data_YKP
# 
_chem_comp.id                                    YKP 
_chem_comp.name                                  "(1S,2S)-2-((S)-2-((((S)-1-(4,4-difluorocyclohexyl)ethoxy)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                               "C22 H37 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                        541.606 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YKP 
_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        7LZU 
_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 
YKP C10 C1  C 0 1 N N N N N N -24.123 -6.117 4.892  -0.361 -0.734 -2.867 C10 YKP 1  
YKP C13 C2  C 0 1 N N S N N N -17.565 -5.712 4.941  3.996  0.129  1.324  C13 YKP 2  
YKP C01 C3  C 0 1 N N N N N N -19.077 -3.010 -0.272 -4.265 -2.816 0.952  C01 YKP 3  
YKP C02 C4  C 0 1 N N S N N N -20.598 -2.906 -0.079 -4.224 -1.384 0.414  C02 YKP 4  
YKP C04 C5  C 0 1 N N N N N N -21.117 -4.293 1.855  -1.923 -0.770 0.268  C04 YKP 5  
YKP C06 C6  C 0 1 N N S N N N -21.307 -5.901 3.719  0.435  -0.234 -0.035 C06 YKP 6  
YKP C07 C7  C 0 1 N N N N N N -21.982 -7.260 4.038  0.451  0.851  -1.114 C07 YKP 7  
YKP C08 C8  C 0 1 N N N N N N -23.526 -7.228 3.995  -0.659 0.574  -2.131 C08 YKP 8  
YKP C09 C9  C 0 1 N N N N N N -24.146 -8.599 4.365  -0.724 1.723  -3.139 C09 YKP 9  
YKP C11 C10 C 0 1 N N N N N N -19.775 -6.104 3.776  1.602  -0.032 0.897  C11 YKP 10 
YKP C14 C11 C 0 1 N N N N N N -16.897 -4.300 5.007  5.238  -0.544 0.738  C14 YKP 11 
YKP C15 C12 C 0 1 N N S N N N -17.049 -3.536 3.682  5.049  -2.062 0.748  C15 YKP 12 
YKP C16 C13 C 0 1 N N N N N N -16.512 -2.122 3.777  3.943  -2.464 -0.203 C16 YKP 13 
YKP C18 C14 C 0 1 N N N N N N -15.415 -3.060 1.863  5.934  -2.940 -1.301 C18 YKP 14 
YKP C19 C15 C 0 1 N N N N N N -16.174 -4.189 2.590  6.306  -2.768 0.189  C19 YKP 15 
YKP C21 C16 C 0 1 N N S N N N -17.269 -6.561 6.227  4.259  1.627  1.494  C21 YKP 16 
YKP C25 C17 C 0 1 N N N N N N -21.359 -2.650 -1.436 -5.503 -0.650 0.822  C25 YKP 17 
YKP C26 C18 C 0 1 N N N N N N -20.957 -1.283 -2.064 -6.717 -1.378 0.242  C26 YKP 18 
YKP C27 C19 C 0 1 N N N N N N -21.778 -0.939 -3.319 -7.995 -0.644 0.650  C27 YKP 19 
YKP C28 C20 C 0 1 N N N N N N -23.302 -0.982 -3.034 -7.955 0.788  0.112  C28 YKP 20 
YKP C31 C21 C 0 1 N N N N N N -23.733 -2.348 -2.418 -6.741 1.516  0.692  C31 YKP 21 
YKP C32 C22 C 0 1 N N N N N N -22.898 -2.698 -1.173 -5.462 0.782  0.284  C32 YKP 22 
YKP F29 F1  F 0 1 N N N N N N -23.673 0.047  -2.203 -7.858 0.759  -1.284 F29 YKP 23 
YKP F30 F2  F 0 1 N N N N N N -24.061 -0.658 -4.136 -9.124 1.460  0.484  F30 YKP 24 
YKP N05 N1  N 0 1 N N N N N N -21.750 -5.423 2.408  -0.816 -0.150 0.723  N05 YKP 25 
YKP N12 N2  N 0 1 N N N N N N -19.011 -5.551 4.822  2.861  -0.067 0.418  N12 YKP 26 
YKP N17 N3  N 0 1 N N N N N N -15.581 -1.868 2.736  4.467  -2.957 -1.339 N17 YKP 27 
