data_YMS
# 
_chem_comp.id                                    YMS 
_chem_comp.name                                  "(1R,2S)-1-hydroxy-2-((S)-4-methyl-2-(((((1r,4S)-4-phenylcyclohexyl)oxy)carbonyl)amino)pentanamido)-3-((S)-2-oxopyrrolidin-3-yl)propane-1-sulfonic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C26 H39 N3 O8 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2021-03-12 
_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                        553.668 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YMS 
_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        7LZZ 
_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 
YMS C02 C1  C 0 1 N N N N N N 10.383 7.547  22.255 1.501  -0.847 0.266  C02 YMS 1  
YMS C04 C2  C 0 1 N N S N N N 10.775 5.105  22.005 -0.870 -0.881 -0.297 C04 YMS 2  
YMS C05 C3  C 0 1 N N N N N N 11.462 3.996  22.790 -1.214 -2.336 -0.621 C05 YMS 3  
YMS C06 C4  C 0 1 N N N N N N 12.947 4.285  22.977 -2.248 -2.378 -1.748 C06 YMS 4  
YMS C07 C5  C 0 1 N N N N N N 13.530 3.449  24.113 -1.614 -1.859 -3.040 C07 YMS 5  
YMS C08 C6  C 0 1 N N N N N N 13.710 3.996  21.694 -2.721 -3.818 -1.954 C08 YMS 6  
YMS C09 C7  C 0 1 N N N N N N 9.383  4.662  21.599 -2.083 -0.193 0.273  C09 YMS 7  
YMS C11 C8  C 0 1 N N S N N N 7.824  3.784  19.866 -4.182 1.013  -0.006 C11 YMS 8  
YMS C12 C9  C 0 1 N N N N N N 7.350  4.650  18.705 -4.929 0.162  1.023  C12 YMS 9  
YMS C13 C10 C 0 1 N N S N N N 7.064  6.027  19.123 -5.514 -1.074 0.336  C13 YMS 10 
YMS C14 C11 C 0 1 N N N N N N 6.582  6.884  17.870 -6.251 -1.937 1.336  C14 YMS 11 
YMS C16 C12 C 0 1 N N N N N N 5.307  7.322  19.828 -7.626 -1.808 -0.532 C16 YMS 12 
YMS C17 C13 C 0 1 N N N N N N 5.871  6.088  20.055 -6.601 -0.662 -0.684 C17 YMS 13 
YMS C19 C14 C 0 1 N N R N N N 7.868  2.287  19.528 -3.658 2.283  0.666  C19 YMS 14 
YMS C23 C15 C 0 1 N N N N N N 9.932  9.876  22.617 3.855  -0.723 0.638  C23 YMS 15 
YMS C24 C16 C 0 1 N N N N N N 11.150 10.795 22.714 4.801  -1.296 1.696  C24 YMS 16 
YMS C25 C17 C 0 1 N N N N N N 10.791 12.269 22.500 6.229  -1.310 1.148  C25 YMS 17 
YMS C26 C18 C 0 1 N N N N N N 9.670  12.698 23.448 6.656  0.118  0.800  C26 YMS 18 
YMS C27 C19 C 0 1 Y N N N N N 9.340  14.198 23.298 8.063  0.104  0.261  C27 YMS 19 
YMS C28 C20 C 0 1 Y N N N N N 8.339  14.637 22.439 8.358  -0.616 -0.882 C28 YMS 20 
YMS C29 C21 C 0 1 Y N N N N N 8.051  15.990 22.330 9.649  -0.629 -1.377 C29 YMS 21 
YMS C30 C22 C 0 1 Y N N N N N 8.769  16.908 23.076 10.645 0.077  -0.729 C30 YMS 22 
YMS C31 C23 C 0 1 Y N N N N N 9.766  16.476 23.937 10.350 0.798  0.413  C31 YMS 23 
YMS C32 C24 C 0 1 Y N N N N N 10.050 15.123 24.050 9.058  0.815  0.905  C32 YMS 24 
YMS C33 C25 C 0 1 N N N N N N 8.430  11.837 23.178 5.710  0.690  -0.257 C33 YMS 25 
YMS C34 C26 C 0 1 N N N N N N 8.736  10.365 23.433 4.282  0.704  0.291  C34 YMS 26 
YMS N03 N1  N 0 1 N N N N N N 10.652 6.261  22.847 0.219  -0.843 0.682  N03 YMS 27 
YMS N10 N2  N 0 1 N N N N N N 9.150  4.216  20.247 -3.057 0.247  -0.548 N10 YMS 28 
