data_YMV
# 
_chem_comp.id                                    YMV 
_chem_comp.name                                  "(1S,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                     YMV 
_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 
YMV C02 C1  C 0 1 N N N N N N 10.405 7.576  22.255 1.872  -1.126 0.142  C02 YMV 1  
YMV C04 C2  C 0 1 N N S N N N 10.814 5.133  22.031 -0.482 -1.350 -0.444 C04 YMV 2  
YMV C05 C3  C 0 1 N N N N N N 11.461 4.009  22.829 -0.637 -2.743 -1.059 C05 YMV 3  
YMV C06 C4  C 0 1 N N N N N N 12.943 4.290  23.059 -1.679 -2.693 -2.179 C06 YMV 4  
YMV C07 C5  C 0 1 N N N N N N 13.498 3.421  24.183 -1.150 -1.835 -3.329 C07 YMV 5  
YMV C08 C6  C 0 1 N N N N N N 13.739 4.046  21.787 -1.952 -4.111 -2.684 C08 YMV 6  
YMV C09 C7  C 0 1 N N N N N N 9.393  4.762  21.656 -1.767 -0.956 0.238  C09 YMV 7  
YMV C11 C8  C 0 1 N N S N N N 7.851  3.618  20.049 -3.996 0.027  0.189  C11 YMV 8  
YMV C12 C9  C 0 1 N N N N N N 7.392  4.537  18.924 -4.615 1.162  -0.630 C12 YMV 9  
YMV C13 C10 C 0 1 N N S N N N 7.168  5.912  19.373 -3.633 2.333  -0.704 C13 YMV 10 
YMV C14 C11 C 0 1 N N N N N N 6.802  6.795  18.106 -4.219 3.465  -1.518 C14 YMV 11 
YMV C16 C12 C 0 1 N N N N N N 5.423  7.272  19.983 -3.288 4.450  0.368  C16 YMV 12 
YMV C17 C13 C 0 1 N N N N N N 5.936  6.023  20.248 -3.416 2.946  0.698  C17 YMV 13 
YMV C19 C14 C 0 1 N N S N N N 7.920  2.150  19.618 -5.003 -1.117 0.319  C19 YMV 14 
YMV C23 C15 C 0 1 N N N N N N 9.886  9.883  22.616 4.196  -0.780 0.560  C23 YMV 15 
YMV C24 C16 C 0 1 N N N N N N 11.129 10.766 22.738 5.222  -1.425 1.494  C24 YMV 16 
YMV C25 C17 C 0 1 N N N N N N 10.811 12.254 22.557 6.633  -1.148 0.971  C25 YMV 17 
YMV C26 C18 C 0 1 N N N N N N 9.692  12.689 23.504 6.871  0.362  0.918  C26 YMV 18 
YMV C27 C19 C 0 1 Y N N N N N 9.406  14.201 23.396 8.260  0.634  0.403  C27 YMV 19 
YMV C28 C20 C 0 1 Y N N N N N 8.424  14.688 22.541 8.628  0.199  -0.857 C28 YMV 20 
YMV C29 C21 C 0 1 Y N N N N N 8.174  16.050 22.466 9.903  0.448  -1.329 C29 YMV 21 
YMV C30 C22 C 0 1 Y N N N N N 8.909  16.929 23.244 10.810 1.133  -0.542 C30 YMV 22 
YMV C31 C23 C 0 1 Y N N N N N 9.887  16.448 24.102 10.442 1.570  0.716  C31 YMV 23 
YMV C32 C24 C 0 1 Y N N N N N 10.134 15.085 24.180 9.165  1.325  1.187  C32 YMV 24 
YMV C33 C25 C 0 1 N N N N N N 8.432  11.877 23.190 5.845  1.007  -0.017 C33 YMV 25 
YMV C34 C26 C 0 1 N N N N N N 8.685  10.392 23.413 4.434  0.731  0.506  C34 YMV 26 
YMV N03 N1  N 0 1 N N N N N N 10.770 6.314  22.844 0.606  -1.367 0.536  N03 YMV 27 
YMV N10 N2  N 0 1 N N N N N N 9.184  4.003  20.450 -2.789 -0.459 -0.486 N10 YMV 28 
YMV N15 N3  N 0 1 N N N N N N 5.764  7.578  18.473 -4.016 4.637  -0.892 N15 YMV 29 
