data_2YT
# 
_chem_comp.id                                    2YT 
_chem_comp.name                                  "L-phenylalanyl-N-[(2S,3S)-6-carbamimidamido-1-chloro-2-hydroxyhexan-3-yl]-L-phenylalaninamide" 
_chem_comp.type                                  peptide-like 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C25 H35 Cl N6 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         PHE-PHE-ARG-chloromethylketone 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2014-04-29 
_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                        503.037 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     2YT 
_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        4Q7Z 
_chem_comp.pdbx_subcomponent_list                "PHE PHE AR7 0QE" 
_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 
2YT N1  N1  N  0 1 N N N N N N -19.499 -6.714  -2.820 4.779  1.382  -0.560 N   PHE 1  
2YT C2  C2  C  0 1 N N S N N N -18.463 -7.645  -2.375 3.820  0.518  0.141  CA  PHE 2  
2YT C10 C10 C  0 1 N N N N N N -17.741 -6.989  -1.228 2.438  0.750  -0.412 C   PHE 3  
2YT O34 O34 O  0 1 N N N N N N -18.418 -6.370  -0.386 2.191  1.772  -1.017 O   PHE 4  
2YT C3  C3  C  0 1 N N N N N N -17.631 -7.917  -3.640 3.834  0.846  1.635  CB  PHE 5  
2YT C4  C4  C  0 1 Y N N N N N -16.164 -8.301  -3.603 5.181  0.498  2.213  CG  PHE 6  
2YT C5  C5  C  0 1 Y N N N N N -15.205 -7.372  -4.009 5.410  -0.768 2.720  CD1 PHE 7  
2YT C9  C9  C  0 1 Y N N N N N -15.766 -9.580  -3.225 6.191  1.442  2.232  CD2 PHE 8  
2YT C6  C6  C  0 1 Y N N N N N -13.857 -7.699  -4.005 6.646  -1.087 3.251  CE1 PHE 9  
2YT C8  C8  C  0 1 Y N N N N N -14.416 -9.911  -3.225 7.427  1.122  2.763  CE2 PHE 10 
2YT C7  C7  C  0 1 Y N N N N N -13.465 -8.973  -3.615 7.653  -0.141 3.274  CZ  PHE 11 
2YT N11 N11 N  0 1 N N N N N N -16.414 -7.088  -1.144 1.476  -0.177 -0.233 N   PHE 12 
2YT C12 C12 C  0 1 N N S N N N -15.649 -6.452  -0.063 0.132  0.049  -0.771 CA  PHE 13 
2YT C20 C20 C  0 1 N N N N N N -15.806 -4.954  -0.107 -0.869 -0.745 0.029  C   PHE 14 
2YT O33 O33 O  0 1 N N N N N N -15.812 -4.317  -1.146 -0.496 -1.433 0.956  O   PHE 15 
2YT C13 C13 C  0 1 N N N N N N -14.169 -6.724  -0.267 0.086  -0.397 -2.233 CB  PHE 16 
2YT C14 C14 C  0 1 Y N N N N N -13.676 -8.017  0.357  0.996  0.479  -3.055 CG  PHE 17 
2YT C19 C19 C  0 1 Y N N N N N -12.733 -8.779  -0.338 0.507  1.638  -3.628 CD1 PHE 18 
2YT C15 C15 C  0 1 Y N N N N N -14.080 -8.476  1.613  2.321  0.127  -3.230 CD2 PHE 19 
2YT C18 C18 C  0 1 Y N N N N N -12.220 -9.956  0.194  1.342  2.442  -4.382 CE1 PHE 20 
2YT C16 C16 C  0 1 Y N N N N N -13.582 -9.654  2.148  3.156  0.931  -3.984 CE2 PHE 21 
2YT C17 C17 C  0 1 Y N N N N N -12.650 -10.401 1.437  2.666  2.087  -4.561 CZ  PHE 22 
2YT N21 N21 N  0 1 N N N N N N -15.933 -4.313  1.087  -2.178 -0.692 -0.287 N21 AR7 23 
2YT C22 C22 C  0 1 N N S N N N -16.085 -2.854  1.195  -3.151 -1.464 0.490  C22 AR7 24 
