data_Y8V
# 
_chem_comp.id                                    Y8V 
_chem_comp.name                                  "(1S,2S)-2-((S)-2-(((((1R,3S,5S)-bicyclo[3.3.1]non-6-en-3-yl)methoxy)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                               "C24 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                     2021-02-10 
_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                        529.647 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y8V 
_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        7LKW 
_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 
Y8V C12 C1  C 0 1 N N N N N N 10.915 21.518 27.768 -1.322 -0.105 0.661  C12 Y8V 1  
Y8V C14 C2  C 0 1 N N N N N N 13.330 21.857 28.159 -0.638 -0.887 -1.591 C14 Y8V 2  
Y8V C15 C3  C 0 1 N N N N N N 14.663 22.341 27.690 0.314  -0.626 -2.759 C15 Y8V 3  
Y8V C16 C4  C 0 1 N N N N N N 15.728 22.145 28.786 0.068  -1.660 -3.859 C16 Y8V 4  
Y8V C17 C5  C 0 1 N N N N N N 15.099 21.629 26.418 0.066  0.778  -3.315 C17 Y8V 5  
Y8V C19 C6  C 0 1 N N N N N N 11.159 23.946 25.988 2.115  0.308  -0.513 C19 Y8V 6  
Y8V C21 C7  C 0 1 N N N N N N 9.988  25.789 24.966 4.468  0.650  -0.722 C21 Y8V 7  
Y8V C24 C8  C 0 1 N N R N N N 8.264  28.576 24.091 8.270  0.470  -0.168 C24 Y8V 8  
Y8V C25 C9  C 0 1 N N N N N N 8.431  28.472 25.608 8.289  0.949  1.284  C25 Y8V 9  
Y8V C26 C10 C 0 1 N N S N N N 9.859  28.855 25.922 7.121  0.289  2.027  C26 Y8V 10 
Y8V C02 C11 C 0 1 N N N N N N 6.678  20.890 24.736 -3.511 2.609  0.098  C02 Y8V 11 
Y8V C04 C12 C 0 1 N N N N N N 5.675  22.564 26.148 -5.594 3.398  -0.562 C04 Y8V 12 
Y8V C05 C13 C 0 1 N N N N N N 6.848  21.931 26.924 -5.695 3.168  0.962  C05 Y8V 13 
Y8V C06 C14 C 0 1 N N S N N N 7.622  21.025 25.934 -4.460 2.277  1.229  C06 Y8V 14 
Y8V C07 C15 C 0 1 N N N N N N 8.031  19.668 26.552 -4.847 0.797  1.187  C07 Y8V 15 
Y8V C08 C16 C 0 1 N N S N N N 9.118  19.811 27.697 -3.615 -0.061 1.484  C08 Y8V 16 
Y8V C09 C17 C 0 1 N N S N N N 9.411  18.429 28.293 -4.027 -1.532 1.565  C09 Y8V 17 
Y8V C13 C18 C 0 1 N N S N N N 12.222 22.084 27.174 -0.309 0.068  -0.441 C13 Y8V 18 
Y8V C22 C19 C 0 1 N N S N N N 10.373 27.044 24.154 5.772  0.223  -0.046 C22 Y8V 19 
Y8V C23 C20 C 0 1 N N N N N N 9.211  27.637 23.329 6.945  0.802  -0.836 C23 Y8V 20 
Y8V C27 C21 C 0 1 N N N N N N 10.888 28.168 25.031 5.812  0.777  1.383  C27 Y8V 21 
Y8V C28 C22 C 0 1 N N N N N N 9.902  30.309 25.670 7.203  -1.204 1.849  C28 Y8V 22 
Y8V C29 C23 C 0 1 N N N N N N 9.386  30.804 24.552 7.828  -1.769 0.867  C29 Y8V 23 
Y8V C30 C24 C 0 1 N N N N N N 8.477  30.037 23.634 8.558  -1.025 -0.221 C30 Y8V 24 
Y8V N03 N1  N 0 1 N N N N N N 5.610  21.779 24.924 -4.171 3.240  -0.888 N03 Y8V 25 
Y8V N11 N2  N 0 1 N N N N N N 10.356 20.376 27.180 -2.629 0.113  0.414  N11 Y8V 26 
