data_YKV
# 
_chem_comp.id                                    YKV 
_chem_comp.name                                  "(1S,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                     YKV 
_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 
YKV C11 C1  C 0 1 N N S N N N 8.547  19.813 27.970 3.804  -0.565 -0.255 C11 YKV 1  
YKV C12 C2  C 0 1 N N N N N N 7.531  19.740 26.805 4.848  -0.485 0.861  C12 YKV 2  
YKV C13 C3  C 0 1 N N S N N N 7.149  21.116 26.251 4.448  0.605  1.857  C13 YKV 3  
YKV C14 C4  C 0 1 N N N N N N 6.191  20.961 25.051 5.468  0.705  2.970  C14 YKV 4  
YKV C16 C5  C 0 1 N N N N N N 5.217  22.597 26.410 5.006  2.889  2.330  C16 YKV 5  
YKV C17 C6  C 0 1 N N N N N N 6.264  21.857 27.277 4.487  1.996  1.182  C17 YKV 6  
YKV O22 O1  O 0 1 N N N N N N 10.355 25.395 26.322 -3.135 0.738  -0.599 O22 YKV 7  
YKV C23 C7  C 0 1 N N S N N N 9.291  25.971 25.566 -4.207 1.407  0.116  C23 YKV 8  
YKV C02 C8  C 0 1 N N N N N N 10.598 24.063 26.415 -2.108 0.271  0.137  C02 YKV 9  
YKV C04 C9  C 0 1 N N S N N N 11.672 22.135 27.625 0.033  -0.875 0.330  C04 YKV 10 
YKV C05 C10 C 0 1 N N N N N N 12.792 21.939 28.615 -0.112 -2.398 0.326  C05 YKV 11 
YKV C06 C11 C 0 1 N N N N N N 14.182 22.359 28.118 -1.406 -2.789 1.042  C06 YKV 12 
YKV C07 C12 C 0 1 N N N N N N 14.612 21.543 26.894 -1.622 -4.298 0.918  C07 YKV 13 
YKV C08 C13 C 0 1 N N N N N N 15.214 22.203 29.244 -1.307 -2.407 2.520  C08 YKV 14 
YKV C09 C14 C 0 1 N N N N N N 10.348 21.523 28.212 1.368  -0.496 -0.258 C09 YKV 15 
YKV C19 C15 C 0 1 N N S N N N 8.831  18.413 28.574 4.229  -1.621 -1.277 C19 YKV 16 
YKV C24 C16 C 0 1 N N N N N N 7.864  25.654 26.182 -4.679 2.619  -0.691 C24 YKV 17 
YKV C25 C17 C 0 1 Y N N N N N 7.598  26.143 27.620 -3.565 3.630  -0.777 C25 YKV 18 
YKV C26 C18 C 0 1 Y N N N N N 8.031  25.423 28.764 -3.442 4.608  0.192  C26 YKV 19 
YKV C27 C19 C 0 1 Y N N N N N 7.782  25.897 30.068 -2.420 5.535  0.113  C27 YKV 20 
YKV C28 C20 C 0 1 Y N N N N N 7.099  27.111 30.254 -1.520 5.484  -0.935 C28 YKV 21 
YKV C29 C21 C 0 1 Y N N N N N 6.667  27.837 29.143 -1.643 4.506  -1.904 C29 YKV 22 
YKV C30 C22 C 0 1 Y N N N N N 6.920  27.356 27.850 -2.662 3.576  -1.823 C30 YKV 23 
YKV C31 C23 C 0 1 N N N N N N 9.594  27.530 25.465 -5.374 0.438  0.310  C31 YKV 24 
YKV C32 C24 C 0 1 N N N N N N 8.744  28.278 24.403 -4.943 -0.702 1.235  C32 YKV 25 
YKV C33 C25 C 0 1 N N N N N N 8.992  29.782 24.471 -6.110 -1.672 1.429  C33 YKV 26 
YKV C34 C26 C 0 1 N N N N N N 10.506 30.125 24.194 -6.527 -2.245 0.073  C34 YKV 27 
YKV C37 C27 C 0 1 N N N N N N 11.426 29.293 25.169 -6.959 -1.106 -0.852 C37 YKV 28 
YKV C38 C28 C 0 1 N N N N N N 11.090 27.808 25.203 -5.792 -0.136 -1.046 C38 YKV 29 
YKV F35 F1  F 0 1 N N N N N N 10.731 31.413 24.332 -7.595 -3.132 0.250  F35 YKV 30 