2YT C23 C23 C  0 1 N N N N N N -17.383 -2.507  1.974  -4.527 -0.803 0.386  C23 AR7 25 
2YT C24 C24 C  0 1 N N N N N N -18.628 -3.230  1.450  -4.482 0.575  1.049  C24 AR7 26 
2YT C25 C25 C  0 1 N N N N N N -18.924 -2.922  -0.022 -5.858 1.236  0.945  C25 AR7 27 
2YT N26 N26 N  0 1 N N N N N N -20.241 -3.499  -0.332 -5.815 2.555  1.579  N26 AR7 28 
2YT C27 C27 C  0 1 N N N N N N -20.826 -3.349  -1.562 -6.943 3.341  1.609  C27 AR7 29 
2YT N28 N28 N  0 1 N N N N N N -20.223 -2.554  -2.494 -8.051 2.911  1.072  N28 AR7 30 
2YT N29 N29 N  0 1 N N N N N N -21.960 -3.950  -1.856 -6.903 4.579  2.204  N29 AR7 31 
2YT C30 C30 C  0 1 N N S N N N -14.880 -2.243  1.941  -3.226 -2.890 -0.060 C30 AR7 32 
2YT O31 O31 O  0 1 N N N N N N -14.923 -0.855  1.707  -4.175 -3.643 0.698  O31 AR7 33 
2YT C32 C32 C  0 1 N N N N N N -13.602 -2.754  1.236  -1.850 -3.551 0.044  C1  0QE 34 
2YT CL1 CL1 CL 0 0 N Y N N N N -12.896 -3.961  1.816  -1.903 -5.175 -0.737 CL1 0QE 35 
2YT H9  H9  H  0 1 N N N N N N -20.092 -6.482  -2.049 4.543  2.356  -0.440 H   PHE 36 
2YT H10 H10 H  0 1 N N N N N N -19.070 -5.882  -3.173 5.723  1.199  -0.252 H2  PHE 37 
2YT H14 H14 H  0 1 N N N N N N -18.919 -8.586  -2.034 4.099  -0.526 -0.004 HA  PHE 38 
2YT H12 H12 H  0 1 N N N N N N -17.688 -6.998  -4.242 3.643  1.910  1.775  HB2 PHE 39 
2YT H13 H13 H  0 1 N N N N N N -18.144 -8.734  -4.169 3.061  0.269  2.141  HB3 PHE 40 
2YT H1  H1  H  0 1 N N N N N N -15.516 -6.389  -4.330 4.622  -1.507 2.702  HD1 PHE 41 
2YT H5  H5  H  0 1 N N N N N N -16.504 -10.313 -2.933 6.014  2.430  1.832  HD2 PHE 42 
2YT H2  H2  H  0 1 N N N N N N -13.119 -6.969  -4.303 6.824  -2.076 3.647  HE1 PHE 43 
2YT H4  H4  H  0 1 N N N N N N -14.104 -10.899 -2.921 8.215  1.860  2.777  HE2 PHE 44 
2YT H3  H3  H  0 1 N N N N N N -12.418 -9.237  -3.614 8.619  -0.391 3.689  HZ  PHE 45 
2YT H15 H15 H  0 1 N N N N N N -15.923 -7.612  -1.840 1.674  -0.994 0.251  H   PHE 46 
2YT H6  H6  H  0 1 N N N N N N -15.969 -6.837  0.916  -0.112 1.110  -0.706 HA  PHE 47 
2YT H7  H7  H  0 1 N N N N N N -13.973 -6.768  -1.349 0.415  -1.433 -2.308 HB2 PHE 48 
2YT H8  H8  H  0 1 N N N N N N -13.602 -5.891  0.175  -0.935 -0.312 -2.607 HB3 PHE 49 
2YT H20 H20 H  0 1 N N N N N N -12.396 -8.446  -1.309 -0.527 1.916  -3.488 HD1 PHE 50 
2YT H16 H16 H  0 1 N N N N N N -14.796 -7.900  2.180  2.704  -0.776 -2.778 HD2 PHE 51 
2YT H19 H19 H  0 1 N N N N N N -11.487 -10.524 -0.359 0.960  3.347  -4.830 HE1 PHE 52 
2YT H17 H17 H  0 1 N N N N N N -13.918 -9.991  3.117  4.191  0.656  -4.121 HE2 PHE 53 
2YT H18 H18 H  0 1 N N N N N N -12.263 -11.321 1.849  3.318  2.715  -5.150 HZ  PHE 54 
2YT H21 H21 H  0 1 N N N N N N -15.923 -4.857  1.926  -2.476 -0.142 -1.028 H21 AR7 55 
2YT H22 H22 H  0 1 N N N N N N -16.145 -2.409  0.191  -2.840 -1.494 1.535  H22 AR7 56 
2YT H23 H23 H  0 1 N N N N N N -17.239 -2.783  3.029  -4.798 -0.693 -0.664 H23 AR7 57 
2YT H24 H24 H  0 1 N N N N N N -17.554 -1.423  1.899  -5.267 -1.425 0.890  H24 AR7 58 