Y8V N18 N3  N 0 1 N N N N N N 12.091 23.517 26.851 1.029  -0.232 0.075  N18 Y8V 27 
Y8V O01 O1  O 0 1 N N N N N N 6.795  20.169 23.789 -2.327 2.348  0.086  O01 Y8V 28 
Y8V O10 O2  O 0 1 N N N N N N 8.182  17.959 28.757 -5.072 -1.683 2.527  O10 Y8V 29 
Y8V O20 O3  O 0 1 N N N N N N 10.965 25.300 25.886 3.344  0.033  -0.039 O20 Y8V 30 
Y8V O31 O4  O 0 1 N N N N N N 10.505 23.184 25.318 1.984  1.044  -1.472 O31 Y8V 31 
Y8V O32 O5  O 0 1 N N N N N N 10.393 22.064 28.707 -0.962 -0.445 1.768  O32 Y8V 32 
Y8V H1  H1  H 0 1 N N N N N N 13.078 22.384 29.091 -1.666 -0.724 -1.916 H1  Y8V 33 
Y8V H2  H2  H 0 1 N N N N N N 13.403 20.777 28.356 -0.523 -1.917 -1.252 H2  Y8V 34 
Y8V H3  H3  H 0 1 N N N N N N 14.590 23.417 27.475 1.345  -0.702 -2.412 H3  Y8V 35 
Y8V H4  H4  H 0 1 N N N N N N 15.410 22.661 29.704 -0.962 -1.584 -4.206 H4  Y8V 36 
Y8V H5  H5  H 0 1 N N N N N N 15.849 21.071 28.992 0.747  -1.474 -4.692 H5  Y8V 37 
Y8V H6  H6  H 0 1 N N N N N N 16.687 22.563 28.444 0.245  -2.660 -3.463 H6  Y8V 38 
Y8V H7  H7  H 0 1 N N N N N N 16.082 22.009 26.103 -0.965 0.854  -3.662 H7  Y8V 39 
Y8V H8  H8  H 0 1 N N N N N N 15.168 20.548 26.609 0.241  1.515  -2.532 H8  Y8V 40 
Y8V H9  H9  H 0 1 N N N N N N 14.362 21.815 25.623 0.744  0.965  -4.148 H9  Y8V 41 
Y8V H10 H10 H 0 1 N N N N N N 9.080  26.027 25.539 4.371  1.735  -0.673 H10 Y8V 42 
Y8V H11 H11 H 0 1 N N N N N N 9.769  24.982 24.251 4.478  0.332  -1.765 H11 Y8V 43 
Y8V H12 H12 H 0 1 N N N N N N 7.231  28.292 23.842 9.063  0.988  -0.707 H12 Y8V 44 
Y8V H13 H13 H 0 1 N N N N N N 7.736  29.159 26.113 9.230  0.664  1.753  H13 Y8V 45 
Y8V H14 H14 H 0 1 N N N N N N 8.234  27.442 25.940 8.177  2.033  1.314  H14 Y8V 46 
Y8V H15 H15 H 0 1 N N N N N N 10.081 28.642 26.978 7.146  0.549  3.086  H15 Y8V 47 
Y8V H16 H16 H 0 1 N N N N N N 5.877  23.622 25.926 -6.187 2.656  -1.096 H16 Y8V 48 
Y8V H17 H17 H 0 1 N N N N N N 4.738  22.482 26.718 -5.931 4.403  -0.815 H17 Y8V 49 
Y8V H18 H18 H 0 1 N N N N N N 6.464  21.331 27.762 -5.622 4.110  1.505  H18 Y8V 50 
Y8V H19 H19 H 0 1 N N N N N N 7.512  22.718 27.311 -6.617 2.644  1.217  H19 Y8V 51 
Y8V H20 H20 H 0 1 N N N N N N 8.531  21.553 25.612 -4.009 2.525  2.190  H20 Y8V 52 
Y8V H21 H21 H 0 1 N N N N N N 7.135  19.192 26.977 -5.615 0.601  1.934  H21 Y8V 53 
Y8V H22 H22 H 0 1 N N N N N N 8.442  19.030 25.756 -5.231 0.551  0.197  H22 Y8V 54 
Y8V H23 H23 H 0 1 N N N N N N 8.708  20.460 28.484 -3.179 0.247  2.434  H23 Y8V 55 
Y8V H24 H24 H 0 1 N N N N N N 10.057 18.603 29.166 -3.168 -2.134 1.863  H24 Y8V 56 
Y8V S1  S1  S 0 1 N Y N N N N 9.840  17.768 27.569 -4.616 -2.085 -0.059 S1  Y8V 57 
Y8V H26 H26 H 0 1 N N N N N N 12.449 21.528 26.253 -0.337 1.095  -0.803 H26 Y8V 58 
Y8V H27 H27 H 0 1 N N N N N N 11.173 26.760 23.454 5.826  -0.865 -0.016 H27 Y8V 59 
Y8V H28 H28 H 0 1 N N N N N N 8.614  26.801 22.937 6.836  1.885  -0.896 H28 Y8V 60 