YKP O03 O1  O 0 1 N N N N N N -21.007 -4.169 0.460  -3.072 -0.693 0.964  O03 YKP 28 
YKP O20 O2  O 0 1 N N N N N N -16.831 -1.297 4.623  2.757  -2.358 0.026  O20 YKP 29 
YKP O22 O3  O 0 1 N N N N N N -15.849 -6.748 6.333  5.436  1.817  2.282  O22 YKP 30 
YKP O23 O4  O 0 1 N N N N N N -19.204 -6.765 2.914  1.408  0.163  2.078  O23 YKP 31 
YKP O24 O5  O 0 1 N N N N N N -20.648 -3.419 2.582  -1.883 -1.397 -0.772 O24 YKP 32 
YKP H1  H1  H 0 1 N N N N N N -25.221 -6.140 4.823  -0.314 -1.553 -2.149 H1  YKP 33 
YKP H2  H2  H 0 1 N N N N N N -23.817 -6.285 5.935  -1.151 -0.931 -3.592 H2  YKP 34 
YKP H3  H3  H 0 1 N N N N N N -23.755 -5.137 4.555  0.595  -0.650 -3.385 H3  YKP 35 
YKP H4  H4  H 0 1 N N N N N N -17.171 -6.249 4.066  3.766  -0.312 2.294  H4  YKP 36 
YKP H5  H5  H 0 1 N N N N N N -18.595 -3.188 0.701  -5.129 -3.335 0.539  H5  YKP 37 
YKP H6  H6  H 0 1 N N N N N N -18.850 -3.844 -0.952 -3.354 -3.339 0.661  H6  YKP 38 
YKP H7  H7  H 0 1 N N N N N N -18.697 -2.072 -0.703 -4.340 -2.794 2.039  H7  YKP 39 
YKP H8  H8  H 0 1 N N N N N N -20.825 -2.087 0.619  -4.149 -1.407 -0.673 H8  YKP 40 
YKP H9  H9  H 0 1 N N N N N N -21.595 -5.176 4.495  0.511  -1.215 -0.504 H9  YKP 41 
YKP H10 H10 H 0 1 N N N N N N -21.632 -8.000 3.303  0.286  1.824  -0.653 H10 YKP 42 
YKP H11 H11 H 0 1 N N N N N N -21.672 -7.571 5.047  1.416  0.846  -1.620 H11 YKP 43 
YKP H12 H12 H 0 1 N N N N N N -23.820 -7.005 2.959  -1.614 0.490  -1.613 H12 YKP 44 
YKP H13 H13 H 0 1 N N N N N N -25.243 -8.530 4.321  0.231  1.807  -3.657 H13 YKP 45 
YKP H14 H14 H 0 1 N N N N N N -23.798 -9.362 3.653  -1.514 1.526  -3.864 H14 YKP 46 
YKP H15 H15 H 0 1 N N N N N N -23.837 -8.878 5.383  -0.936 2.655  -2.615 H15 YKP 47 
YKP H16 H16 H 0 1 N N N N N N -15.826 -4.422 5.227  5.387  -0.203 -0.286 H16 YKP 48 
YKP H17 H17 H 0 1 N N N N N N -17.372 -3.718 5.810  6.110  -0.283 1.338  H17 YKP 49 
YKP H18 H18 H 0 1 N N N N N N -18.103 -3.528 3.367  4.830  -2.411 1.757  H18 YKP 50 
YKP H19 H19 H 0 1 N N N N N N -14.351 -3.316 1.755  6.317  -2.102 -1.883 H19 YKP 51 
YKP H20 H20 H 0 1 N N N N N N -15.851 -2.877 0.870  6.332  -3.879 -1.683 H20 YKP 52 
YKP H21 H21 H 0 1 N N N N N N -16.809 -4.734 1.876  7.189  -2.139 0.301  H21 YKP 53 
YKP H22 H22 H 0 1 N N N N N N -15.458 -4.886 3.050  6.455  -3.736 0.668  H22 YKP 54 
YKP H23 H23 H 0 1 N N N N N N -17.728 -7.547 6.059  3.408  2.091  1.993  H23 YKP 55 
YKP S1  S1  S 0 1 N Y N N N N -17.633 -6.047 7.092  4.493  2.388  -0.136 S1  YKP 56 
YKP H25 H25 H 0 1 N N N N N N -21.097 -3.453 -2.140 -5.578 -0.627 1.909  H25 YKP 57 
YKP H26 H26 H 0 1 N N N N N N -19.893 -1.322 -2.340 -6.642 -1.401 -0.846 H26 YKP 58 
YKP H27 H27 H 0 1 N N N N N N -21.112 -0.493 -1.315 -6.746 -2.398 0.625  H27 YKP 59 
YKP H28 H28 H 0 1 N N N N N N -21.542 -1.666 -4.110 -8.860 -1.163 0.236  H28 YKP 60 
