data_YKS
# 
_chem_comp.id                                    YKS 
_chem_comp.name                                  "(1R,2S)-2-((S)-2-((((S)-1-(4,4-difluorocyclohexyl)-2-phenylethoxy)carbonyl)amino)-4-methylpentanamido)-1-hydroxy-3-((S)-2-oxopyrrolidin-3-yl)propane-1-sulfonic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C28 H41 F2 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                     2021-03-11 
_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                        617.702 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YKS 
_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        7M01 
_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 
YKS C11 C1  C 0 1 N N S N N N 8.514  19.721 28.029 3.645  0.588  -0.026 C11 YKS 1  
YKS C12 C2  C 0 1 N N N N N N 7.520  19.745 26.808 4.598  0.365  1.149  C12 YKS 2  
YKS C13 C3  C 0 1 N N S N N N 7.195  21.155 26.267 3.856  0.620  2.463  C13 YKS 3  
YKS C14 C4  C 0 1 N N N N N N 6.313  21.088 24.981 4.778  0.402  3.642  C14 YKS 4  
YKS C17 C5  C 0 1 N N N N N N 6.266  21.869 27.274 3.446  2.107  2.573  C17 YKS 5  
YKS C19 C6  C 0 1 N N R N N N 8.685  18.270 28.562 4.423  0.493  -1.340 C19 YKS 6  
YKS C23 C7  C 0 1 N N S N N N 9.291  25.974 25.571 -3.775 1.319  0.208  C23 YKS 7  
YKS C02 C8  C 0 1 N N N N N N 10.611 24.075 26.366 -1.784 0.068  -0.198 C02 YKS 8  
YKS C04 C9  C 0 1 N N S N N N 11.631 22.127 27.525 0.284  -1.197 -0.443 C04 YKS 9  
YKS C05 C10 C 0 1 N N N N N N 12.703 21.896 28.580 0.722  -2.395 -1.289 C05 YKS 10 
YKS C06 C11 C 0 1 N N N N N N 14.118 22.329 28.137 -0.308 -3.518 -1.155 C06 YKS 11 
YKS C07 C12 C 0 1 N N N N N N 14.583 21.541 26.906 -1.628 -3.078 -1.794 C07 YKS 12 
YKS C08 C13 C 0 1 N N N N N N 15.139 22.171 29.276 0.209  -4.771 -1.864 C08 YKS 13 
YKS C09 C14 C 0 1 N N N N N N 10.218 21.623 28.007 1.362  -0.145 -0.465 C09 YKS 14 
YKS C16 C15 C 0 1 N N N N N N 5.218  22.604 26.404 3.635  2.376  4.082  C16 YKS 15 
YKS C24 C16 C 0 1 N N N N N N 7.864  25.656 26.182 -4.447 2.429  -0.603 C24 YKS 16 
YKS C25 C17 C 0 1 Y N N N N N 7.598  26.142 27.619 -3.394 3.353  -1.158 C25 YKS 17 
YKS C26 C18 C 0 1 Y N N N N N 8.034  25.424 28.763 -2.980 4.449  -0.425 C26 YKS 18 
YKS C27 C19 C 0 1 Y N N N N N 7.784  25.897 30.067 -2.014 5.297  -0.935 C27 YKS 19 
YKS C28 C20 C 0 1 Y N N N N N 7.098  27.109 30.253 -1.462 5.048  -2.177 C28 YKS 20 
YKS C29 C21 C 0 1 Y N N N N N 6.664  27.833 29.142 -1.875 3.951  -2.910 C29 YKS 21 
YKS C30 C22 C 0 1 Y N N N N N 6.917  27.353 27.849 -2.838 3.101  -2.399 C30 YKS 22 
YKS C31 C23 C 0 1 N N N N N N 9.599  27.529 25.470 -4.847 0.454  0.874  C31 YKS 23 
YKS C32 C24 C 0 1 N N N N N N 8.752  28.275 24.408 -4.179 -0.561 1.803  C32 YKS 24 
YKS C33 C25 C 0 1 N N N N N N 8.999  29.779 24.479 -5.251 -1.426 2.470  C33 YKS 25 
YKS C34 C26 C 0 1 N N N N N N 10.513 30.124 24.204 -6.049 -2.166 1.395  C34 YKS 26 
YKS C37 C27 C 0 1 N N N N N N 11.434 29.288 25.175 -6.718 -1.151 0.466  C37 YKS 27 
YKS C38 C28 C 0 1 N N N N N N 11.096 27.803 25.205 -5.646 -0.286 -0.200 C38 YKS 28 
YKS F35 F1  F 0 1 N N N N N N 10.737 31.412 24.350 -7.029 -2.957 2.004  F35 YKS 29 
YKS F36 F2  F 0 1 N N N N N N 10.805 29.886 22.966 -5.188 -2.981 0.653  F36 YKS 30 