YKV F36 F2  F 0 1 N N N N N N 10.798 29.879 22.957 -5.446 -2.925 -0.498 F36 YKV 31 
YKV N03 N1  N 0 1 N N N N N N 11.485 23.571 27.360 -1.039 -0.280 -0.471 N03 YKV 32 
YKV N10 N2  N 0 1 N N N N N N 9.765  20.458 27.530 2.506  -0.933 0.317  N10 YKV 33 
YKV N15 N3  N 0 1 N N N N N N 5.112  21.822 25.192 5.766  1.993  3.211  N15 YKV 34 
YKV O01 O2  O 0 1 N N N N N N 10.019 23.318 25.643 -2.145 0.347  1.349  O01 YKV 35 
YKV O18 O3  O 0 1 N N N N N N 6.359  20.205 24.120 5.946  -0.241 3.560  O18 YKV 36 
YKV O20 O4  O 0 1 N N N N N N 7.664  17.857 29.084 3.213  -1.756 -2.273 O20 YKV 37 
YKV O21 O5  O 0 1 N N N N N N 9.861  21.973 29.209 1.419  0.202  -1.249 O21 YKV 38 
YKV H1  H1  H 0 1 N N N N N N 8.093  20.425 28.763 3.723  0.405  -0.746 H1  YKV 39 
YKV H2  H2  H 0 1 N N N N N N 6.619  19.243 27.167 4.904  -1.444 1.375  H2  YKV 40 
YKV H3  H3  H 0 1 N N N N N N 7.974  19.146 25.992 5.821  -0.246 0.431  H3  YKV 41 
YKV H4  H4  H 0 1 N N N N N N 8.037  21.707 25.984 3.456  0.405  2.262  H4  YKV 42 
YKV H5  H5  H 0 1 N N N N N N 5.555  23.620 26.188 5.656  3.671  1.936  H5  YKV 43 
YKV H6  H6  H 0 1 N N N N N N 4.247  22.635 26.927 4.170  3.332  2.871  H6  YKV 44 
YKV H7  H7  H 0 1 N N N N N N 5.774  21.144 27.957 5.179  2.001  0.340  H7  YKV 45 
YKV H8  H8  H 0 1 N N N N N N 6.861  22.572 27.863 3.490  2.305  0.867  H8  YKV 46 
YKV H9  H9  H 0 1 N N N N N N 9.306  25.566 24.543 -3.844 1.738  1.089  H9  YKV 47 
YKV H10 H10 H 0 1 N N N N N N 11.916 21.611 26.689 -0.031 -0.506 1.354  H10 YKV 48 
YKV H11 H11 H 0 1 N N N N N N 12.559 22.529 29.514 -0.142 -2.758 -0.702 H11 YKV 49 
YKV H12 H12 H 0 1 N N N N N N 12.832 20.871 28.877 0.738  -2.845 0.842  H12 YKV 50 
YKV H13 H13 H 0 1 N N N N N N 14.141 23.420 27.831 -2.246 -2.263 0.587  H13 YKV 51 
YKV H14 H14 H 0 1 N N N N N N 15.610 21.870 26.567 -0.783 -4.824 1.373  H14 YKV 52 
YKV H15 H15 H 0 1 N N N N N N 14.645 20.476 27.158 -2.545 -4.576 1.428  H15 YKV 53 
YKV H16 H16 H 0 1 N N N N N N 13.890 21.697 26.079 -1.693 -4.570 -0.135 H16 YKV 54 
YKV H17 H17 H 0 1 N N N N N N 14.897 22.792 30.117 -0.468 -2.933 2.975  H17 YKV 55 
YKV H18 H18 H 0 1 N N N N N N 15.292 21.143 29.526 -1.153 -1.332 2.609  H18 YKV 56 
YKV H19 H19 H 0 1 N N N N N N 16.194 22.563 28.896 -2.230 -2.685 3.030  H19 YKV 57 
YKV H20 H20 H 0 1 N N N N N N 9.535  18.569 29.405 4.373  -2.577 -0.773 H20 YKV 58 
YKV S1  S1  S 0 1 N Y N N N N 9.201  17.776 27.798 5.782  -1.111 -2.062 S1  YKV 59 
YKV H22 H22 H 0 1 N N N N N N 7.110  26.118 25.529 -4.959 2.300  -1.695 H22 YKV 60 
YKV H23 H23 H 0 1 N N N N N N 7.734  24.562 26.174 -5.541 3.069  -0.199 H23 YKV 61 
YKV H24 H24 H 0 1 N N N N N N 8.563  24.492 28.633 -4.145 4.647  1.011  H24 YKV 62 
YKV H25 H25 H 0 1 N N N N N N 8.116  25.328 30.923 -2.324 6.299  0.870  H25 YKV 63 
YKV H26 H26 H 0 1 N N N N N N 6.909  27.480 31.251 -0.722 6.209  -0.997 H26 YKV 64 