YKP H29 H29 H 0 1 N N N N N N -21.506 0.072  -3.657 -8.070 -0.621 1.737  H29 YKP 61 
YKP H30 H30 H 0 1 N N N N N N -24.794 -2.292 -2.132 -6.712 2.536  0.308  H30 YKP 62 
YKP H31 H31 H 0 1 N N N N N N -23.598 -3.138 -3.172 -6.816 1.539  1.779  H31 YKP 63 
YKP H32 H32 H 0 1 N N N N N N -23.140 -1.980 -0.376 -4.597 1.301  0.697  H32 YKP 64 
YKP H33 H33 H 0 1 N N N N N N -23.166 -3.713 -0.845 -5.387 0.760  -0.803 H33 YKP 65 
YKP H34 H34 H 0 1 N N N N N N -22.486 -5.889 1.916  -0.847 0.351  1.553  H34 YKP 66 
YKP H35 H35 H 0 1 N N N N N N -19.486 -5.018 5.522  3.016  -0.223 -0.527 H35 YKP 67 
YKP H36 H36 H 0 1 N N N N N N -15.100 -1.001 2.607  3.943  -3.281 -2.087 H36 YKP 68 
YKP H37 H37 H 0 1 N N N N N N -15.654 -7.261 7.108  5.381  1.434  3.168  H37 YKP 69 
YKP O1  O6  O 0 1 N Y N N N N ?       ?      ?      4.449  3.805  -0.035 O1  YKP 70 
YKP O2  O7  O 0 1 N Y N N N N ?       ?      ?      5.537  1.736  -0.846 O2  YKP 71 
YKP O3  O8  O 0 1 N Y N N N N ?       ?      ?      3.232  2.028  -0.908 O3  YKP 72 
YKP H24 H24 H 0 1 N Y N N N N ?       ?      ?      3.212  2.372  -1.811 H24 YKP 73 
# 
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 
YKP F30 C28 SING N N 1  
YKP C27 C28 SING N N 2  
YKP C27 C26 SING N N 3  
YKP C28 C31 SING N N 4  
YKP C28 F29 SING N N 5  
YKP C31 C32 SING N N 6  
YKP C26 C25 SING N N 7  
YKP C25 C32 SING N N 8  
YKP C25 C02 SING N N 9  
YKP C01 C02 SING N N 10 
YKP C02 O03 SING N N 11 
YKP O03 C04 SING N N 12 
YKP C04 N05 SING N N 13 
YKP C04 O24 DOUB N N 14 
YKP C18 C19 SING N N 15 
YKP C18 N17 SING N N 16 
YKP N05 C06 SING N N 17 
YKP C19 C15 SING N N 18 
YKP N17 C16 SING N N 19 
YKP O23 C11 DOUB N N 20 
YKP C15 C16 SING N N 21 
YKP C15 C14 SING N N 22 
YKP C06 C11 SING N N 23 
YKP C06 C07 SING N N 24 
YKP C11 N12 SING N N 25 
YKP C16 O20 DOUB N N 26 
YKP C08 C07 SING N N 27 
YKP C08 C09 SING N N 28 
YKP C08 C10 SING N N 29 
YKP N12 C13 SING N N 30 
YKP C13 C14 SING N N 31 
YKP C13 C21 SING N N 32 
YKP C21 O22 SING N N 33 
YKP C10 H1  SING N N 34 
YKP C10 H2  SING N N 35 
YKP C10 H3  SING N N 36 
YKP C13 H4  SING N N 37 
YKP C01 H5  SING N N 38 
YKP C01 H6  SING N N 39 
YKP C01 H7  SING N N 40 
YKP C02 H8  SING N N 41 
YKP C06 H9  SING N N 42 
YKP C07 H10 SING N N 43 
YKP C07 H11 SING N N 44 
YKP C08 H12 SING N N 45 
YKP C09 H13 SING N N 46 
YKP C09 H14 SING N N 47 
YKP C09 H15 SING N N 48 
YKP C14 H16 SING N N 49 
YKP C14 H17 SING N N 50 
YKP C15 H18 SING N N 51 
YKP C18 H19 SING N N 52 
YKP C18 H20 SING N N 53 
YKP C19 H21 SING N N 54 
YKP C19 H22 SING N N 55 
YKP C21 H23 SING N N 56 
YKP C21 S1  SING N N 57 
YKP C25 H25 SING N N 58 
YKP C26 H26 SING N N 59 
YKP C26 H27 SING N N 60 
YKP C27 H28 SING N N 61 
YKP C27 H29 SING N N 62 
YKP C31 H30 SING N N 63 
YKP C31 H31 SING N N 64 
YKP C32 H32 SING N N 65 
