data_O6K
# 
_chem_comp.id                                    O6K 
_chem_comp.name                                  "~{tert}-butyl ~{N}-[1-[(2~{S})-3-cyclopropyl-1-oxidanylidene-1-[[(2~{S},3~{R})-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                         "(S,S,S)-13b; 13b-K; ketoamide inhibitor 13b (bound)" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2020-02-17 
_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                        595.687 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     O6K 
_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        6Y2F 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
_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 
O6K O26 O1  O 0 1 N N N N N N 11.831 -5.792 23.341 4.974  0.538  0.530  O26 O6K 1  
O6K C24 C1  C 0 1 N N N N N N 11.055 -5.520 22.439 5.706  -0.404 0.758  C24 O6K 2  
O6K O25 O2  O 0 1 N N N N N N 10.794 -6.486 21.388 7.042  -0.234 0.761  O25 O6K 3  
O6K C27 C2  C 0 1 N N N N N N 11.592 -7.649 21.100 7.537  1.103  0.483  C27 O6K 4  
O6K C31 C3  C 0 1 N N N N N N 11.566 -8.561 22.339 6.996  2.076  1.533  C31 O6K 5  
O6K C32 C4  C 0 1 N N N N N N 11.003 -8.363 19.874 9.066  1.101  0.530  C32 O6K 6  
O6K C33 C5  C 0 1 N N N N N N 13.034 -7.252 20.756 7.069  1.541  -0.906 C33 O6K 7  
O6K N23 N1  N 0 1 N N N N N N 10.377 -4.374 22.318 5.181  -1.619 1.014  N23 O6K 8  
O6K C19 C6  C 0 1 N N N N N N 10.511 -3.257 23.071 3.792  -1.773 1.123  C19 O6K 9  
O6K C21 C7  C 0 1 N N N N N N 9.776  -2.076 22.588 2.950  -1.441 0.040  C21 O6K 10 
O6K O22 O3  O 0 1 N N N N N N 9.071  -2.127 21.535 3.429  -1.017 -0.999 O22 O6K 11 
O6K C18 C8  C 0 1 N N N N N N 11.312 -3.134 24.223 3.237  -2.253 2.277  C18 O6K 12 
O6K C17 C9  C 0 1 N N N N N N 11.391 -1.923 24.880 1.845  -2.398 2.359  C17 O6K 13 
O6K C16 C10 C 0 1 N N N N N N 10.667 -0.827 24.422 1.066  -2.066 1.304  C16 O6K 14 
O6K N15 N2  N 0 1 N N N N N N 9.874  -0.879 23.325 1.617  -1.594 0.154  N15 O6K 15 
O6K C20 C11 C 0 1 N N S N N N 9.148  0.279  22.802 0.749  -1.247 -0.975 C20 O6K 16 
O6K C22 C12 C 0 1 N N N N N N 9.003  1.431  23.806 -0.035 -2.486 -1.414 C22 O6K 17 
O6K C29 C13 C 0 1 N N N N N N 8.204  0.991  25.035 0.935  -3.537 -1.957 C29 O6K 18 
O6K C34 C14 C 0 1 N N N N N N 7.462  2.042  25.855 0.356  -4.900 -2.342 C34 O6K 19 
O6K C30 C15 C 0 1 N N N N N N 6.684  1.164  24.883 0.804  -3.924 -3.432 C30 O6K 20 
O6K C36 C16 C 0 1 N N N N N N 9.908  0.711  21.576 -0.213 -0.166 -0.555 C36 O6K 21 
O6K O37 O4  O 0 1 N N N N N N 11.128 0.554  21.519 -0.178 0.271  0.576  O37 O6K 22 