YMS N15 N3  N 0 1 N N N N N N 5.543  7.631  18.300 -7.432 -2.329 0.826  N15 YMS 29 
YMS O01 O1  O 0 1 N N N N N N 10.268 7.668  21.077 1.755  -0.970 -0.916 O01 YMS 30 
YMS O18 O2  O 0 1 N N N N N N 7.045  6.857  16.784 -5.837 -2.232 2.437  O18 YMS 31 
YMS O20 O3  O 0 1 N N N N N N 8.238  1.621  20.703 -4.752 3.010  1.229  O20 YMS 32 
YMS O21 O4  O 0 1 N N N N N N 8.500  4.698  22.383 -2.184 -0.035 1.472  O21 YMS 33 
YMS O22 O5  O 0 1 N N N N N N 10.275 8.620  23.139 2.499  -0.710 1.158  O22 YMS 34 
YMS H1  H1  H 0 1 N N N N N N 11.365 5.338  21.106 -0.557 -0.370 -1.208 H1  YMS 35 
YMS H2  H2  H 0 1 N N N N N N 10.987 3.910  23.778 -0.312 -2.862 -0.936 H2  YMS 36 
YMS H3  H3  H 0 1 N N N N N N 11.348 3.048  22.244 -1.624 -2.819 0.267  H3  YMS 37 
YMS H4  H4  H 0 1 N N N N N N 13.069 5.349  23.227 -3.099 -1.750 -1.483 H4  YMS 38 
YMS H5  H5  H 0 1 N N N N N N 12.979 3.657  25.042 -0.808 -2.527 -3.343 H5  YMS 39 
YMS H6  H6  H 0 1 N N N N N N 13.441 2.381  23.865 -2.370 -1.821 -3.825 H6  YMS 40 
YMS H7  H7  H 0 1 N N N N N N 14.591 3.706  24.250 -1.214 -0.859 -2.873 H7  YMS 41 
YMS H8  H8  H 0 1 N N N N N N 14.778 4.209  21.846 -3.172 -4.188 -1.033 H8  YMS 42 
YMS H9  H9  H 0 1 N N N N N N 13.583 2.938  21.422 -3.457 -3.848 -2.756 H9  YMS 43 
YMS H10 H10 H 0 1 N N N N N N 13.321 4.632  20.885 -1.870 -4.446 -2.218 H10 YMS 44 
YMS H11 H11 H 0 1 N N N N N N 7.135  3.927  20.711 -4.861 1.283  -0.815 H11 YMS 45 
YMS H12 H12 H 0 1 N N N N N N 6.434  4.209  18.285 -4.239 -0.151 1.806  H12 YMS 46 
YMS H13 H13 H 0 1 N N N N N N 8.134  4.669  17.934 -5.736 0.749  1.463  H13 YMS 47 
YMS H14 H14 H 0 1 N N N N N N 7.944  6.501  19.582 -4.726 -1.644 -0.156 H14 YMS 48 
YMS H15 H15 H 0 1 N N N N N N 5.794  8.086  20.452 -8.640 -1.425 -0.647 H15 YMS 49 
YMS H16 H16 H 0 1 N N N N N N 4.230  7.297  20.051 -7.431 -2.588 -1.268 H16 YMS 50 
YMS H17 H17 H 0 1 N N N N N N 5.155  5.286  19.820 -7.045 0.296  -0.415 H17 YMS 51 
YMS H18 H18 H 0 1 N N N N N N 6.193  5.997  21.103 -6.196 -0.632 -1.695 H18 YMS 52 
YMS S1  S1  S 0 1 N Y N N N N 8.572  2.095  18.745 -2.814 3.314  -0.565 S1  YMS 53 
YMS H20 H20 H 0 1 N N N N N N 6.837  1.994  19.281 -2.957 2.013  1.456  H20 YMS 54 
YMS H21 H21 H 0 1 N N N N N N 9.633  9.790  21.562 3.894  -1.343 -0.258 H21 YMS 55 
YMS H22 H22 H 0 1 N N N N N N 11.880 10.495 21.948 4.762  -0.676 2.592  H22 YMS 56 
YMS H23 H23 H 0 1 N N N N N N 11.598 10.682 23.712 4.497  -2.312 1.944  H23 YMS 57 
YMS H24 H24 H 0 1 N N N N N N 11.680 12.888 22.690 6.903  -1.717 1.901  H24 YMS 58 
YMS H25 H25 H 0 1 N N N N N N 10.459 12.412 21.461 6.269  -1.929 0.252  H25 YMS 59 
YMS H26 H26 H 0 1 N N N N N N 10.000 12.518 24.482 6.617  0.737  1.696  H26 YMS 60 
YMS H27 H27 H 0 1 N N N N N N 7.782  13.921 21.853 7.580  -1.168 -1.388 H27 YMS 61 
YMS H28 H28 H 0 1 N N N N N N 7.269  16.326 21.665 9.879  -1.192 -2.270 H28 YMS 62 
YMS H29 H29 H 0 1 N N N N N N 8.552  17.962 22.987 11.653 0.067  -1.116 H29 YMS 63 
YMS H30 H30 H 0 1 N N N N N N 10.323 17.194 24.521 11.128 1.350  0.919  H30 YMS 64 
