        287.377 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YC3 
_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        8FVL 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_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 
YC3 C   C   C 0 1 N N N Y N Y 23.050 21.910 -31.385 -4.956 0.374  -0.520 C3  YC3 1  
YC3 CA  CA  C 0 1 N N S Y N N 22.035 20.788 -31.477 -3.510 -0.051 -0.524 C4  YC3 2  
YC3 CB  CB  C 0 1 N N N N N N 22.238 19.932 -32.739 -2.944 0.053  0.893  C9  YC3 3  
YC3 CG  CG  C 0 1 Y N N N N N 21.333 18.716 -32.773 -1.537 -0.487 0.914  C10 YC3 4  
YC3 O   O   O 0 1 N N N Y N Y 22.843 22.962 -32.006 -5.260 1.484  -0.888 O13 YC3 5  
YC3 CD1 CD1 C 0 1 Y N N N N N 21.846 17.434 -32.444 -0.472 0.356  0.673  C11 YC3 6  
YC3 CE1 CE1 C 0 1 Y N N N N N 21.011 16.305 -32.455 0.828  -0.145 0.692  C12 YC3 7  
YC3 CZ  CZ  C 0 1 Y N N N N N 19.659 16.486 -32.827 1.045  -1.496 0.955  C13 YC3 8  
YC3 CE2 CE2 C 0 1 Y N N N N N 19.141 17.758 -33.150 -0.028 -2.330 1.194  C14 YC3 9  
YC3 CD2 CD2 C 0 1 Y N N N N N 19.979 18.882 -33.122 -1.316 -1.827 1.178  C15 YC3 10 
YC3 C16 C16 C 0 1 Y N N N N N 21.490 14.937 -32.154 1.978  0.758  0.434  C16 YC3 11 
YC3 C17 C17 C 0 1 Y N N N N N 20.968 14.261 -31.029 2.165  1.894  1.218  C17 YC3 12 
YC3 C18 C18 C 0 1 Y N N N N N 21.370 12.941 -30.732 3.236  2.730  0.974  C18 YC3 13 
YC3 C19 C19 C 0 1 Y N N N N N 22.315 12.298 -31.560 4.123  2.441  -0.047 C19 YC3 14 
YC3 C20 C20 C 0 1 Y N N N N N 22.830 12.961 -32.689 3.942  1.314  -0.829 C20 YC3 15 
YC3 C21 C21 C 0 1 Y N N N N N 22.431 14.278 -32.997 2.878  0.468  -0.589 C21 YC3 16 
YC3 C22 C22 C 0 1 N N N N N N 23.033 14.933 -34.246 2.683  -0.760 -1.441 C22 YC3 17 
YC3 N   N   N 0 1 N N N Y Y N 20.734 21.402 -31.439 -2.745 0.823  -1.423 N2  YC3 18 
YC3 S2  S2  S 0 1 N N N N N N 24.850 15.170 -34.181 3.716  -2.108 -0.804 S2  YC3 19 
YC3 HA  HA  H 0 1 N N N Y N N 22.157 20.137 -30.599 -3.436 -1.082 -0.870 H2  YC3 20 
YC3 HB2 HB2 H 0 1 N N N N N N 23.284 19.593 -32.770 -2.936 1.098  1.205  H3  YC3 21 
YC3 HB3 HB3 H 0 1 N N N N N N 22.027 20.552 -33.623 -3.565 -0.525 1.577  H4  YC3 22 
YC3 HD1 HD1 H 0 1 N N N N N N 22.888 17.326 -32.183 -0.645 1.403  0.470  H5  YC3 23 
YC3 HZ  HZ  H 0 1 N N N N N N 19.005 15.627 -32.865 2.051  -1.889 0.970  H6  YC3 24 
YC3 HE2 HE2 H 0 1 N N N N N N 18.100 17.866 -33.418 0.139  -3.377 1.401  H7  YC3 25 
YC3 HD2 HD2 H 0 1 N N N N N N 19.592 19.861 -33.365 -2.153 -2.483 1.366  H8  YC3 26 
YC3 H9  H9  H 0 1 N N N N N N 20.254 14.759 -30.390 1.472  2.121  2.016  H9  YC3 27 
YC3 H10 H10 H 0 1 N N N N N N 20.957 12.426 -29.877 3.381  3.611  1.580  H10 YC3 28 
YC3 H11 H11 H 0 1 N N N N N N 22.643 11.296 -31.327 4.959  3.098  -0.235 H11 YC3 29 
YC3 H12 H12 H 0 1 N N N N N N 23.539 12.455 -33.327 4.638  1.092  -1.625 H12 YC3 30 
YC3 H13 H13 H 0 1 N N N N N N 22.563 15.919 -34.377 1.635  -1.060 -1.412 H13 YC3 31 
YC3 H14 H14 H 0 1 N N N N N N 22.800 14.297 -35.113 2.969  -0.538 -2.469 H14 YC3 32 
YC3 H2  H   H 0 1 N Y N Y Y N 20.646 21.947 -30.605 -2.799 1.785  -1.124 H15 YC3 33 
YC3 H   H2  H 0 1 N N N Y Y N 20.622 21.994 -32.237 -1.786 0.519  -1.493 H16 YC3 34 
YC3 H18 H18 H 0 1 N N N N N N 25.091 15.727 -35.331 3.444  -3.121 -1.646 H18 YC3 35 
YC3 OXT OXT O 0 1 N Y N Y N Y 24.141 21.773 -30.627 -5.906 -0.482 -0.113 O1  YC3 36 