YKV H27 H27 H 0 1 N N N N N N 6.138  28.769 29.279 -0.940 4.467  -2.724 H27 YKV 65 
YKV H28 H28 H 0 1 N N N N N N 6.584  27.935 27.003 -2.755 2.809  -2.578 H28 YKV 66 
YKV H29 H29 H 0 1 N N N N N N 9.347  27.965 26.445 -6.217 0.967  0.755  H29 YKV 67 
YKV H30 H30 H 0 1 N N N N N N 7.678  28.080 24.589 -4.100 -1.232 0.789  H30 YKV 68 
YKV H31 H31 H 0 1 N N N N N N 9.015  27.913 23.402 -4.645 -0.294 2.201  H31 YKV 69 
YKV H32 H32 H 0 1 N N N N N N 8.720  30.145 25.473 -5.802 -2.484 2.087  H32 YKV 70 
YKV H33 H33 H 0 1 N N N N N N 8.367  30.283 23.717 -6.952 -1.142 1.874  H33 YKV 71 
YKV H34 H34 H 0 1 N N N N N N 12.471 29.406 24.843 -7.256 -1.514 -1.818 H34 YKV 72 
YKV H35 H35 H 0 1 N N N N N N 11.313 29.699 26.185 -7.801 -0.576 -0.407 H35 YKV 73 
YKV H36 H36 H 0 1 N N N N N N 11.364 27.365 24.234 -6.099 0.676  -1.705 H36 YKV 74 
YKV H37 H37 H 0 1 N N N N N N 11.679 27.334 26.002 -4.949 -0.666 -1.491 H37 YKV 75 
YKV H38 H38 H 0 1 N N N N N N 12.026 24.225 27.889 -0.980 -0.283 -1.440 H38 YKV 76 
YKV H39 H39 H 0 1 N N N N N N 10.208 20.124 26.698 2.466  -1.491 1.109  H39 YKV 77 
YKV H40 H40 H 0 1 N N N N N N 4.360  21.897 24.537 6.401  2.293  3.880  H40 YKV 78 
YKV H41 H41 H 0 1 N N N N N N 7.854  17.001 29.450 2.353  -2.027 -1.923 H41 YKV 79 
YKV O1  O6  O 0 1 N Y N N N N ?      ?      ?      6.209  -2.086 -3.003 O1  YKV 80 
YKV O2  O7  O 0 1 N Y N N N N ?      ?      ?      5.739  0.268  -2.405 O2  YKV 81 
YKV O3  O8  O 0 1 N Y N N N N ?      ?      ?      6.815  -1.188 -0.947 O3  YKV 82 
YKV H21 H21 H 0 1 N Y N N N N ?      ?      ?      7.709  -0.940 -1.221 H21 YKV 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 
YKV F36 C34 SING N N 1  
YKV O18 C14 DOUB N N 2  
YKV C34 F35 SING N N 3  
YKV C34 C33 SING N N 4  
YKV C34 C37 SING N N 5  
YKV C32 C33 SING N N 6  
YKV C32 C31 SING N N 7  
YKV C14 N15 SING N N 8  
YKV C14 C13 SING N N 9  
YKV C37 C38 SING N N 10 
YKV N15 C16 SING N N 11 
YKV C38 C31 SING N N 12 
YKV C31 C23 SING N N 13 
YKV C23 C24 SING N N 14 
YKV C23 O22 SING N N 15 
YKV O01 C02 DOUB N N 16 
YKV C24 C25 SING N N 17 
YKV C13 C12 SING N N 18 
YKV C13 C17 SING N N 19 
YKV O22 C02 SING N N 20 
YKV C16 C17 SING N N 21 
YKV C02 N03 SING N N 22 
YKV C12 C11 SING N N 23 
YKV C07 C06 SING N N 24 
YKV N03 C04 SING N N 25 
YKV N10 C11 SING N N 26 
YKV N10 C09 SING N N 27 
YKV C25 C30 DOUB Y N 28 
YKV C25 C26 SING Y N 29 
YKV C04 C09 SING N N 30 
YKV C04 C05 SING N N 31 
YKV C30 C29 SING Y N 32 
YKV C11 C19 SING N N 33 
YKV C06 C05 SING N N 34 
YKV C06 C08 SING N N 35 
YKV C09 O21 DOUB N N 36 
YKV C19 O20 SING N N 37 
YKV C26 C27 DOUB Y N 38 
YKV C29 C28 DOUB Y N 39 
YKV C27 C28 SING Y N 40 
YKV C11 H1  SING N N 41 
YKV C12 H2  SING N N 42 
YKV C12 H3  SING N N 43 
YKV C13 H4  SING N N 44 