2YT H25 H25 H  0 1 N N N N N N -19.494 -2.920  2.054  -4.210 0.465  2.099  H25 AR7 59 
2YT H26 H26 H  0 1 N N N N N N -18.475 -4.314  1.557  -3.741 1.196  0.545  H26 AR7 60 
2YT H27 H27 H  0 1 N N N N N N -18.154 -3.375  -0.664 -6.129 1.346  -0.105 H27 AR7 61 
2YT H28 H28 H  0 1 N N N N N N -18.942 -1.834  -0.183 -6.598 0.614  1.448  H28 AR7 62 
2YT H29 H29 H  0 1 N N N N N N -20.723 -4.016  0.375  -4.991 2.875  1.978  H29 AR7 63 
2YT H30 H30 H  0 1 N N N N N N -19.375 -2.150  -2.150 -8.079 2.037  0.652  H30 AR7 64 
2YT H31 H31 H  0 1 N N N N N N -22.410 -4.529  -1.176 -6.079 4.899  2.603  H31 AR7 65 
2YT H32 H32 H  0 1 N N N N N N -22.371 -3.828  -2.759 -7.699 5.134  2.225  H32 AR7 66 
2YT H33 H33 H  0 1 N N N N N N -14.887 -2.512  3.008  -3.537 -2.860 -1.104 H33 AR7 67 
2YT H34 H34 H  0 1 N N N N N N -14.195 -0.436  2.150  -3.962 -3.711 1.639  H34 AR7 68 
2YT H35 H35 H  0 1 N N N N N N -13.879 -3.005  0.201  -1.110 -2.929 -0.459 H   0QE 69 
2YT H36 H36 H  0 1 N N N N N N -12.879 -1.925  1.231  -1.579 -3.661 1.094  HA  0QE 70 
# 
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 
2YT C5  C6  DOUB Y N 1  
2YT C5  C4  SING Y N 2  
2YT C6  C7  SING Y N 3  
2YT C3  C4  SING N N 4  
2YT C3  C2  SING N N 5  
2YT C7  C8  DOUB Y N 6  
2YT C4  C9  DOUB Y N 7  
2YT C8  C9  SING Y N 8  
2YT N1  C2  SING N N 9  
2YT N28 C27 DOUB N N 10 
2YT C2  C10 SING N N 11 
2YT N29 C27 SING N N 12 
2YT C27 N26 SING N N 13 
2YT C10 N11 SING N N 14 
2YT C10 O34 DOUB N N 15 
2YT O33 C20 DOUB N N 16 
2YT N11 C12 SING N N 17 
2YT C19 C18 DOUB Y N 18 
2YT C19 C14 SING Y N 19 
2YT N26 C25 SING N N 20 
2YT C13 C12 SING N N 21 
2YT C13 C14 SING N N 22 
2YT C20 C12 SING N N 23 
2YT C20 N21 SING N N 24 
2YT C25 C24 SING N N 25 
2YT C18 C17 SING Y N 26 
2YT C14 C15 DOUB Y N 27 
2YT N21 C22 SING N N 28 
2YT C22 C30 SING N N 29 
2YT C22 C23 SING N N 30 
2YT C32 C30 SING N N 31 
2YT C17 C16 DOUB Y N 32 
2YT C24 C23 SING N N 33 
2YT C15 C16 SING Y N 34 
2YT O31 C30 SING N N 35 
2YT C32 CL1 SING N N 36 
2YT C5  H1  SING N N 37 
2YT C6  H2  SING N N 38 
2YT C7  H3  SING N N 39 
2YT C8  H4  SING N N 40 
2YT C9  H5  SING N N 41 
2YT C12 H6  SING N N 42 
2YT C13 H7  SING N N 43 
2YT C13 H8  SING N N 44 
2YT N1  H9  SING N N 45 
2YT N1  H10 SING N N 46 
2YT C3  H12 SING N N 47 
2YT C3  H13 SING N N 48 
2YT C2  H14 SING N N 49 
2YT N11 H15 SING N N 50 
2YT C15 H16 SING N N 51 
2YT C16 H17 SING N N 52 
2YT C17 H18 SING N N 53 
2YT C18 H19 SING N N 54 
2YT C19 H20 SING N N 55 
2YT N21 H21 SING N N 56 
2YT C22 H22 SING N N 57 
2YT C23 H23 SING N N 58 
2YT C23 H24 SING N N 59 
2YT C24 H25 SING N N 60 
2YT C24 H26 SING N N 61 
2YT C25 H27 SING N N 62 
2YT C25 H28 SING N N 63 
2YT N26 H29 SING N N 64 
2YT N28 H30 SING N N 65 
2YT N29 H31 SING N N 66 
2YT N29 H32 SING N N 67 
2YT C30 H33 SING N N 68 
2YT O31 H34 SING N N 69 
2YT C32 H35 SING N N 70 
2YT C32 H36 SING N N 71 
# 
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 
