data_V9R
# 
_chem_comp.id                                    V9R 
_chem_comp.name                                  "~{tert}-butyl ~{N}-[1-[(2~{R})-3-cyclopropyl-1-oxidanylidene-1-[[(2~{S},3~{S})-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]-4-[(phenylmethyl)amino]butan-2-yl]amino]propan-2-yl]-2-oxidanylidene-pyridin-3-yl]carbamate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C31 H41 N5 O7" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "(R,S,S)-13b; 13b-H; ketoamide inhibitor 13b (bound)" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-02-28 
_chem_comp.pdbx_modified_date                    2023-08-13 
_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                        595.687 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     V9R 
_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        8A4Q 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
# 
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.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 
V9R O26 O1  O 0 1 N N N -7.566  -22.658 -3.888 5.966  -0.486 -0.221 O26 V9R 1  
V9R C24 C1  C 0 1 N N N -6.956  -23.407 -3.125 5.902  -1.579 0.308  C24 V9R 2  
V9R O25 O2  O 0 1 N N N -5.587  -23.183 -2.702 6.848  -2.504 0.058  O25 V9R 3  
V9R C27 C2  C 0 1 N N N -4.692  -22.107 -3.019 7.914  -2.127 -0.852 C27 V9R 4  
V9R C31 C3  C 0 1 N N N -3.417  -22.338 -2.197 7.319  -1.770 -2.215 C31 V9R 5  
V9R C32 C4  C 0 1 N N N -5.316  -20.797 -2.575 8.662  -0.917 -0.289 C32 V9R 6  
V9R C33 C5  C 0 1 N N N -4.441  -22.121 -4.517 8.886  -3.298 -1.011 C33 V9R 7  
V9R N23 N1  N 0 1 N N N -7.439  -24.542 -2.632 4.887  -1.862 1.148  N23 V9R 8  
V9R C19 C6  C 0 1 N N N -8.603  -25.101 -2.981 3.961  -0.866 1.491  C19 V9R 9  
V9R C21 C7  C 0 1 N N N -8.883  -26.370 -2.304 3.204  -0.219 0.490  C21 V9R 10 
V9R O22 O3  O 0 1 N N N -8.012  -26.790 -1.492 3.352  -0.526 -0.682 O22 V9R 11 
V9R C18 C8  C 0 1 N N N -9.540  -24.631 -3.902 3.778  -0.513 2.799  C18 V9R 12 
V9R C17 C9  C 0 1 N N N -10.714 -25.325 -4.155 2.846  0.486  3.115  C17 V9R 13 
V9R C16 C10 C 0 1 N N N -10.985 -26.510 -3.495 2.140  1.089  2.131  C16 V9R 14 
V9R N15 N2  N 0 1 N N N -10.114 -27.012 -2.599 2.318  0.736  0.830  N15 V9R 15 
V9R C20 C11 C 0 1 N N R -10.378 -28.291 -1.915 1.539  1.406  -0.215 C20 V9R 16 
V9R C22 C12 C 0 1 N N N -10.796 -29.396 -2.895 1.718  2.921  -0.091 C22 V9R 17 
V9R C29 C13 C 0 1 N N N -9.618  -29.636 -3.851 3.176  3.287  -0.375 C29 V9R 18 
V9R C34 C14 C 0 1 N N N -9.721  -28.930 -5.206 3.586  4.749  -0.188 C34 V9R 19 