YMS H31 H31 H 0 1 N N N N N N 10.825 14.789 24.724 8.827  1.381  1.796  H31 YMS 65 
YMS H32 H32 H 0 1 N N N N N N 8.121  11.966 22.130 6.015  1.707  -0.505 H32 YMS 66 
YMS H33 H33 H 0 1 N N N N N N 7.615  12.158 23.843 5.749  0.070  -1.153 H33 YMS 67 
YMS H34 H34 H 0 1 N N N N N N 7.853  9.767  23.162 3.608  1.112  -0.463 H34 YMS 68 
YMS H35 H35 H 0 1 N N N N N N 8.957  10.229 24.502 4.242  1.324  1.186  H35 YMS 69 
YMS H36 H36 H 0 1 N N N N N N 10.752 6.174  23.838 0.017  -0.814 1.631  H36 YMS 70 
YMS H37 H37 H 0 1 N N N N N N 9.896  4.206  19.582 -3.013 0.056  -1.498 H37 YMS 71 
YMS H38 H38 H 0 1 N N N N N N 5.013  8.271  17.744 -8.073 -2.885 1.296  H38 YMS 72 
YMS H39 H39 H 0 1 N N N N N N 8.278  0.686  20.539 -5.249 2.519  1.896  H39 YMS 73 
YMS O1  O6  O 0 1 N Y N N N N ?      ?      ?      -3.644 3.513  -1.701 O1  YMS 74 
YMS O2  O7  O 0 1 N Y N N N N ?      ?      ?      -2.160 4.407  0.065  O2  YMS 75 
YMS O3  O8  O 0 1 N Y N N N N ?      ?      ?      -1.678 2.441  -1.077 O3  YMS 76 
YMS H19 H19 H 0 1 N Y N N N N ?      ?      ?      -1.130 2.865  -1.752 H19 YMS 77 
# 
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 
YMS O18 C14 DOUB N N 1  
YMS C14 N15 SING N N 2  
YMS C14 C13 SING N N 3  
YMS N15 C16 SING N N 4  
YMS C12 C13 SING N N 5  
YMS C12 C11 SING N N 6  
YMS C13 C17 SING N N 7  
YMS C19 C11 SING N N 8  
YMS C19 O20 SING N N 9  
YMS C16 C17 SING N N 10 
YMS C11 N10 SING N N 11 
YMS N10 C09 SING N N 12 
YMS O01 C02 DOUB N N 13 
YMS C09 C04 SING N N 14 
YMS C09 O21 DOUB N N 15 
YMS C08 C06 SING N N 16 
YMS C04 C05 SING N N 17 
YMS C04 N03 SING N N 18 
YMS C02 N03 SING N N 19 
YMS C02 O22 SING N N 20 
YMS C29 C28 DOUB Y N 21 
YMS C29 C30 SING Y N 22 
YMS C28 C27 SING Y N 23 
YMS C25 C24 SING N N 24 
YMS C25 C26 SING N N 25 
YMS C23 C24 SING N N 26 
YMS C23 O22 SING N N 27 
YMS C23 C34 SING N N 28 
YMS C05 C06 SING N N 29 
YMS C06 C07 SING N N 30 
YMS C30 C31 DOUB Y N 31 
YMS C33 C34 SING N N 32 
YMS C33 C26 SING N N 33 
YMS C27 C26 SING N N 34 
YMS C27 C32 DOUB Y N 35 
YMS C31 C32 SING Y N 36 
YMS C04 H1  SING N N 37 
YMS C05 H2  SING N N 38 
YMS C05 H3  SING N N 39 
YMS C06 H4  SING N N 40 
YMS C07 H5  SING N N 41 
YMS C07 H6  SING N N 42 
YMS C07 H7  SING N N 43 
YMS C08 H8  SING N N 44 
YMS C08 H9  SING N N 45 
YMS C08 H10 SING N N 46 
YMS C11 H11 SING N N 47 
YMS C12 H12 SING N N 48 
YMS C12 H13 SING N N 49 
YMS C13 H14 SING N N 50 
YMS C16 H15 SING N N 51 
YMS C16 H16 SING N N 52 
YMS C17 H17 SING N N 53 
YMS C17 H18 SING N N 54 
YMS C19 S1  SING N N 55 
YMS C19 H20 SING N N 56 
YMS C23 H21 SING N N 57 
YMS C24 H22 SING N N 58 
YMS C24 H23 SING N N 59 
YMS C25 H24 SING N N 60 
YMS C25 H25 SING N N 61 
YMS C26 H26 SING N N 62 
YMS C28 H27 SING N N 63 
YMS C29 H28 SING N N 64 
YMS C30 H29 SING N N 65 
YMS C31 H30 SING N N 66 
YMS C32 H31 SING N N 67 
YMS C33 H32 SING N N 68 
YMS C33 H33 SING N N 69 
YMS C34 H34 SING N N 70 
YMS C34 H35 SING N N 71 
YMS N03 H36 SING N N 72 
YMS N10 H37 SING N N 73 
YMS N15 H38 SING N N 74 
YMS O20 H39 SING N N 75 
YMS S1  O1  DOUB N N 76 