2YT SMILES           ACDLabs              12.01 "ClCC(O)C(NC(=O)C(NC(=O)C(N)Cc1ccccc1)Cc2ccccc2)CCCNC(=[N@H])N"                                                                                                                                                        
2YT InChI            InChI                1.03  "InChI=1S/C25H35ClN6O3/c26-16-22(33)20(12-7-13-30-25(28)29)31-24(35)21(15-18-10-5-2-6-11-18)32-23(34)19(27)14-17-8-3-1-4-9-17/h1-6,8-11,19-22,33H,7,12-16,27H2,(H,31,35)(H,32,34)(H4,28,29,30)/t19-,20-,21-,22+/m0/s1" 
2YT InChIKey         InChI                1.03  ZKHBINZTIMXMQW-MYGLTJDJSA-N                                                                                                                                                                                            
2YT SMILES_CANONICAL CACTVS               3.385 "N[C@@H](Cc1ccccc1)C(=O)N[C@@H](Cc2ccccc2)C(=O)N[C@@H](CCCNC(N)=N)[C@H](O)CCl"                                                                                                                                         
2YT SMILES           CACTVS               3.385 "N[CH](Cc1ccccc1)C(=O)N[CH](Cc2ccccc2)C(=O)N[CH](CCCNC(N)=N)[CH](O)CCl"                                                                                                                                                
2YT SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "[H]/N=C(/N)\NCCC[C@@H]([C@@H](CCl)O)NC(=O)[C@H](Cc1ccccc1)NC(=O)[C@H](Cc2ccccc2)N"                                                                                                                                    
2YT SMILES           "OpenEye OEToolkits" 1.7.6 "c1ccc(cc1)CC(C(=O)NC(Cc2ccccc2)C(=O)NC(CCCNC(=N)N)C(CCl)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 
2YT "SYSTEMATIC NAME" ACDLabs              12.01 "L-phenylalanyl-N-[(2S,3S)-6-carbamimidamido-1-chloro-2-hydroxyhexan-3-yl]-L-phenylalaninamide"                                                           
2YT "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "(2S)-2-azanyl-N-[(2S)-1-[[(2S,3S)-6-carbamimidamido-1-chloranyl-2-oxidanyl-hexan-3-yl]amino]-1-oxidanylidene-3-phenyl-propan-2-yl]-3-phenyl-propanamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
2YT "Create component" 2014-04-29 RCSB 
2YT "Initial release"  2014-09-03 RCSB 
2YT "Modify synonyms"  2020-06-05 PDBE 
2YT "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      2YT 
_pdbx_chem_comp_synonyms.name         PHE-PHE-ARG-chloromethylketone 
_pdbx_chem_comp_synonyms.provenance   ? 
_pdbx_chem_comp_synonyms.type         ? 
# 
loop_
_pdbx_chem_comp_pcm.pcm_id 
_pdbx_chem_comp_pcm.comp_id 
_pdbx_chem_comp_pcm.modified_residue_id 
_pdbx_chem_comp_pcm.type 
_pdbx_chem_comp_pcm.category 
_pdbx_chem_comp_pcm.position 
_pdbx_chem_comp_pcm.polypeptide_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 
1 2YT HIS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C32 NE2 ? ? 
2 2YT SER None "Covalent chemical modification" "Amino-acid side chain" "Any position" C30 OG  ? ? 
# 