V9R C30 C15 C 0 1 N N N -9.870  -30.454 -5.124 3.460  4.163  -1.597 C30 V9R 20 
V9R C36 C16 C 0 1 N N N -11.308 -28.114 -0.734 0.082  1.058  -0.057 C36 V9R 21 
V9R O37 O4  O 0 1 N N N -12.224 -27.289 -0.693 -0.315 0.562  0.976  O37 V9R 22 
V9R N38 N3  N 0 1 N N N -10.894 -28.942 0.240  -0.781 1.297  -1.064 N38 V9R 23 
V9R C40 C17 C 0 1 N N S -11.267 -29.063 1.625  -2.214 1.061  -0.873 C40 V9R 24 
V9R C42 C18 C 0 1 N N N -11.783 -27.884 2.467  -2.851 2.292  -0.224 C42 V9R 25 
V9R C45 C19 C 0 1 N N S -11.263 -26.448 2.309  -4.229 1.922  0.329  C45 V9R 26 
V9R C47 C20 C 0 1 N N N -11.036 -25.777 3.643  -4.097 0.919  1.453  C47 V9R 27 
V9R O48 O5  O 0 1 N N N -11.684 -26.008 4.653  -3.884 -0.266 1.305  O48 V9R 28 
V9R N49 N4  N 0 1 N N N -10.066 -24.862 3.529  -4.247 1.531  2.640  N49 V9R 29 
V9R C51 C21 C 0 1 N N N -9.440  -24.858 2.207  -4.482 2.970  2.471  C51 V9R 30 
V9R C54 C22 C 0 1 N N N -9.974  -26.131 1.533  -4.894 3.150  0.993  C54 V9R 31 
V9R C57 C23 C 0 1 N N S -12.093 -30.351 1.827  -2.874 0.800  -2.228 C57 V9R 32 
V9R O40 O6  O 0 1 N N N -11.110 -31.227 2.399  -2.827 1.990  -3.018 O40 V9R 33 
V9R C35 C24 C 0 1 N N N -12.790 -31.058 0.665  -4.310 0.393  -2.018 C35 V9R 34 
V9R O41 O7  O 0 1 N N N -12.472 -32.211 0.382  -5.207 1.111  -2.406 O41 V9R 35 
V9R N36 N5  N 0 1 N N N -13.779 -30.396 0.043  -4.597 -0.769 -1.398 N36 V9R 36 
V9R C13 C25 C 0 1 N N N -14.619 -31.006 -0.999 -5.992 -1.165 -1.194 C13 V9R 37 
V9R C14 C26 C 0 1 Y N N -14.380 -30.434 -2.376 -6.039 -2.494 -0.484 C14 V9R 38 
V9R C28 C27 C 0 1 Y N N -14.137 -31.283 -3.462 -6.066 -2.539 0.897  C28 V9R 39 
V9R C26 C28 C 0 1 Y N N -13.919 -30.707 -4.719 -6.108 -3.757 1.548  C26 V9R 40 
V9R C25 C29 C 0 1 Y N N -13.970 -29.310 -4.893 -6.123 -4.931 0.818  C25 V9R 41 
V9R C23 C30 C 0 1 Y N N -14.235 -28.475 -3.810 -6.097 -4.886 -0.563 C23 V9R 42 
V9R C15 C31 C 0 1 Y N N -14.446 -29.044 -2.545 -6.060 -3.667 -1.214 C15 V9R 43 
V9R H1  H1  H 0 1 N N N -3.662  -22.317 -1.125 6.627  -0.936 -2.102 H1  V9R 44 
V9R H2  H2  H 0 1 N N N -2.987  -23.317 -2.455 8.120  -1.487 -2.899 H2  V9R 45 
V9R H3  H3  H 0 1 N N N -2.687  -21.546 -2.422 6.787  -2.632 -2.617 H3  V9R 46 
V9R H4  H4  H 0 1 N N N -5.484  -20.820 -1.488 9.086  -1.171 0.683  H4  V9R 47 
V9R H5  H5  H 0 1 N N N -4.640  -19.966 -2.824 9.463  -0.634 -0.972 H5  V9R 48 
V9R H6  H6  H 0 1 N N N -6.277  -20.655 -3.092 7.969  -0.083 -0.176 H6  V9R 49 
V9R H7  H7  H 0 1 N N N -3.756  -21.302 -4.782 8.354  -4.161 -1.412 H7  V9R 50 
V9R H8  H8  H 0 1 N N N -3.991  -23.083 -4.804 9.687  -3.016 -1.694 H8  V9R 51 