YKS N03 N1  N 0 1 N N N N N N 11.539 23.561 27.249 -0.954 -0.639 -0.991 N03 YKS 31 
YKS N10 N2  N 0 1 N N N N N N 9.812  20.313 27.661 2.596  -0.435 -0.005 N10 YKS 32 
YKS N15 N3  N 0 1 N N N N N N 5.213  21.929 25.122 4.638  1.402  4.530  N15 YKS 33 
YKS O01 O1  O 0 1 N N N N N N 10.012 23.350 25.591 -1.463 0.320  0.946  O01 YKS 34 
YKS O18 O2  O 0 1 N N N N N N 6.555  20.425 23.984 5.534  -0.538 3.769  O18 YKS 35 
YKS O20 O3  O 0 1 N N N N N N 9.442  18.300 29.741 3.558  0.815  -2.431 O20 YKS 36 
YKS O21 O4  O 0 1 N N N N N N 9.521  22.371 28.627 1.121  0.962  -0.896 O21 YKS 37 
YKS O22 O5  O 0 1 N N N N N N 10.341 25.399 26.337 -2.969 0.495  -0.674 O22 YKS 38 
YKS H1  H1  H 0 1 N N N N N N 8.066  20.323 28.833 3.191  1.576  0.056  H1  YKS 39 
YKS H2  H2  H 0 1 N N N N N N 6.578  19.274 27.124 4.963  -0.662 1.132  H2  YKS 40 
YKS H3  H3  H 0 1 N N N N N N 7.967  19.159 25.991 5.441  1.052  1.069  H3  YKS 41 
YKS H4  H4  H 0 1 N N N N N N 8.112  21.736 26.088 2.980  -0.024 2.537  H4  YKS 42 
YKS H5  H5  H 0 1 N N N N N N 5.776  21.137 27.933 4.105  2.739  1.978  H5  YKS 43 
YKS H6  H6  H 0 1 N N N N N N 6.835  22.587 27.882 2.405  2.247  2.279  H6  YKS 44 
YKS S1  S1  S 0 1 N Y N N N N 9.166  17.658 27.827 5.055  -1.195 -1.547 S1  YKS 45 
YKS H8  H8  H 0 1 N N N N N N 7.674  17.925 28.824 5.258  1.193  -1.319 H8  YKS 46 
YKS H9  H9  H 0 1 N N N N N N 9.313  25.566 24.550 -3.139 1.763  0.974  H9  YKS 47 
YKS H10 H10 H 0 1 N N N N N N 11.902 21.583 26.608 0.113  -1.521 0.584  H10 YKS 48 
YKS H11 H11 H 0 1 N N N N N N 12.432 22.467 29.481 0.797  -2.093 -2.334 H11 YKS 49 
YKS H12 H12 H 0 1 N N N N N N 12.728 20.823 28.820 1.693  -2.749 -0.942 H12 YKS 50 
YKS H13 H13 H 0 1 N N N N N N 14.076 23.394 27.864 -0.471 -3.738 -0.100 H13 YKS 51 
YKS H14 H14 H 0 1 N N N N N N 15.591 21.873 26.617 -2.323 -3.917 -1.803 H14 YKS 52 
YKS H15 H15 H 0 1 N N N N N N 14.604 20.467 27.145 -2.055 -2.258 -1.217 H15 YKS 53 
YKS H16 H16 H 0 1 N N N N N N 13.886 21.718 26.073 -1.444 -2.747 -2.816 H16 YKS 54 
YKS H17 H17 H 0 1 N N N N N N 14.799 22.738 30.155 1.149  -5.084 -1.409 H17 YKS 55 
YKS H18 H18 H 0 1 N N N N N N 15.232 21.107 29.540 -0.525 -5.571 -1.769 H18 YKS 56 
YKS H19 H19 H 0 1 N N N N N N 16.116 22.554 28.948 0.371  -4.551 -2.919 H19 YKS 57 
YKS H20 H20 H 0 1 N N N N N N 5.500  23.660 26.278 3.998  3.391  4.242  H20 YKS 58 
YKS H21 H21 H 0 1 N N N N N N 4.224  22.543 26.871 2.696  2.224  4.613  H21 YKS 59 
YKS H22 H22 H 0 1 N N N N N N 7.111  26.122 25.529 -5.013 1.988  -1.423 H22 YKS 60 
YKS H23 H23 H 0 1 N N N N N N 7.734  24.564 26.171 -5.122 2.993  0.042  H23 YKS 61 
YKS H24 H24 H 0 1 N N N N N N 8.569  24.495 28.631 -3.411 4.644  0.546  H24 YKS 62 
YKS H25 H25 H 0 1 N N N N N N 8.119  25.329 30.922 -1.691 6.154  -0.362 H25 YKS 63 
YKS H26 H26 H 0 1 N N N N N N 6.908  27.478 31.250 -0.707 5.710  -2.575 H26 YKS 64 
YKS H27 H27 H 0 1 N N N N N N 6.133  28.764 29.278 -1.444 3.756  -3.881 H27 YKS 65 
YKS H28 H28 H 0 1 N N N N N N 6.579  27.931 27.002 -3.158 2.242  -2.969 H28 YKS 66 
YKS H29 H29 H 0 1 N N N N N N 9.354  27.967 26.449 -5.518 1.089  1.453  H29 YKS 67 