Y8V H29 H29 H 0 1 N N N N N N 9.645  28.202 22.491 6.938  0.386  -1.844 H29 Y8V 61 
Y8V H30 H30 H 0 1 N N N N N N 11.671 27.753 25.682 4.969  0.388  1.953  H30 Y8V 62 
Y8V H31 H31 H 0 1 N N N N N N 11.326 28.933 24.373 5.770  1.866  1.358  H31 Y8V 63 
Y8V H32 H32 H 0 1 N N N N N N 10.353 30.970 26.395 6.716  -1.836 2.577  H32 Y8V 64 
Y8V H33 H33 H 0 1 N N N N N N 9.635  31.821 24.286 7.812  -2.848 0.817  H33 Y8V 65 
Y8V H34 H34 H 0 1 N N N N N N 8.918  30.030 22.627 8.258  -1.411 -1.195 H34 Y8V 66 
Y8V H35 H35 H 0 1 N N N N N N 7.500  30.542 23.603 9.627  -1.187 -0.088 H35 Y8V 67 
Y8V H36 H36 H 0 1 N N N N N N 4.861  21.867 24.267 -3.760 3.552  -1.709 H36 Y8V 68 
Y8V H37 H37 H 0 1 N N N N N N 10.810 19.946 26.400 -2.917 0.385  -0.471 H37 Y8V 69 
Y8V H38 H38 H 0 1 N N N N N N 12.706 24.178 27.282 1.134  -0.820 0.840  H38 Y8V 70 
Y8V H39 H39 H 0 1 N N N N N N 8.297  17.098 29.142 -5.869 -1.174 2.325  H39 Y8V 71 
Y8V O1  O6  O 0 1 N Y N N N N ?      ?      ?      -5.784 -1.368 -0.437 O1  Y8V 72 
Y8V O2  O7  O 0 1 N Y N N N N ?      ?      ?      -3.527 -2.238 -0.959 O2  Y8V 73 
Y8V O3  O8  O 0 1 N Y N N N N ?      ?      ?      -5.109 -3.505 0.179  O3  Y8V 74 
Y8V H25 H25 H 0 1 N Y N N N N ?      ?      ?      -5.459 -3.938 -0.612 H25 Y8V 75 
# 
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 
Y8V C23 C24 SING N N 1  
Y8V C23 C22 SING N N 2  
Y8V C30 C24 SING N N 3  
Y8V C30 C29 SING N N 4  
Y8V O01 C02 DOUB N N 5  
Y8V C24 C25 SING N N 6  
Y8V C22 C21 SING N N 7  
Y8V C22 C27 SING N N 8  
Y8V C29 C28 DOUB N N 9  
Y8V C02 N03 SING N N 10 
Y8V C02 C06 SING N N 11 
Y8V N03 C04 SING N N 12 
Y8V C21 O20 SING N N 13 
Y8V C27 C26 SING N N 14 
Y8V O31 C19 DOUB N N 15 
Y8V C25 C26 SING N N 16 
Y8V C28 C26 SING N N 17 
Y8V O20 C19 SING N N 18 
Y8V C06 C07 SING N N 19 
Y8V C06 C05 SING N N 20 
Y8V C19 N18 SING N N 21 
Y8V C04 C05 SING N N 22 
Y8V C17 C15 SING N N 23 
Y8V C07 C08 SING N N 24 
Y8V N18 C13 SING N N 25 
Y8V C13 C12 SING N N 26 
Y8V C13 C14 SING N N 27 
Y8V N11 C08 SING N N 28 
Y8V N11 C12 SING N N 29 
Y8V C15 C14 SING N N 30 
Y8V C15 C16 SING N N 31 
Y8V C08 C09 SING N N 32 
Y8V C12 O32 DOUB N N 33 
Y8V C09 O10 SING N N 34 
Y8V C14 H1  SING N N 35 
Y8V C14 H2  SING N N 36 
Y8V C15 H3  SING N N 37 
Y8V C16 H4  SING N N 38 
Y8V C16 H5  SING N N 39 
Y8V C16 H6  SING N N 40 
Y8V C17 H7  SING N N 41 
Y8V C17 H8  SING N N 42 
Y8V C17 H9  SING N N 43 
Y8V C21 H10 SING N N 44 
Y8V C21 H11 SING N N 45 
Y8V C24 H12 SING N N 46 
Y8V C25 H13 SING N N 47 
Y8V C25 H14 SING N N 48 
Y8V C26 H15 SING N N 49 
Y8V C04 H16 SING N N 50 
Y8V C04 H17 SING N N 51 
Y8V C05 H18 SING N N 52 
Y8V C05 H19 SING N N 53 
Y8V C06 H20 SING N N 54 
Y8V C07 H21 SING N N 55 
Y8V C07 H22 SING N N 56 
Y8V C08 H23 SING N N 57 
Y8V C09 H24 SING N N 58 
Y8V C09 S1  SING N N 59 