YMS S1  O2  DOUB N N 77 
YMS S1  O3  SING N N 78 
YMS O3  H19 SING N N 79 
# 
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 
YMS SMILES           ACDLabs              12.01 "CC(C)CC(NC(=O)OC1CCC(CC1)c1ccccc1)C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O"                                                                                                                                                                              
YMS InChI            InChI                1.03  "InChI=1S/C26H39N3O8S/c1-16(2)14-21(24(31)28-22(25(32)38(34,35)36)15-19-12-13-27-23(19)30)29-26(33)37-20-10-8-18(9-11-20)17-6-4-3-5-7-17/h3-7,16,18-22,25,32H,8-15H2,1-2H3,(H,27,30)(H,28,31)(H,29,33)(H,34,35,36)/t18-,19-,20-,21-,22-,25+/m0/s1" 
YMS InChIKey         InChI                1.03  GQBZOCZYIKJBAR-JACXQYEBSA-N                                                                                                                                                                                                                        
YMS SMILES_CANONICAL CACTVS               3.385 "CC(C)C[C@H](NC(=O)O[C@@H]1CC[C@H](CC1)c2ccccc2)C(=O)N[C@@H](C[C@@H]3CCNC3=O)[C@H](O)[S](O)(=O)=O"                                                                                                                                                 
YMS SMILES           CACTVS               3.385 "CC(C)C[CH](NC(=O)O[CH]1CC[CH](CC1)c2ccccc2)C(=O)N[CH](C[CH]3CCNC3=O)[CH](O)[S](O)(=O)=O"                                                                                                                                                          
YMS SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)C[C@@H](C(=O)N[C@@H](C[C@@H]1CCNC1=O)C(O)S(=O)(=O)O)NC(=O)OC2CCC(CC2)c3ccccc3"                                                                                                                                                               
YMS SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O)NC(=O)OC2CCC(CC2)c3ccccc3"                                                                                                                                                                              
# 
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 
YMS "SYSTEMATIC NAME" ACDLabs              12.01 "(1R,2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]-2-{[N-({[(1r,4S)-4-phenylcyclohexyl]oxy}carbonyl)-L-leucyl]amino}propane-1-sulfonic acid"                           
YMS "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-[[(2~{S})-4-methyl-2-[(4-phenylcyclohexyl)oxycarbonylamino]pentanoyl]amino]-1-oxidanyl-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propane-1-sulfonic 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 
YMS "Create component" 2021-03-12 RCSB 
YMS "Initial release"  2021-03-24 RCSB 
YMS "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            YMS 
_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               C19 
_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      ? 
# 