V9R H9  H9  H 0 1 N N N -5.394  -21.988 -5.050 9.311  -3.553 -0.039 H9  V9R 52 
V9R H10 H10 H 0 1 N N N -9.347  -23.708 -4.429 4.344  -0.998 3.581  H10 V9R 53 
V9R H12 H12 H 0 1 N N N -11.422 -24.937 -4.873 2.691  0.774  4.144  H12 V9R 54 
V9R H13 H13 H 0 1 N N N -11.904 -27.038 -3.700 1.424  1.857  2.382  H13 V9R 55 
V9R H14 H14 H 0 1 N N N -9.416  -28.618 -1.493 1.887  1.078  -1.194 H14 V9R 56 
V9R H15 H15 H 0 1 N N N -11.682 -29.078 -3.464 1.071  3.423  -0.810 H15 V9R 57 
V9R H16 H16 H 0 1 N N N -11.026 -30.320 -2.344 1.454  3.237  0.918  H16 V9R 58 
V9R H17 H17 H 0 1 N N N -8.617  -29.710 -3.400 3.911  2.522  -0.122 H17 V9R 59 
V9R H18 H18 H 0 1 N N N -8.824  -28.489 -5.666 2.817  5.450  0.136  H18 V9R 60 
V9R H19 H19 H 0 1 N N N -10.596 -28.304 -5.434 4.591  4.946  0.186  H19 V9R 61 
V9R H20 H20 H 0 1 N N N -10.852 -30.921 -5.293 4.381  3.975  -2.148 H20 V9R 62 
V9R H21 H21 H 0 1 N N N -9.080  -31.106 -5.524 2.608  4.478  -2.199 H21 V9R 63 
V9R H22 H22 H 0 1 N N N -10.196 -29.596 -0.052 -0.453 1.625  -1.916 H22 V9R 64 
V9R H23 H23 H 0 1 N N N -10.318 -29.311 2.122  -2.357 0.195  -0.226 H23 V9R 65 
V9R H24 H24 H 0 1 N N N -12.867 -27.835 2.286  -2.216 2.644  0.589  H24 V9R 66 
V9R H25 H25 H 0 1 N N N -11.599 -28.158 3.516  -2.958 3.081  -0.969 H25 V9R 67 
V9R H26 H26 H 0 1 N N N -12.066 -25.885 1.810  -4.863 1.525  -0.464 H26 V9R 68 
V9R H27 H27 H 0 1 N N N -9.797  -24.246 4.270  -4.207 1.081  3.498  H27 V9R 69 
V9R H28 H28 H 0 1 N N N -8.344  -24.893 2.294  -5.285 3.302  3.129  H28 V9R 70 
V9R H29 H29 H 0 1 N N N -9.734  -23.963 1.639  -3.569 3.528  2.680  H29 V9R 71 
V9R H30 H30 H 0 1 N N N -10.192 -25.949 0.470  -4.492 4.078  0.586  H30 V9R 72 
V9R H31 H31 H 0 1 N N N -9.250  -26.955 1.623  -5.978 3.114  0.883  H31 V9R 73 
V9R H32 H32 H 0 1 N N N -12.857 -30.134 2.588  -2.341 0.001  -2.743 H32 V9R 74 
V9R H33 H33 H 0 1 N N N -11.114 -32.055 1.933  -3.283 2.745  -2.620 H33 V9R 75 
V9R H34 H34 H 0 1 N N N -13.952 -29.445 0.300  -3.879 -1.343 -1.088 H34 V9R 76 
V9R H35 H35 H 0 1 N N N -15.674 -30.846 -0.734 -6.499 -0.412 -0.590 H35 V9R 77 
V9R H36 H36 H 0 1 N N N -14.408 -32.085 -1.029 -6.491 -1.251 -2.159 H36 V9R 78 
V9R H37 H37 H 0 1 N N N -14.118 -32.355 -3.333 -6.053 -1.622 1.468  H37 V9R 79 
V9R H38 H38 H 0 1 N N N -13.709 -31.342 -5.567 -6.128 -3.792 2.628  H38 V9R 80 
V9R H39 H39 H 0 1 N N N -13.803 -28.884 -5.871 -6.155 -5.883 1.327  H39 V9R 81 
V9R H40 H40 H 0 1 N N N -14.277 -27.404 -3.942 -6.108 -5.803 -1.133 H40 V9R 82 
V9R H41 H41 H 0 1 N N N -14.660 -28.409 -1.698 -6.040 -3.632 -2.294 H41 V9R 83 
V9R H42 H42 H 0 1 N N N -6.888  -25.016 -1.945 4.796  -2.755 1.515  H42 V9R 84 