Y8V C13 H26 SING N N 60 
Y8V C22 H27 SING N N 61 
Y8V C23 H28 SING N N 62 
Y8V C23 H29 SING N N 63 
Y8V C27 H30 SING N N 64 
Y8V C27 H31 SING N N 65 
Y8V C28 H32 SING N N 66 
Y8V C29 H33 SING N N 67 
Y8V C30 H34 SING N N 68 
Y8V C30 H35 SING N N 69 
Y8V N03 H36 SING N N 70 
Y8V N11 H37 SING N N 71 
Y8V N18 H38 SING N N 72 
Y8V O10 H39 SING N N 73 
Y8V S1  O1  DOUB N N 74 
Y8V S1  O2  DOUB N N 75 
Y8V S1  O3  SING N N 76 
Y8V O3  H25 SING N N 77 
# 
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 
Y8V InChI            InChI                1.03  "InChI=1S/C24H39N3O8S/c1-14(2)8-19(27-24(31)35-13-17-10-15-4-3-5-16(9-15)11-17)22(29)26-20(23(30)36(32,33)34)12-18-6-7-25-21(18)28/h3-4,14-20,23,30H,5-13H2,1-2H3,(H,25,28)(H,26,29)(H,27,31)(H,32,33,34)/t15-,16+,17+,18-,19-,20-,23-/m0/s1" 
Y8V InChIKey         InChI                1.03  ZIWRGXZFSGDQST-UIEASHSYSA-N                                                                                                                                                                                                                   
Y8V SMILES_CANONICAL CACTVS               3.385 "CC(C)C[C@H](NC(=O)OC[C@H]1C[C@@H]2CC=C[C@H](C1)C2)C(=O)N[C@@H](C[C@@H]3CCNC3=O)[C@@H](O)[S](O)(=O)=O"                                                                                                                                        
Y8V SMILES           CACTVS               3.385 "CC(C)C[CH](NC(=O)OC[CH]1C[CH]2CC=C[CH](C1)C2)C(=O)N[CH](C[CH]3CCNC3=O)[CH](O)[S](O)(=O)=O"                                                                                                                                                   
Y8V SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)C[C@@H](C(=O)N[C@@H](C[C@@H]1CCNC1=O)[C@@H](O)S(=O)(=O)O)NC(=O)OC[C@H]2C[C@@H]3CC=C[C@@H](C3)C2"                                                                                                                                        
Y8V SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O)NC(=O)OCC2CC3CC=CC(C3)C2"                                                                                                                                                                          
# 
_pdbx_chem_comp_identifier.comp_id           Y8V 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.7 
_pdbx_chem_comp_identifier.identifier        "(1~{S},2~{S})-2-[[(2~{S})-2-[[(1~{R},3~{S},5~{S})-3-bicyclo[3.3.1]non-6-enyl]methoxycarbonylamino]-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 
Y8V "Create component" 2021-02-10 RCSB 
Y8V "Initial release"  2021-02-17 RCSB 
Y8V "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            Y8V 
_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               C09 
_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      ? 
# 