YMV O01 O1  O 0 1 N N N N N N 10.313 7.702  21.076 2.124  -0.979 -1.038 O01 YMV 30 
YMV O18 O2  O 0 1 N N N N N N 7.343  6.742  17.059 -4.789 3.334  -2.580 O18 YMV 31 
YMV O20 O3  O 0 1 N N N N N N 6.654  1.680  19.237 -4.383 -2.225 0.975  O20 YMV 32 
YMV O21 O4  O 0 1 N N N N N N 8.484  5.105  22.329 -1.881 -1.087 1.438  O21 YMV 33 
YMV O22 O5  O 0 1 N N N N N N 10.178 8.619  23.147 2.857  -1.042 1.056  O22 YMV 34 
YMV H1  H1  H 0 1 N N N N N N 11.398 5.314  21.117 -0.252 -0.630 -1.230 H1  YMV 35 
YMV H2  H2  H 0 1 N N N N N N 10.956 3.921  23.802 0.320  -3.068 -1.467 H2  YMV 36 
YMV H3  H3  H 0 1 N N N N N N 11.355 3.065  22.274 -0.962 -3.444 -0.291 H3  YMV 37 
YMV H4  H4  H 0 1 N N N N N N 13.057 5.346  23.346 -2.602 -2.259 -1.796 H4  YMV 38 
YMV H5  H5  H 0 1 N N N N N N 12.922 3.598  25.103 -0.263 -2.304 -3.755 H5  YMV 39 
YMV H6  H6  H 0 1 N N N N N N 13.419 2.361  23.900 -1.917 -1.744 -4.098 H6  YMV 40 
YMV H7  H7  H 0 1 N N N N N N 14.554 3.677  24.357 -0.892 -0.844 -2.955 H7  YMV 41 
YMV H8  H8  H 0 1 N N N N N N 14.803 4.254  21.974 -2.329 -4.722 -1.864 H8  YMV 42 
YMV H9  H9  H 0 1 N N N N N N 13.620 2.998  21.475 -2.694 -4.075 -3.482 H9  YMV 43 
YMV H10 H10 H 0 1 N N N N N N 13.370 4.710  20.991 -1.029 -4.545 -3.066 H10 YMV 44 
YMV H11 H11 H 0 1 N N N N N N 7.157  3.711  20.897 -3.734 0.396  1.181  H11 YMV 45 
YMV H12 H12 H 0 1 N N N N N N 6.451  4.144  18.511 -4.833 0.806  -1.637 H12 YMV 46 
YMV H13 H13 H 0 1 N N N N N N 8.163  4.544  18.139 -5.538 1.492  -0.153 H13 YMV 47 
YMV H14 H14 H 0 1 N N N N N N 8.052  6.327  19.880 -2.683 2.007  -1.129 H14 YMV 48 
YMV H15 H15 H 0 1 N N N N N N 5.889  8.022  20.639 -3.740 5.050  1.158  H15 YMV 49 
YMV H16 H16 H 0 1 N N N N N N 4.334  7.277  20.136 -2.239 4.721  0.243  H16 YMV 50 
YMV H17 H17 H 0 1 N N N N N N 5.206  5.242  19.989 -4.275 2.760  1.343  H17 YMV 51 
YMV H18 H18 H 0 1 N N N N N N 6.207  5.934  21.310 -2.500 2.568  1.153  H18 YMV 52 
YMV S1  S1  S 0 1 N Y N N N N 8.611  2.038  18.809 -6.429 -0.558 1.292  S1  YMV 53 
YMV H20 H20 H 0 1 N N N N N N 8.219  1.589  20.516 -5.337 -1.421 -0.673 H20 YMV 54 
YMV H21 H21 H 0 1 N N N N N N 9.605  9.805  21.555 4.302  -1.200 -0.441 H21 YMV 55 
YMV H22 H22 H 0 1 N N N N N N 11.854 10.464 21.968 5.117  -1.005 2.494  H22 YMV 56 
YMV H23 H23 H 0 1 N N N N N N 11.570 10.618 23.735 5.053  -2.501 1.532  H23 YMV 57 
YMV H24 H24 H 0 1 N N N N N N 11.714 12.844 22.771 7.364  -1.608 1.637  H24 YMV 58 
YMV H25 H25 H 0 1 N N N N N N 10.494 12.431 21.519 6.739  -1.568 -0.029 H25 YMV 59 
YMV H26 H26 H 0 1 N N N N N N 10.002 12.468 24.536 6.765  0.782  1.918  H26 YMV 60 