YKV C16 H5  SING N N 45 
YKV C16 H6  SING N N 46 
YKV C17 H7  SING N N 47 
YKV C17 H8  SING N N 48 
YKV C23 H9  SING N N 49 
YKV C04 H10 SING N N 50 
YKV C05 H11 SING N N 51 
YKV C05 H12 SING N N 52 
YKV C06 H13 SING N N 53 
YKV C07 H14 SING N N 54 
YKV C07 H15 SING N N 55 
YKV C07 H16 SING N N 56 
YKV C08 H17 SING N N 57 
YKV C08 H18 SING N N 58 
YKV C08 H19 SING N N 59 
YKV C19 H20 SING N N 60 
YKV C19 S1  SING N N 61 
YKV C24 H22 SING N N 62 
YKV C24 H23 SING N N 63 
YKV C26 H24 SING N N 64 
YKV C27 H25 SING N N 65 
YKV C28 H26 SING N N 66 
YKV C29 H27 SING N N 67 
YKV C30 H28 SING N N 68 
YKV C31 H29 SING N N 69 
YKV C32 H30 SING N N 70 
YKV C32 H31 SING N N 71 
YKV C33 H32 SING N N 72 
YKV C33 H33 SING N N 73 
YKV C37 H34 SING N N 74 
YKV C37 H35 SING N N 75 
YKV C38 H36 SING N N 76 
YKV C38 H37 SING N N 77 
YKV N03 H38 SING N N 78 
YKV N10 H39 SING N N 79 
YKV N15 H40 SING N N 80 
YKV O20 H41 SING N N 81 
YKV S1  O1  DOUB N N 82 
YKV S1  O2  DOUB N N 83 
YKV S1  O3  SING N N 84 
YKV O3  H21 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 
YKV 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"                                                                                                                                                                                
YKV 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" 
YKV InChIKey         InChI                1.03  PDAAZWNVPCMYBL-KQWWLPFYSA-N                                                                                                                                                                                                                                  
YKV 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"                                                                                                                                                      
YKV 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"                                                                                                                                                               
YKV 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"                                                                                                                                                            
YKV 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 
YKV "SYSTEMATIC NAME" ACDLabs              12.01 "(1S,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"                                                
YKV "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 
YKV "Create component" 2021-03-11 RCSB 
YKV "Initial release"  2021-03-24 RCSB 
YKV "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            YKV 
_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      ? 
# 