YC3 HXT HXT H 0 1 N Y N Y N Y 24.658 22.569 -30.668 -6.819 -0.164 -0.128 H1  YC3 37 
# 
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 
YC3 C22 S2  SING N N 1  
YC3 C22 C21 SING N N 2  
YC3 CE2 CD2 DOUB Y N 3  
YC3 CE2 CZ  SING Y N 4  
YC3 CD2 CG  SING Y N 5  
YC3 C21 C20 DOUB Y N 6  
YC3 C21 C16 SING Y N 7  
YC3 CZ  CE1 DOUB Y N 8  
YC3 CG  CB  SING N N 9  
YC3 CG  CD1 DOUB Y N 10 
YC3 CB  CA  SING N N 11 
YC3 C20 C19 SING Y N 12 
YC3 CE1 CD1 SING Y N 13 
YC3 CE1 C16 SING N N 14 
YC3 C16 C17 DOUB Y N 15 
YC3 O   C   DOUB N N 16 
YC3 C19 C18 DOUB Y N 17 
YC3 CA  N   SING N N 18 
YC3 CA  C   SING N N 19 
YC3 C17 C18 SING Y N 20 
YC3 CA  HA  SING N N 21 
YC3 CB  HB2 SING N N 22 
YC3 CB  HB3 SING N N 23 
YC3 CD1 HD1 SING N N 24 
YC3 CZ  HZ  SING N N 25 
YC3 CE2 HE2 SING N N 26 
YC3 CD2 HD2 SING N N 27 
YC3 C17 H9  SING N N 28 
YC3 C18 H10 SING N N 29 
YC3 C19 H11 SING N N 30 
YC3 C20 H12 SING N N 31 
YC3 C22 H13 SING N N 32 
YC3 C22 H14 SING N N 33 
YC3 N   H2  SING N N 34 
YC3 N   H   SING N N 35 
YC3 S2  H18 SING N N 36 
YC3 C   OXT SING N N 37 
YC3 OXT HXT SING N N 38 
# 
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 
YC3 SMILES           ACDLabs              12.01 "SCc1ccccc1c1cccc(CC(N)C(=O)O)c1"                                                                                          
YC3 InChI            InChI                1.06  "InChI=1S/C16H17NO2S/c17-15(16(18)19)9-11-4-3-6-12(8-11)14-7-2-1-5-13(14)10-20/h1-8,15,20H,9-10,17H2,(H,18,19)/t15-/m0/s1" 
YC3 InChIKey         InChI                1.06  NBALBHDXCXZFNI-HNNXBMFYSA-N                                                                                                
YC3 SMILES_CANONICAL CACTVS               3.385 "N[C@@H](Cc1cccc(c1)c2ccccc2CS)C(O)=O"                                                                                     
YC3 SMILES           CACTVS               3.385 "N[CH](Cc1cccc(c1)c2ccccc2CS)C(O)=O"                                                                                       
YC3 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(c(c1)CS)c2cccc(c2)C[C@@H](C(=O)O)N"                                                                                 
YC3 SMILES           "OpenEye OEToolkits" 2.0.7 "c1ccc(c(c1)CS)c2cccc(c2)CC(C(=O)O)N"                                                                                      
# 
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 
YC3 "SYSTEMATIC NAME" ACDLabs              12.01 "3-[2-(sulfanylmethyl)phenyl]-L-phenylalanine"                          
YC3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-azanyl-3-[3-[2-(sulfanylmethyl)phenyl]phenyl]propanoic acid" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
YC3 "Create component" 2023-01-23 RCSB 
YC3 "Modify backbone"  2023-11-03 PDBE 
YC3 "Modify PCM"       2024-09-27 PDBE 
YC3 "Initial release"  2024-10-16 RCSB 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            YC3 
_pdbx_chem_comp_pcm.modified_residue_id                PHE 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Non-standard residue" 
_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               ? 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   ? 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