# 
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 
V9R C34 C30 SING N N 1  
V9R C34 C29 SING N N 2  
V9R C30 C29 SING N N 3  
V9R C25 C26 DOUB Y N 4  
V9R C25 C23 SING Y N 5  
V9R C26 C28 SING Y N 6  
V9R C33 C27 SING N N 7  
V9R C17 C18 SING N N 8  
V9R C17 C16 DOUB N N 9  
V9R C18 C19 DOUB N N 10 
V9R O26 C24 DOUB N N 11 
V9R C29 C22 SING N N 12 
V9R C23 C15 DOUB Y N 13 
V9R C16 N15 SING N N 14 
V9R C28 C14 DOUB Y N 15 
V9R C24 O25 SING N N 16 
V9R C24 N23 SING N N 17 
V9R C27 O25 SING N N 18 
V9R C27 C32 SING N N 19 
V9R C27 C31 SING N N 20 
V9R C19 N23 SING N N 21 
V9R C19 C21 SING N N 22 
V9R C22 C20 SING N N 23 
V9R N15 C21 SING N N 24 
V9R N15 C20 SING N N 25 
V9R C15 C14 SING Y N 26 
V9R C14 C13 SING N N 27 
V9R C21 O22 DOUB N N 28 
V9R C20 C36 SING N N 29 
V9R C13 N36 SING N N 30 
V9R C36 O37 DOUB N N 31 
V9R C36 N38 SING N N 32 
V9R N36 C35 SING N N 33 
V9R N38 C40 SING N N 34 
V9R O41 C35 DOUB N N 35 
V9R C35 C57 SING N N 36 
V9R C54 C51 SING N N 37 
V9R C54 C45 SING N N 38 
V9R C40 C57 SING N N 39 
V9R C40 C42 SING N N 40 
V9R C57 O40 SING N N 41 
V9R C51 N49 SING N N 42 
V9R C45 C42 SING N N 43 
V9R C45 C47 SING N N 44 
V9R N49 C47 SING N N 45 
V9R C47 O48 DOUB N N 46 
V9R C31 H1  SING N N 47 
V9R C31 H2  SING N N 48 
V9R C31 H3  SING N N 49 
V9R C32 H4  SING N N 50 
V9R C32 H5  SING N N 51 
V9R C32 H6  SING N N 52 
V9R C33 H7  SING N N 53 
V9R C33 H8  SING N N 54 
V9R C33 H9  SING N N 55 
V9R C18 H10 SING N N 56 
V9R C17 H12 SING N N 57 
V9R C16 H13 SING N N 58 
V9R C20 H14 SING N N 59 
V9R C22 H15 SING N N 60 
V9R C22 H16 SING N N 61 
V9R C29 H17 SING N N 62 
V9R C34 H18 SING N N 63 
V9R C34 H19 SING N N 64 
V9R C30 H20 SING N N 65 
V9R C30 H21 SING N N 66 
V9R N38 H22 SING N N 67 
V9R C40 H23 SING N N 68 
V9R C42 H24 SING N N 69 
V9R C42 H25 SING N N 70 
V9R C45 H26 SING N N 71 
V9R N49 H27 SING N N 72 
V9R C51 H28 SING N N 73 
V9R C51 H29 SING N N 74 
V9R C54 H30 SING N N 75 
V9R C54 H31 SING N N 76 
V9R C57 H32 SING N N 77 
V9R O40 H33 SING N N 78 
V9R N36 H34 SING N N 79 
V9R C13 H35 SING N N 80 
V9R C13 H36 SING N N 81 
V9R C28 H37 SING N N 82 
V9R C26 H38 SING N N 83 
V9R C25 H39 SING N N 84 
V9R C23 H40 SING N N 85 
V9R C15 H41 SING N N 86 
V9R N23 H42 SING N N 87 
# 
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 
V9R InChI            InChI                1.06  "InChI=1S/C31H41N5O7/c1-31(2,3)43-30(42)35-22-10-7-15-36(29(22)41)24(16-19-11-12-19)27(39)34-23(17-21-13-14-32-26(21)38)25(37)28(40)33-18-20-8-5-4-6-9-20/h4-10,15,19,21,23-25,37H,11-14,16-18H2,1-3H3,(H,32,38)(H,33,40)(H,34,39)(H,35,42)/t21-,23-,24+,25-/m0/s1" 