YKS H30 H30 H 0 1 N N N N N N 7.686  28.075 24.591 -3.508 -1.196 1.225  H30 YKS 68 
YKS H31 H31 H 0 1 N N N N N N 9.026  27.911 23.407 -3.610 -0.034 2.569  H31 YKS 69 
YKS H32 H32 H 0 1 N N N N N N 8.725  30.140 25.481 -4.774 -2.149 3.132  H32 YKS 70 
YKS H33 H33 H 0 1 N N N N N N 8.374  30.281 23.725 -5.922 -0.791 3.048  H33 YKS 71 
YKS H34 H34 H 0 1 N N N N N N 12.478 29.401 24.848 -7.287 -1.679 -0.299 H34 YKS 72 
YKS H35 H35 H 0 1 N N N N N N 11.323 29.691 26.193 -7.389 -0.516 1.045  H35 YKS 73 
YKS H36 H36 H 0 1 N N N N N N 11.366 27.362 24.234 -6.122 0.437  -0.862 H36 YKS 74 
YKS H37 H37 H 0 1 N N N N N N 11.686 27.325 26.001 -4.975 -0.921 -0.779 H37 YKS 75 
YKS H38 H38 H 0 1 N N N N N N 12.166 24.186 27.713 -1.177 -0.778 -1.925 H38 YKS 76 
YKS H39 H39 H 0 1 N N N N N N 10.448 19.752 27.132 2.789  -1.321 0.340  H39 YKS 77 
YKS H40 H40 H 0 1 N N N N N N 4.507  22.052 24.425 5.135  1.470  5.360  H40 YKS 78 
YKS H41 H41 H 0 1 N N N N N N 9.550  17.416 30.071 2.792  0.231  -2.511 H41 YKS 79 
YKS O1  O6  O 0 1 N Y N N N N ?      ?      ?      6.063  -1.472 -0.585 O1  YKS 80 
YKS O2  O7  O 0 1 N Y N N N N ?      ?      ?      3.986  -2.104 -1.771 O2  YKS 81 
YKS O3  O8  O 0 1 N Y N N N N ?      ?      ?      5.801  -1.161 -2.873 O3  YKS 82 
YKS H7  H7  H 0 1 N Y N N N N ?      ?      ?      6.200  -2.006 -3.122 H7  YKS 83 
# 
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 
YKS F36 C34 SING N N 1  
YKS O18 C14 DOUB N N 2  
YKS C34 F35 SING N N 3  
YKS C34 C33 SING N N 4  
YKS C34 C37 SING N N 5  
YKS C32 C33 SING N N 6  
YKS C32 C31 SING N N 7  
YKS C14 N15 SING N N 8  
YKS C14 C13 SING N N 9  
YKS N15 C16 SING N N 10 
YKS C37 C38 SING N N 11 
YKS C38 C31 SING N N 12 
YKS C31 C23 SING N N 13 
YKS C23 C24 SING N N 14 
YKS C23 O22 SING N N 15 
YKS O01 C02 DOUB N N 16 
YKS C24 C25 SING N N 17 
YKS C13 C12 SING N N 18 
YKS C13 C17 SING N N 19 
YKS O22 C02 SING N N 20 
YKS C02 N03 SING N N 21 
YKS C16 C17 SING N N 22 
YKS C12 C11 SING N N 23 
YKS C07 C06 SING N N 24 
YKS N03 C04 SING N N 25 
YKS C04 C09 SING N N 26 
YKS C04 C05 SING N N 27 
YKS C25 C30 DOUB Y N 28 
YKS C25 C26 SING Y N 29 
YKS N10 C09 SING N N 30 
YKS N10 C11 SING N N 31 
YKS C30 C29 SING Y N 32 
YKS C09 O21 DOUB N N 33 
YKS C11 C19 SING N N 34 
YKS C06 C05 SING N N 35 
YKS C06 C08 SING N N 36 
YKS C19 O20 SING N N 37 
YKS C26 C27 DOUB Y N 38 
YKS C29 C28 DOUB Y N 39 
YKS C27 C28 SING Y N 40 
YKS C11 H1  SING N N 41 
YKS C12 H2  SING N N 42 
YKS C12 H3  SING N N 43 
YKS C13 H4  SING N N 44 
YKS C17 H5  SING N N 45 
YKS C17 H6  SING N N 46 
YKS C19 S1  SING N N 47 
YKS C19 H8  SING N N 48 
YKS C23 H9  SING N N 49 
YKS C04 H10 SING N N 50 
YKS C05 H11 SING N N 51 
YKS C05 H12 SING N N 52 
YKS C06 H13 SING N N 53 
YKS C07 H14 SING N N 54 
YKS C07 H15 SING N N 55 
YKS C07 H16 SING N N 56 
YKS C08 H17 SING N N 57 
YKS C08 H18 SING N N 58 
YKS C08 H19 SING N N 59 
YKS C16 H20 SING N N 60 
YKS C16 H21 SING N N 61 
YKS C24 H22 SING N N 62 
YKS C24 H23 SING N N 63 
YKS C26 H24 SING N N 64 
YKS C27 H25 SING N N 65 
YKS C28 H26 SING N N 66 
YKS C29 H27 SING N N 67 
YKS C30 H28 SING N N 68 
YKS C31 H29 SING N N 69 
YKS C32 H30 SING N N 70 
YKS C32 H31 SING N N 71 
YKS C33 H32 SING N N 72 
