data_Y4J
# 
_chem_comp.id                                    Y4J 
_chem_comp.name                                  "(1R,2S)-2-((S)-2-(((((1R,3R,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                     2021-02-03 
_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                     Y4J 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   N 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        7LKV 
_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 
Y4J N11 N1  N 0 1 N N N N N N 10.147 20.344 27.463 2.352  -0.223 -0.222 N11 Y4J 1  
Y4J C12 C1  C 0 1 N N N N N N 10.565 21.616 27.891 1.204  0.409  0.094  C12 Y4J 2  
Y4J C14 C2  C 0 1 N N N N N N 13.041 21.945 28.388 0.037  0.197  -2.083 C14 Y4J 3  
Y4J N18 N2  N 0 1 N N N N N N 11.795 23.597 27.032 -1.179 0.836  -0.061 N18 Y4J 4  
Y4J C19 C3  C 0 1 N N N N N N 10.829 24.022 26.140 -2.446 0.377  -0.092 C19 Y4J 5  
Y4J C21 C4  C 0 1 N N N N N N 9.337  25.767 25.420 -4.790 0.582  0.311  C21 Y4J 6  
Y4J C22 C5  C 0 1 N N R N N N 8.150  26.233 26.327 -5.790 1.587  0.885  C22 Y4J 7  
Y4J C23 C6  C 0 1 N N N N N N 6.846  26.530 25.515 -6.397 1.025  2.170  C23 Y4J 8  
Y4J C24 C7  C 0 1 N N R N N N 6.728  27.911 24.867 -7.185 -0.245 1.892  C24 Y4J 9  
Y4J C25 C8  C 0 1 N N N N N N 6.872  29.009 25.908 -8.260 -0.003 0.832  C25 Y4J 10 
Y4J C26 C9  C 0 1 N N S N N N 8.250  28.866 26.541 -7.575 0.491  -0.449 C26 Y4J 11 
Y4J C27 C10 C 0 1 N N N N N N 8.466  27.481 27.183 -6.904 1.839  -0.137 C27 Y4J 12 
Y4J C02 C11 C 0 1 N N N N N N 6.587  20.988 24.876 2.934  -2.648 0.825  C02 Y4J 13 
Y4J C04 C12 C 0 1 N N N N N N 5.649  22.709 26.262 4.640  -4.120 0.262  C04 Y4J 14 
Y4J C05 C13 C 0 1 N N N N N N 6.671  21.924 27.106 5.249  -3.144 1.293  C05 Y4J 15 
Y4J C06 C14 C 0 1 N N S N N N 7.476  21.053 26.125 4.217  -1.993 1.286  C06 Y4J 16 
Y4J C07 C15 C 0 1 N N N N N N 7.827  19.691 26.722 4.643  -0.899 0.306  C07 Y4J 17 
Y4J C08 C16 C 0 1 N N S N N N 8.854  19.771 27.914 3.623  0.242  0.340  C08 Y4J 18 
Y4J C09 C17 C 0 1 N N R N N N 9.113  18.360 28.456 4.146  1.418  -0.487 C09 Y4J 19 
Y4J C13 C18 C 0 1 N N S N N N 11.927 22.175 27.359 -0.086 0.005  -0.571 C13 Y4J 20 
Y4J C15 C19 C 0 1 N N N N N N 14.402 22.478 27.971 -1.225 -0.330 -2.769 C15 Y4J 21 
Y4J C16 C20 C 0 1 N N N N N N 15.457 22.174 29.035 -1.156 -0.026 -4.267 C16 Y4J 22 
Y4J C17 C21 C 0 1 N N N N N N 14.884 21.906 26.662 -1.326 -1.842 -2.560 C17 Y4J 23 
Y4J C28 C22 C 0 1 N N N N N N 9.239  29.133 25.447 -6.492 -0.481 -0.836 C28 Y4J 24 
Y4J C29 C23 C 0 1 N N N N N N 8.938  28.903 24.177 -5.927 -1.287 0.004  C29 Y4J 25 
Y4J C30 C24 C 0 1 N N N N N N 7.761  28.098 23.739 -6.280 -1.390 1.457  C30 Y4J 26 
Y4J N03 N3  N 0 1 N N N N N N 5.576  21.946 25.029 3.200  -3.839 0.261  N03 Y4J 27 