V9R InChIKey         InChI                1.06  FRACPXUHUTXLCX-CGBRIMPHSA-N                                                                                                                                                                                                                                         
V9R SMILES_CANONICAL CACTVS               3.385 "CC(C)(C)OC(=O)NC1=CC=CN([C@H](CC2CC2)C(=O)N[C@@H](C[C@@H]3CCNC3=O)[C@H](O)C(=O)NCc4ccccc4)C1=O"                                                                                                                                                                    
V9R SMILES           CACTVS               3.385 "CC(C)(C)OC(=O)NC1=CC=CN([CH](CC2CC2)C(=O)N[CH](C[CH]3CCNC3=O)[CH](O)C(=O)NCc4ccccc4)C1=O"                                                                                                                                                                          
V9R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)(C)OC(=O)NC1=CC=CN(C1=O)[C@H](CC2CC2)C(=O)N[C@@H](C[C@@H]3CCNC3=O)[C@@H](C(=O)NCc4ccccc4)O"                                                                                                                                                                   
V9R SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C)(C)OC(=O)NC1=CC=CN(C1=O)C(CC2CC2)C(=O)NC(CC3CCNC3=O)C(C(=O)NCc4ccccc4)O"                                                                                                                                                                                      
# 
_pdbx_chem_comp_identifier.comp_id           V9R 
_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        "~{tert}-butyl ~{N}-[1-[(2~{R})-3-cyclopropyl-1-oxidanylidene-1-[[(2~{S},3~{S})-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]-4-[(phenylmethyl)amino]butan-2-yl]amino]propan-2-yl]-2-oxidanylidene-pyridin-3-yl]carbamate" 
# 
loop_
_pdbx_chem_comp_synonyms.ordinal 
_pdbx_chem_comp_synonyms.comp_id 
_pdbx_chem_comp_synonyms.name 
_pdbx_chem_comp_synonyms.provenance 
_pdbx_chem_comp_synonyms.type 
1 V9R "(R,S,S)-13b"                     AUTHOR ? 
2 V9R 13b-H                             AUTHOR ? 
3 V9R "ketoamide inhibitor 13b (bound)" AUTHOR ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
V9R "Create component"     2023-02-28 PDBE 
V9R "Initial release"      2023-03-08 RCSB 
V9R "Modify aromatic_flag" 2023-08-13 PDBE 
V9R "Modify descriptor"    2023-08-13 PDBE 
V9R "Modify name"          2023-08-13 PDBE 
# 
