data_7YB
# 
_chem_comp.id                                    7YB 
_chem_comp.name                                  "benzyl (1-{[(2S)-3-cyclohexyl-1-({(2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}amino)-1-oxopropan-2-yl]carbamoyl}cyclopropyl)carbamate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C28 H40 N4 O6" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2021-08-23 
_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                        528.640 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     7YB 
_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        7RVW 
_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 
7YB C1  C1  C 0 1 Y N N N N N -6.263  -21.375 -17.785 6.264  -1.183 -0.173 C1  7YB 1  
7YB C10 C2  C 0 1 N N N N N N -10.837 -18.293 -18.747 2.543  4.411  -0.163 C10 7YB 2  
7YB C11 C3  C 0 1 N N N N N N -9.735  -17.574 -18.069 2.062  3.144  0.546  C11 7YB 3  
7YB C12 C4  C 0 1 N N N N N N -10.202 -16.242 -17.575 0.729  2.578  0.132  C12 7YB 4  
7YB C13 C5  C 0 1 N N N N N N -7.512  -13.149 -18.308 -1.903 -0.369 -2.135 C13 7YB 5  
7YB C14 C6  C 0 1 N N S N N N -9.865  -13.904 -17.593 -0.792 0.698  -0.168 C14 7YB 6  
7YB C15 C7  C 0 1 N N N N N N -11.273 -13.424 -17.505 -1.202 -0.455 0.711  C15 7YB 7  
7YB C16 C8  C 0 1 N N N N N N -6.785  -11.948 -18.873 -2.927 0.760  -2.278 C16 7YB 8  
7YB C17 C9  C 0 1 N N S N N N -13.130 -12.404 -16.383 -2.901 -1.950 1.615  C17 7YB 9  
7YB C18 C10 C 0 1 N N N N N N -5.305  -12.253 -18.985 -4.242 0.191  -2.813 C18 7YB 10 
7YB C19 C11 C 0 1 N N N N N N -14.047 -13.261 -15.526 -4.416 -1.860 1.813  C19 7YB 11 
7YB C2  C12 C 0 1 Y N N N N N -5.470  -22.490 -18.068 5.801  -2.475 -0.007 C2  7YB 12 
7YB C20 C13 C 0 1 N N S N N N -14.072 -14.714 -15.911 -4.763 -0.531 2.488  C20 7YB 13 
7YB C21 C14 C 0 1 N N N N N N -14.773 -14.933 -17.238 -6.287 -0.428 2.728  C21 7YB 14 
7YB C22 C15 C 0 1 N N N N N N -15.473 -16.270 -17.103 -6.755 0.328  1.465  C22 7YB 15 
7YB C23 C16 C 0 1 N N N N N N -4.727  -12.478 -17.623 -4.001 -0.455 -4.179 C23 7YB 16 
7YB C24 C17 C 0 1 N N N N N N -14.871 -15.633 -14.989 -4.454 0.627  1.566  C24 7YB 17 
7YB C25 C18 C 0 1 N N N N N N -5.437  -13.632 -17.013 -2.977 -1.583 -4.036 C25 7YB 18 
7YB C26 C19 C 0 1 N N N N N N -6.927  -13.358 -16.948 -1.662 -1.014 -3.501 C26 7YB 19 
7YB C3  C20 C 0 1 Y N N N N N -5.830  -23.402 -19.084 6.632  -3.444 0.522  C3  7YB 20 
7YB C30 C21 C 0 1 N N N N N N -9.768  -17.567 -19.565 2.063  4.482  1.288  C30 7YB 21 
7YB C34 C22 C 0 1 N N N N N N -9.008  -12.891 -18.336 -0.588 0.200  -1.600 C34 7YB 22 
7YB C4  C23 C 0 1 Y N N N N N -6.997  -23.189 -19.845 7.927  -3.122 0.883  C4  7YB 23 
7YB C5  C24 C 0 1 Y N N N N N -7.798  -22.087 -19.563 8.390  -1.831 0.716  C5  7YB 24 
7YB C6  C25 C 0 1 Y N N N N N -7.427  -21.212 -18.545 7.561  -0.862 0.183  C6  7YB 25 
7YB C7  C26 C 0 1 N N N N N N -5.856  -20.380 -16.707 5.357  -0.126 -0.749 C7  7YB 26 
7YB C8  C27 C 0 1 N N N N N N -13.153 -10.929 -16.048 -2.542 -3.328 1.055  C8  7YB 27 
7YB C9  C28 C 0 1 N N N N N N -7.313  -18.230 -17.208 3.777  1.508  -0.020 C9  7YB 28 