Y4J O01 O1  O 0 1 N N N N N N 6.694  20.269 23.922 1.826  -2.170 0.951  O01 Y4J 28 
Y4J O10 O2  O 0 1 N N N N N N 9.942  18.545 29.585 4.495  0.963  -1.795 O10 Y4J 29 
Y4J O20 O3  O 0 1 N N N N N N 10.563 25.395 26.053 -3.451 1.140  0.377  O20 Y4J 30 
Y4J O31 O4  O 0 1 N N N N N N 10.193 23.247 25.448 -2.681 -0.727 -0.544 O31 Y4J 31 
Y4J O32 O5  O 0 1 N N N N N N 9.867  22.283 28.610 1.210  1.303  0.913  O32 Y4J 32 
Y4J H1  H1  H 0 1 N N N N N N 10.730 19.817 26.845 2.336  -0.988 -0.818 H1  Y4J 33 
Y4J H2  H2  H 0 1 N N N N N N 12.750 22.441 29.326 0.157  1.257  -2.307 H2  Y4J 34 
Y4J H3  H3  H 0 1 N N N N N N 13.133 20.862 28.559 0.905  -0.352 -2.450 H3  Y4J 35 
Y4J H4  H4  H 0 1 N N N N N N 12.407 24.264 27.457 -0.992 1.717  0.300  H4  Y4J 36 
Y4J H5  H5  H 0 1 N N N N N N 9.564  26.593 24.729 -4.827 -0.340 0.891  H5  Y4J 37 
Y4J H6  H6  H 0 1 N N N N N N 8.988  24.895 24.847 -5.044 0.368  -0.727 H6  Y4J 38 
Y4J H7  H7  H 0 1 N N N N N N 7.923  25.407 27.018 -5.279 2.524  1.104  H7  Y4J 39 
Y4J H8  H8  H 0 1 N N N N N N 5.994  26.412 26.201 -5.596 0.802  2.876  H8  Y4J 40 
Y4J H9  H9  H 0 1 N N N N N N 6.777  25.781 24.713 -7.062 1.769  2.608  H9  Y4J 41 
Y4J H10 H10 H 0 1 N N N N N N 5.725  27.992 24.422 -7.680 -0.548 2.815  H10 Y4J 42 
Y4J H11 H11 H 0 1 N N N N N N 6.780  29.995 25.429 -8.792 -0.933 0.628  H11 Y4J 43 
Y4J H12 H12 H 0 1 N N N N N N 6.093  28.901 26.677 -8.962 0.751  1.187  H12 Y4J 44 
Y4J H13 H13 H 0 1 N N N N N N 8.362  29.633 27.321 -8.304 0.603  -1.252 H13 Y4J 45 
Y4J H14 H14 H 0 1 N N N N N N 7.832  27.433 28.080 -7.638 2.529  0.280  H14 Y4J 46 
Y4J H15 H15 H 0 1 N N N N N N 9.524  27.417 27.478 -6.479 2.259  -1.049 H15 Y4J 47 
Y4J H16 H16 H 0 1 N N N N N N 6.000  23.734 26.071 5.061  -3.935 -0.726 H16 Y4J 48 
Y4J H17 H17 H 0 1 N N N N N N 4.670  22.744 26.762 4.824  -5.151 0.564  H17 Y4J 49 
Y4J H18 H18 H 0 1 N N N N N N 6.151  21.289 27.838 5.311  -3.607 2.279  H18 Y4J 50 
Y4J H19 H19 H 0 1 N N N N N N 7.341  22.619 27.634 6.228  -2.793 0.967  H19 Y4J 51 
Y4J H20 H20 H 0 1 N N N N N N 8.407  21.579 25.869 4.096  -1.580 2.288  H20 Y4J 52 
Y4J H21 H21 H 0 1 N N N N N N 6.902  19.224 27.091 5.623  -0.517 0.590  H21 Y4J 53 
Y4J H22 H22 H 0 1 N N N N N N 8.263  19.065 25.929 4.692  -1.312 -0.702 H22 Y4J 54 
Y4J H23 H23 H 0 1 N N N N N N 8.424  20.394 28.712 3.469  0.561  1.370  H23 Y4J 55 
Y4J H44 H44 H 0 1 N N N N N N 8.145  17.958 28.791 3.371  2.182  -0.562 H44 Y4J 56 
Y4J S1  S1  S 0 1 N Y N N N N 9.622  17.744 27.700 5.610  2.121  0.321  S1  Y4J 57 
Y4J H26 H26 H 0 1 N N N N N N 12.184 21.619 26.445 -0.294 -1.043 -0.353 H26 Y4J 58 
Y4J H27 H27 H 0 1 N N N N N N 14.327 23.570 27.866 -2.101 0.156  -2.339 H27 Y4J 59 
Y4J H28 H28 H 0 1 N N N N N N 15.130 22.581 30.003 -0.280 -0.511 -4.697 H28 Y4J 60 