YKP C32 H33 SING N N 66 
YKP N05 H34 SING N N 67 
YKP N12 H35 SING N N 68 
YKP N17 H36 SING N N 69 
YKP O22 H37 SING N N 70 
YKP S1  O1  DOUB N N 71 
YKP S1  O2  DOUB N N 72 
YKP S1  O3  SING N N 73 
YKP O3  H24 SING N N 74 
# 
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 
YKP SMILES           ACDLabs              12.01 "CC(C)CC(NC(=O)OC(C)C1CCC(F)(F)CC1)C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O"                                                                                                                                                            
YKP InChI            InChI                1.03  "InChI=1S/C22H37F2N3O8S/c1-12(2)10-16(27-21(31)35-13(3)14-4-7-22(23,24)8-5-14)19(29)26-17(20(30)36(32,33)34)11-15-6-9-25-18(15)28/h12-17,20,30H,4-11H2,1-3H3,(H,25,28)(H,26,29)(H,27,31)(H,32,33,34)/t13-,15-,16-,17-,20-/m0/s1" 
YKP InChIKey         InChI                1.03  YRNJEPAFOLVHMN-ZZKADIETSA-N                                                                                                                                                                                                      
YKP SMILES_CANONICAL CACTVS               3.385 "CC(C)C[C@H](NC(=O)O[C@@H](C)C1CCC(F)(F)CC1)C(=O)N[C@@H](C[C@@H]2CCNC2=O)[C@@H](O)[S](O)(=O)=O"                                                                                                                                  
YKP SMILES           CACTVS               3.385 "CC(C)C[CH](NC(=O)O[CH](C)C1CCC(F)(F)CC1)C(=O)N[CH](C[CH]2CCNC2=O)[CH](O)[S](O)(=O)=O"                                                                                                                                           
YKP SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H](C1CCC(CC1)(F)F)OC(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](C[C@@H]2CCNC2=O)C(O)S(=O)(=O)O"                                                                                                                                        
YKP SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O)NC(=O)OC(C)C2CCC(CC2)(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 
YKP "SYSTEMATIC NAME" ACDLabs              12.01 "(1S,2S)-2-[(N-{[(1S)-1-(4,4-difluorocyclohexyl)ethoxy]carbonyl}-L-leucyl)amino]-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid"                                               
YKP "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-[[(2~{S})-2-[[(1~{S})-1-[4,4-bis(fluoranyl)cyclohexyl]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 
YKP "Create component" 2021-03-11 RCSB 
YKP "Initial release"  2021-03-24 RCSB 
YKP "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            YKP 
_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               C21 
_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      ? 
# 