YMV H27 H27 H 0 1 N N N N N N 7.853  14.002 21.932 7.920  -0.337 -1.471 H27 YMV 61 
YMV H28 H28 H 0 1 N N N N N N 7.408  16.424 21.803 10.191 0.107  -2.312 H28 YMV 62 
YMV H29 H29 H 0 1 N N N N N N 8.720  17.991 23.183 11.807 1.327  -0.911 H29 YMV 63 
YMV H30 H30 H 0 1 N N N N N N 10.457 17.135 24.710 11.150 2.105  1.331  H30 YMV 64 
YMV H31 H31 H 0 1 N N N N N N 10.893 14.712 24.851 8.876  1.669  2.169  H31 YMV 65 
YMV H32 H32 H 0 1 N N N N N N 8.147  12.042 22.140 6.014  2.083  -0.055 H32 YMV 66 
YMV H33 H33 H 0 1 N N N N N N 7.615  12.208 23.848 5.950  0.587  -1.017 H33 YMV 67 
YMV H34 H34 H 0 1 N N N N N N 7.791  9.830  23.104 3.703  1.190  -0.159 H34 YMV 68 
YMV H35 H35 H 0 1 N N N N N N 8.873  10.222 24.483 4.328  1.151  1.507  H35 YMV 69 
YMV H36 H36 H 0 1 N N N N N N 10.992 6.261  23.818 0.416  -1.553 1.469  H36 YMV 70 
YMV H37 H37 H 0 1 N N N N N N 9.967  3.741  19.886 -2.726 -0.423 -1.453 H37 YMV 71 
YMV H38 H38 H 0 1 N N N N N N 5.293  8.238  17.888 -4.314 5.497  -1.230 H38 YMV 72 
YMV H39 H39 H 0 1 N N N N N N 6.720  0.769  18.974 -3.612 -2.576 0.509  H39 YMV 73 
YMV O1  O6  O 0 1 N Y N N N N ?      ?      ?      -7.403 -1.589 1.385  O1  YMV 74 
YMV O2  O7  O 0 1 N Y N N N N ?      ?      ?      -5.998 0.149  2.447  O2  YMV 75 
YMV O3  O8  O 0 1 N Y N N N N ?      ?      ?      -7.088 0.504  0.425  O3  YMV 76 
YMV H19 H19 H 0 1 N Y N N N N ?      ?      ?      -7.877 0.901  0.820  H19 YMV 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 
YMV O18 C14 DOUB N N 1  
YMV C14 N15 SING N N 2  
YMV C14 C13 SING N N 3  
YMV N15 C16 SING N N 4  
YMV C12 C13 SING N N 5  
YMV C12 C11 SING N N 6  
YMV O20 C19 SING N N 7  
YMV C13 C17 SING N N 8  
YMV C19 C11 SING N N 9  
YMV C16 C17 SING N N 10 
YMV C11 N10 SING N N 11 
YMV N10 C09 SING N N 12 
YMV O01 C02 DOUB N N 13 
YMV C09 C04 SING N N 14 
YMV C09 O21 DOUB N N 15 
YMV C08 C06 SING N N 16 
YMV C04 C05 SING N N 17 
YMV C04 N03 SING N N 18 
YMV C02 N03 SING N N 19 
YMV C02 O22 SING N N 20 
YMV C29 C28 DOUB Y N 21 
YMV C29 C30 SING Y N 22 
YMV C28 C27 SING Y N 23 
YMV C25 C24 SING N N 24 
YMV C25 C26 SING N N 25 
YMV C23 C24 SING N N 26 
YMV C23 O22 SING N N 27 
YMV C23 C34 SING N N 28 
YMV C05 C06 SING N N 29 
YMV C06 C07 SING N N 30 
YMV C33 C34 SING N N 31 
YMV C33 C26 SING N N 32 
YMV C30 C31 DOUB Y N 33 
YMV C27 C26 SING N N 34 
YMV C27 C32 DOUB Y N 35 
YMV C31 C32 SING Y N 36 
YMV C04 H1  SING N N 37 
YMV C05 H2  SING N N 38 
YMV C05 H3  SING N N 39 
YMV C06 H4  SING N N 40 
YMV C07 H5  SING N N 41 
YMV C07 H6  SING N N 42 
YMV C07 H7  SING N N 43 
YMV C08 H8  SING N N 44 
YMV C08 H9  SING N N 45 
YMV C08 H10 SING N N 46 
YMV C11 H11 SING N N 47 
YMV C12 H12 SING N N 48 
YMV C12 H13 SING N N 49 