Y4J H29 H29 H 0 1 N N N N N N 15.588 21.085 29.121 -2.056 -0.401 -4.755 H29 Y4J 61 
Y4J H30 H30 H 0 1 N N N N N N 16.412 22.637 28.747 -1.084 1.052  -4.416 H30 Y4J 62 
Y4J H31 H31 H 0 1 N N N N N N 15.869 22.329 26.417 -1.375 -2.059 -1.493 H31 Y4J 63 
Y4J H32 H32 H 0 1 N N N N N N 14.966 20.812 26.748 -2.226 -2.217 -3.048 H32 Y4J 64 
Y4J H33 H33 H 0 1 N N N N N N 14.168 22.159 25.866 -0.450 -2.328 -2.990 H33 Y4J 65 
Y4J H34 H34 H 0 1 N N N N N N 10.215 29.520 25.698 -6.170 -0.507 -1.866 H34 Y4J 66 
Y4J H35 H35 H 0 1 N N N N N N 9.581  29.322 23.417 -5.146 -1.932 -0.369 H35 Y4J 67 
Y4J H36 H36 H 0 1 N N N N N N 7.275  28.611 22.896 -5.365 -1.365 2.049  H36 Y4J 68 
Y4J H37 H37 H 0 1 N N N N N N 8.111  27.108 23.413 -6.792 -2.336 1.633  H37 Y4J 69 
Y4J H38 H38 H 0 1 N N N N N N 4.862  22.092 24.344 2.526  -4.435 -0.101 H38 Y4J 70 
Y4J H39 H39 H 0 1 N N N N N N 10.853 18.509 29.319 3.759  0.575  -2.286 H39 Y4J 71 
Y4J O2  O6  O 0 1 N Y N N N N 9.799  16.737 28.106 5.941  3.378  -0.253 O2  Y4J 72 
Y4J O3  O7  O 0 1 N Y N N N N 8.992  17.671 26.801 5.141  2.463  1.728  O3  Y4J 73 
Y4J O1  O8  O 0 1 N Y N N N N 10.584 18.208 27.437 6.601  1.121  0.515  O1  Y4J 74 
Y4J H24 H24 H 0 1 N Y N N N N 8.782  16.760 26.634 5.826  2.853  2.287  H24 Y4J 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 
Y4J C30 C29 SING N N 1  
Y4J C30 C24 SING N N 2  
Y4J O01 C02 DOUB N N 3  
Y4J C29 C28 DOUB N N 4  
Y4J C24 C23 SING N N 5  
Y4J C24 C25 SING N N 6  
Y4J C02 N03 SING N N 7  
Y4J C02 C06 SING N N 8  
Y4J N03 C04 SING N N 9  
Y4J C21 O20 SING N N 10 
Y4J C21 C22 SING N N 11 
Y4J C28 C26 SING N N 12 
Y4J O31 C19 DOUB N N 13 
Y4J C23 C22 SING N N 14 
Y4J C25 C26 SING N N 15 
Y4J O20 C19 SING N N 16 
Y4J C06 C07 SING N N 17 
Y4J C06 C05 SING N N 18 
Y4J C19 N18 SING N N 19 
Y4J C04 C05 SING N N 20 
Y4J C22 C27 SING N N 21 
Y4J C26 C27 SING N N 22 
Y4J C17 C15 SING N N 23 
Y4J C07 C08 SING N N 24 
Y4J N18 C13 SING N N 25 
Y4J C13 C12 SING N N 26 
Y4J C13 C14 SING N N 27 
Y4J N11 C12 SING N N 28 
Y4J N11 C08 SING N N 29 
Y4J C12 O32 DOUB N N 30 
Y4J C08 C09 SING N N 31 
Y4J C15 C14 SING N N 32 
Y4J C15 C16 SING N N 33 
Y4J C09 O10 SING N N 34 
Y4J N11 H1  SING N N 35 
Y4J C14 H2  SING N N 36 
Y4J C14 H3  SING N N 37 
Y4J N18 H4  SING N N 38 
Y4J C21 H5  SING N N 39 
Y4J C21 H6  SING N N 40 
Y4J C22 H7  SING N N 41 
Y4J C23 H8  SING N N 42 
Y4J C23 H9  SING N N 43 
Y4J C24 H10 SING N N 44 
Y4J C25 H11 SING N N 45 
Y4J C25 H12 SING N N 46 
Y4J C26 H13 SING N N 47 
Y4J C27 H14 SING N N 48 
Y4J C27 H15 SING N N 49 
Y4J C04 H16 SING N N 50 
Y4J C04 H17 SING N N 51 
Y4J C05 H18 SING N N 52 
Y4J C05 H19 SING N N 53 
Y4J C06 H20 SING N N 54 
Y4J C07 H21 SING N N 55 
Y4J C07 H22 SING N N 56 
Y4J C08 H23 SING N N 57 
Y4J C09 H44 SING N N 58 