7YB N10 N1  N 0 1 N N N N N N -8.606  -18.389 -17.583 3.076  2.158  0.930  N10 7YB 29 
7YB N13 N2  N 0 1 N N N N N N -9.802  -15.180 -18.232 0.459  1.273  0.333  N13 7YB 30 
7YB N16 N3  N 0 1 N N N N N N -11.780 -12.899 -16.413 -2.469 -0.914 0.674  N16 7YB 31 
7YB N23 N4  N 0 1 N N N N N N -15.644 -16.425 -15.690 -5.587 1.092  1.011  N23 7YB 32 
7YB O26 O1  O 0 1 N N N N N N -14.783 -15.616 -13.817 -3.345 1.072  1.357  O26 7YB 33 
7YB O29 O2  O 0 1 N N N N N N -6.632  -17.279 -17.489 3.635  1.804  -1.190 O29 7YB 34 
7YB O33 O3  O 0 1 N N N N N N -10.933 -16.212 -16.662 -0.102 3.297  -0.382 O33 7YB 35 
7YB O38 O4  O 0 1 N N N N N N -11.910 -13.550 -18.464 -0.393 -0.971 1.452  O38 7YB 36 
7YB O8  O5  O 0 1 N N N N N N -6.724  -19.281 -16.380 4.636  0.531  0.327  O8  7YB 37 
7YB O9  O6  O 0 1 N N N N N N -14.406 -10.298 -16.034 -3.288 -3.567 -0.139 O9  7YB 38 
7YB H1  H1  H 0 1 N N N N N N -11.862 -17.896 -18.704 3.613  4.512  -0.345 H1  7YB 39 
7YB H2  H2  H 0 1 N N N N N N -10.868 -19.392 -18.733 1.895  4.836  -0.929 H2  7YB 40 
7YB H3  H3  H 0 1 N N N N N N -7.291  -14.026 -18.934 -2.283 -1.118 -1.441 H3  7YB 41 
7YB H4  H4  H 0 1 N N N N N N -9.469  -13.995 -16.571 -1.572 1.459  -0.156 H4  7YB 42 
7YB H5  H5  H 0 1 N N N N N N -6.931  -11.085 -18.206 -3.099 1.219  -1.304 H5  7YB 43 
7YB H6  H6  H 0 1 N N N N N N -7.186  -11.713 -19.870 -2.546 1.510  -2.971 H6  7YB 44 
7YB H7  H7  H 0 1 N N N N N N -13.519 -12.485 -17.409 -2.400 -1.804 2.571  H7  7YB 45 
7YB H8  H8  H 0 1 N N N N N N -5.164  -13.157 -19.595 -4.622 -0.559 -2.119 H8  7YB 46 
7YB H9  H9  H 0 1 N N N N N N -4.793  -11.405 -19.463 -4.971 0.994  -2.914 H9  7YB 47 
7YB H10 H10 H 0 1 N N N N N N -13.711 -13.187 -14.481 -4.913 -1.917 0.845  H10 7YB 48 
7YB H11 H11 H 0 1 N N N N N N -15.069 -12.864 -15.612 -4.749 -2.685 2.443  H11 7YB 49 
7YB H12 H12 H 0 1 N N N N N N -4.567  -22.657 -17.500 4.789  -2.726 -0.289 H12 7YB 50 
7YB H13 H13 H 0 1 N N N N N N -13.040 -15.089 -15.983 -4.219 -0.427 3.427  H13 7YB 51 
7YB H14 H14 H 0 1 N N N N N N -14.042 -14.962 -18.060 -6.741 -1.418 2.781  H14 7YB 52 
7YB H15 H15 H 0 1 N N N N N N -15.504 -14.132 -17.425 -6.502 0.147  3.629  H15 7YB 53 
7YB H16 H16 H 0 1 N N N N N N -16.446 -16.257 -17.616 -7.065 -0.379 0.695  H16 7YB 54 
7YB H17 H17 H 0 1 N N N N N N -14.853 -17.080 -17.514 -7.575 1.003  1.711  H17 7YB 55 
7YB H18 H18 H 0 1 N N N N N N -3.653  -12.700 -17.704 -4.938 -0.860 -4.560 H18 7YB 56 
7YB H19 H19 H 0 1 N N N N N N -4.870  -11.581 -17.003 -3.620 0.295  -4.873 H19 7YB 57 
7YB H20 H20 H 0 1 N N N N N N -5.259  -14.531 -17.622 -3.358 -2.333 -3.342 H20 7YB 58 
7YB H21 H21 H 0 1 N N N N N N -5.054  -13.797 -15.995 -2.805 -2.043 -5.010 H21 7YB 59 
7YB H22 H22 H 0 1 N N N N N N -7.097  -12.454 -16.344 -1.281 -0.264 -4.195 H22 7YB 60 
7YB H23 H23 H 0 1 N N N N N N -7.427  -14.215 -16.473 -0.933 -1.818 -3.399 H23 7YB 61 
7YB H24 H24 H 0 1 N N N N N N -5.210  -24.265 -19.278 6.270  -4.453 0.652  H24 7YB 62 
7YB H25 H25 H 0 1 N N N N N N -9.025  -18.140 -20.138 2.817  4.629  2.061  H25 7YB 63 
7YB H26 H26 H 0 1 N N N N N N -10.018 -16.644 -20.109 1.098  4.953  1.477  H26 7YB 64 