YMV C13 H14 SING N N 50 
YMV C16 H15 SING N N 51 
YMV C16 H16 SING N N 52 
YMV C17 H17 SING N N 53 
YMV C17 H18 SING N N 54 
YMV C19 S1  SING N N 55 
YMV C19 H20 SING N N 56 
YMV C23 H21 SING N N 57 
YMV C24 H22 SING N N 58 
YMV C24 H23 SING N N 59 
YMV C25 H24 SING N N 60 
YMV C25 H25 SING N N 61 
YMV C26 H26 SING N N 62 
YMV C28 H27 SING N N 63 
YMV C29 H28 SING N N 64 
YMV C30 H29 SING N N 65 
YMV C31 H30 SING N N 66 
YMV C32 H31 SING N N 67 
YMV C33 H32 SING N N 68 
YMV C33 H33 SING N N 69 
YMV C34 H34 SING N N 70 
YMV C34 H35 SING N N 71 
YMV N03 H36 SING N N 72 
YMV N10 H37 SING N N 73 
YMV N15 H38 SING N N 74 
YMV O20 H39 SING N N 75 
YMV S1  O1  DOUB N N 76 
YMV S1  O2  DOUB N N 77 
YMV S1  O3  SING N N 78 
YMV 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 
YMV SMILES           ACDLabs              12.01 "CC(C)CC(NC(=O)OC1CCC(CC1)c1ccccc1)C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O"                                                                                                                                                                              
YMV 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" 
YMV InChIKey         InChI                1.03  GQBZOCZYIKJBAR-GAJBLSCZSA-N                                                                                                                                                                                                                        
YMV 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"                                                                                                                                                
YMV 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"                                                                                                                                                          
YMV 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"                                                                                                                                                               
YMV 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 
YMV "SYSTEMATIC NAME" ACDLabs              12.01 "(1S,2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]-2-{[N-({[(1r,4S)-4-phenylcyclohexyl]oxy}carbonyl)-L-leucyl]amino}propane-1-sulfonic acid"                           
YMV "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 
YMV "Create component" 2021-03-12 RCSB 
YMV "Initial release"  2021-03-24 RCSB 
YMV "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            YMV 
_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      ? 
# 