Y4J C09 S1  SING N N 59 
Y4J C13 H26 SING N N 60 
Y4J C15 H27 SING N N 61 
Y4J C16 H28 SING N N 62 
Y4J C16 H29 SING N N 63 
Y4J C16 H30 SING N N 64 
Y4J C17 H31 SING N N 65 
Y4J C17 H32 SING N N 66 
Y4J C17 H33 SING N N 67 
Y4J C28 H34 SING N N 68 
Y4J C29 H35 SING N N 69 
Y4J C30 H36 SING N N 70 
Y4J C30 H37 SING N N 71 
Y4J N03 H38 SING N N 72 
Y4J O10 H39 SING N N 73 
Y4J S1  O2  DOUB N N 74 
Y4J S1  O3  SING N N 75 
Y4J S1  O1  DOUB N N 76 
Y4J O3  H24 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 
Y4J SMILES           ACDLabs              12.01 "N(C(=O)C(CC(C)C)NC(OCC1CC2CC(C1)CC=C2)=O)C(CC3C(NCC3)=O)C(O)S(=O)(O)=O"                                                                                                                                                                      
Y4J 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" 
Y4J InChIKey         InChI                1.03  ZIWRGXZFSGDQST-ZDCSSWJMSA-N                                                                                                                                                                                                                   
Y4J 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"                                                                                                                                        
Y4J 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"                                                                                                                                                   
Y4J 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"                                                                                                                                        
Y4J 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"                                                                                                                                                                          
# 
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 
Y4J "SYSTEMATIC NAME" ACDLabs              12.01 "(1R,2S)-2-{[N-({[(1R,3R,5S)-bicyclo[3.3.1]non-6-en-3-yl]methoxy}carbonyl)-L-leucyl]amino}-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid"                                                  
Y4J "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(1~{R},2~{S})-2-[[(2~{S})-2-[[(1~{R},3~{R},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 
Y4J "Create component"   2021-02-03 RCSB 
Y4J "Other modification" 2021-02-05 RCSB 
Y4J "Modify name"        2021-02-09 RCSB 
Y4J "Initial release"    2021-02-17 RCSB 
Y4J "Modify PCM"         2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            Y4J 
_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      ? 
# 