7YB H27 H27 H 0 1 N N N N N N -9.189  -11.902 -17.889 0.175  -0.578 -1.609 H27 7YB 65 
7YB H28 H28 H 0 1 N N N N N N -9.330  -12.882 -19.388 -0.268 1.030  -2.231 H28 7YB 66 
7YB H29 H29 H 0 1 N N N N N N -7.266  -23.872 -20.637 8.575  -3.879 1.300  H29 7YB 67 
7YB H30 H30 H 0 1 N N N N N N -8.701  -21.911 -20.129 9.402  -1.579 0.999  H30 7YB 68 
7YB H31 H31 H 0 1 N N N N N N -8.067  -20.369 -18.332 7.923  0.147  0.052  H31 7YB 69 
7YB H32 H32 H 0 1 N N N N N N -5.710  -20.956 -15.781 5.953  0.610  -1.288 H32 7YB 70 
7YB H33 H33 H 0 1 N N N N N N -4.897  -19.944 -17.023 4.647  -0.590 -1.433 H33 7YB 71 
7YB H34 H34 H 0 1 N N N N N N -12.710 -10.809 -15.048 -1.476 -3.362 0.830  H34 7YB 72 
7YB H35 H35 H 0 1 N Y N N N N -12.529 -10.410 -16.791 -2.782 -4.094 1.793  H35 7YB 73 
7YB H36 H36 H 0 1 N N N N N N -8.876  -19.349 -17.507 3.242  1.972  1.867  H36 7YB 74 
7YB H37 H37 H 0 1 N N N N N N -9.458  -15.262 -19.167 1.093  0.714  0.809  H37 7YB 75 
7YB H38 H38 H 0 1 N N N N N N -11.218 -12.842 -15.588 -3.095 -0.557 0.024  H38 7YB 76 
7YB H39 H39 H 0 1 N N N N N N -16.287 -17.072 -15.280 -5.627 1.837  0.391  H39 7YB 77 
7YB H40 H40 H 0 1 N N N N N N -14.297 -9.381  -15.813 -3.111 -4.424 -0.550 H40 7YB 78 
# 
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 
7YB C4  C5  DOUB Y N 1  
7YB C4  C3  SING Y N 2  
7YB C30 C10 SING N N 3  
7YB C30 C11 SING N N 4  
7YB C5  C6  SING Y N 5  
7YB C3  C2  DOUB Y N 6  
7YB C18 C16 SING N N 7  
7YB C18 C23 SING N N 8  
7YB C16 C13 SING N N 9  
7YB C10 C11 SING N N 10 
7YB C6  C1  DOUB Y N 11 
7YB O38 C15 DOUB N N 12 
7YB C34 C13 SING N N 13 
7YB C34 C14 SING N N 14 
7YB C13 C26 SING N N 15 
7YB N13 C14 SING N N 16 
7YB N13 C12 SING N N 17 
7YB C11 N10 SING N N 18 
7YB C11 C12 SING N N 19 
7YB C2  C1  SING Y N 20 
7YB C1  C7  SING N N 21 
7YB C23 C25 SING N N 22 
7YB C14 C15 SING N N 23 
7YB N10 C9  SING N N 24 
7YB C12 O33 DOUB N N 25 
7YB C15 N16 SING N N 26 
7YB O29 C9  DOUB N N 27 
7YB C21 C22 SING N N 28 
7YB C21 C20 SING N N 29 
7YB C9  O8  SING N N 30 
7YB C22 N23 SING N N 31 
7YB C25 C26 SING N N 32 
7YB C7  O8  SING N N 33 
7YB N16 C17 SING N N 34 
7YB C17 C8  SING N N 35 
7YB C17 C19 SING N N 36 
7YB C8  O9  SING N N 37 
7YB C20 C19 SING N N 38 
7YB C20 C24 SING N N 39 
7YB N23 C24 SING N N 40 
7YB C24 O26 DOUB N N 41 
7YB C10 H1  SING N N 42 
7YB C10 H2  SING N N 43 
7YB C13 H3  SING N N 44 
7YB C14 H4  SING N N 45 
7YB C16 H5  SING N N 46 
7YB C16 H6  SING N N 47 
7YB C17 H7  SING N N 48 
7YB C18 H8  SING N N 49 
7YB C18 H9  SING N N 50 
7YB C19 H10 SING N N 51 
7YB C19 H11 SING N N 52 
7YB C2  H12 SING N N 53 
7YB C20 H13 SING N N 54 
7YB C21 H14 SING N N 55 
7YB C21 H15 SING N N 56 
7YB C22 H16 SING N N 57 
7YB C22 H17 SING N N 58 
7YB C23 H18 SING N N 59 
7YB C23 H19 SING N N 60 
7YB C25 H20 SING N N 61 
7YB C25 H21 SING N N 62 
7YB C26 H22 SING N N 63 
7YB C26 H23 SING N N 64 
7YB C3  H24 SING N N 65 
7YB C30 H25 SING N N 66 
7YB C30 H26 SING N N 67 
7YB C34 H27 SING N N 68 
7YB C34 H28 SING N N 69 
7YB C4  H29 SING N N 70 
7YB C5  H30 SING N N 71 
7YB C6  H31 SING N N 72 
7YB C7  H32 SING N N 73 
7YB C7  H33 SING N N 74 
7YB C8  H34 SING N N 75 