YKS C33 H33 SING N N 73 
YKS C37 H34 SING N N 74 
YKS C37 H35 SING N N 75 
YKS C38 H36 SING N N 76 
YKS C38 H37 SING N N 77 
YKS N03 H38 SING N N 78 
YKS N10 H39 SING N N 79 
YKS N15 H40 SING N N 80 
YKS O20 H41 SING N N 81 
YKS S1  O1  DOUB N N 82 
YKS S1  O2  DOUB N N 83 
YKS S1  O3  SING N N 84 
YKS O3  H7  SING N N 85 
# 
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 
YKS SMILES           ACDLabs              12.01 "CC(C)CC(NC(=O)OC(Cc1ccccc1)C1CCC(F)(F)CC1)C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O"                                                                                                                                                                                
YKS InChI            InChI                1.03  "InChI=1S/C28H41F2N3O8S/c1-17(2)14-21(25(35)32-22(26(36)42(38,39)40)16-20-10-13-31-24(20)34)33-27(37)41-23(15-18-6-4-3-5-7-18)19-8-11-28(29,30)12-9-19/h3-7,17,19-23,26,36H,8-16H2,1-2H3,(H,31,34)(H,32,35)(H,33,37)(H,38,39,40)/t20-,21-,22-,23-,26+/m0/s1" 
YKS InChIKey         InChI                1.03  PDAAZWNVPCMYBL-NRAAZAKSSA-N                                                                                                                                                                                                                                  
YKS SMILES_CANONICAL CACTVS               3.385 "CC(C)C[C@H](NC(=O)O[C@@H](Cc1ccccc1)C2CCC(F)(F)CC2)C(=O)N[C@@H](C[C@@H]3CCNC3=O)[C@H](O)[S](O)(=O)=O"                                                                                                                                                       
YKS SMILES           CACTVS               3.385 "CC(C)C[CH](NC(=O)O[CH](Cc1ccccc1)C2CCC(F)(F)CC2)C(=O)N[CH](C[CH]3CCNC3=O)[CH](O)[S](O)(=O)=O"                                                                                                                                                               
YKS 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)O[C@@H](Cc2ccccc2)C3CCC(CC3)(F)F"                                                                                                                                                            
YKS SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O)NC(=O)OC(Cc2ccccc2)C3CCC(CC3)(F)F"                                                                                                                                                                                
# 
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 
YKS "SYSTEMATIC NAME" ACDLabs              12.01 "(1R,2S)-2-[(N-{[(1S)-1-(4,4-difluorocyclohexyl)-2-phenylethoxy]carbonyl}-L-leucyl)amino]-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid"                                                
YKS "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-[[(2~{S})-2-[[(1~{S})-1-[4,4-bis(fluoranyl)cyclohexyl]-2-phenyl-ethoxy]carbonylamino]-4-methyl-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 
YKS "Create component" 2021-03-11 RCSB 
YKS "Initial release"  2021-03-24 RCSB 
YKS "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            YKS 
_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      ? 
# 