7YB C8  H35 SING N N 76 
7YB N10 H36 SING N N 77 
7YB N13 H37 SING N N 78 
7YB N16 H38 SING N N 79 
7YB N23 H39 SING N N 80 
7YB O9  H40 SING N N 81 
# 
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 
7YB SMILES           ACDLabs              12.01 "O=C(OCc1ccccc1)NC1(CC1)C(=O)NC(CC1CCCCC1)C(=O)NC(CC1CCNC1=O)CO"                                                                                                                                                                               
7YB InChI            InChI                1.03  "InChI=1S/C28H40N4O6/c33-17-22(16-21-11-14-29-24(21)34)30-25(35)23(15-19-7-3-1-4-8-19)31-26(36)28(12-13-28)32-27(37)38-18-20-9-5-2-6-10-20/h2,5-6,9-10,19,21-23,33H,1,3-4,7-8,11-18H2,(H,29,34)(H,30,35)(H,31,36)(H,32,37)/t21-,22-,23-/m0/s1" 
7YB InChIKey         InChI                1.03  PNFAFEUIIJFEIL-VABKMULXSA-N                                                                                                                                                                                                                    
7YB SMILES_CANONICAL CACTVS               3.385 "OC[C@H](C[C@@H]1CCNC1=O)NC(=O)[C@H](CC2CCCCC2)NC(=O)C3(CC3)NC(=O)OCc4ccccc4"                                                                                                                                                                  
7YB SMILES           CACTVS               3.385 "OC[CH](C[CH]1CCNC1=O)NC(=O)[CH](CC2CCCCC2)NC(=O)C3(CC3)NC(=O)OCc4ccccc4"                                                                                                                                                                      
7YB SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)COC(=O)NC2(CC2)C(=O)N[C@@H](CC3CCCCC3)C(=O)N[C@@H](C[C@@H]4CCNC4=O)CO"                                                                                                                                                              
7YB SMILES           "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)COC(=O)NC2(CC2)C(=O)NC(CC3CCCCC3)C(=O)NC(CC4CCNC4=O)CO"                                                                                                                                                                             
# 
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 
7YB "SYSTEMATIC NAME" ACDLabs              12.01 "benzyl (1-{[(2S)-3-cyclohexyl-1-({(2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}amino)-1-oxopropan-2-yl]carbamoyl}cyclopropyl)carbamate"                                            
7YB "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(phenylmethyl) ~{N}-[1-[[(2~{S})-3-cyclohexyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanyl-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]propan-2-yl]carbamoyl]cyclopropyl]carbamate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
7YB "Create component" 2021-08-23 RCSB 
7YB "Initial release"  2022-07-20 RCSB 
7YB "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            7YB 
_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               C8 
_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      ? 
# 