O6K N38 N3  N 0 1 N N N N N N 9.195  1.270  20.584 -1.114 0.314  -1.435 N38 O6K 23 
O6K C40 C17 C 0 1 N N S N N N 9.796  1.792  19.396 -1.975 1.438  -1.062 C40 O6K 24 
O6K C42 C18 C 0 1 N N N N N N 9.250  1.152  18.080 -1.203 2.749  -1.224 C42 O6K 25 
O6K C45 C19 C 0 1 N N S N N N 9.773  -0.250 17.989 -2.074 3.916  -0.755 C45 O6K 26 
O6K C47 C20 C 0 1 N N N N N N 9.197  -1.141 16.910 -2.342 3.812  0.730  C47 O6K 27 
O6K O48 O5  O 0 1 N N N N N N 8.004  -1.151 16.621 -3.147 3.062  1.240  O48 O6K 28 
O6K N49 N4  N 0 1 N N N N N N 10.173 -1.911 16.400 -1.559 4.673  1.403  N49 O6K 29 
O6K C51 C21 C 0 1 N N N N N N 11.469 -1.705 17.056 -0.690 5.427  0.491  C51 O6K 30 
O6K C54 C22 C 0 1 N N N N N N 11.278 -0.341 17.708 -1.316 5.254  -0.914 C54 O6K 31 
O6K C57 C23 C 0 1 N N R N N N 9.601  3.286  19.630 -3.208 1.458  -1.968 C57 O6K 32 
O6K O40 O6  O 0 1 N N N N N N 9.919  3.762  20.992 -2.798 1.604  -3.329 O40 O6K 33 
O6K C35 C24 C 0 1 N N N N N N 10.554 4.044  18.797 -3.970 0.167  -1.808 C35 O6K 34 
O6K O41 O7  O 0 1 N N N N N N 10.478 3.883  17.593 -4.066 -0.600 -2.743 O41 O6K 35 
O6K N36 N5  N 0 1 N N N N N N 11.356 4.866  19.534 -4.544 -0.135 -0.627 N36 O6K 36 
O6K C13 C25 C 0 1 N N N N N N 12.370 5.770  18.992 -5.284 -1.390 -0.472 C13 O6K 37 
O6K C14 C26 C 0 1 Y N N N N N 13.730 5.087  18.915 -5.822 -1.485 0.933  C14 O6K 38 
O6K C28 C27 C 0 1 Y N N N N N 13.937 3.812  19.442 -7.074 -0.980 1.229  C28 O6K 39 
O6K C26 C28 C 0 1 Y N N N N N 15.198 3.215  19.371 -7.567 -1.067 2.517  C26 O6K 40 
O6K C25 C29 C 0 1 Y N N N N N 16.267 3.890  18.768 -6.809 -1.660 3.509  C25 O6K 41 
O6K C23 C30 C 0 1 Y N N N N N 16.070 5.166  18.238 -5.557 -2.165 3.213  C23 O6K 42 
O6K C15 C31 C 0 1 Y N N N N N 14.805 5.757  18.314 -5.066 -2.084 1.923  C15 O6K 43 
O6K H1  H1  H 0 1 N N N N N N 11.993 -8.024 23.199 7.329  1.764  2.523  H1  O6K 44 
O6K H2  H2  H 0 1 N N N N N N 10.527 -8.845 22.563 7.367  3.079  1.324  H2  O6K 45 
O6K H3  H3  H 0 1 N N N N N N 12.159 -9.466 22.141 5.906  2.077  1.500  H3  O6K 46 
O6K H4  H4  H 0 1 N N N N N N 9.966  -8.663 20.087 9.451  0.408  -0.218 H4  O6K 47 
O6K H5  H5  H 0 1 N N N N N N 11.018 -7.682 19.011 9.437  2.104  0.321  H5  O6K 48 
O6K H6  H6  H 0 1 N N N N N N 11.603 -9.256 19.647 9.399  0.789  1.520  H6  O6K 49 
O6K H7  H7  H 0 1 N N N N N N 13.488 -6.736 21.615 5.980  1.543  -0.940 H7  O6K 50 
O6K H8  H8  H 0 1 N N N N N N 13.617 -8.155 20.521 7.441  2.544  -1.115 H8  O6K 51 
O6K H9  H9  H 0 1 N N N N N N 13.031 -6.580 19.885 7.455  0.848  -1.654 H9  O6K 52 
O6K H10 H10 H 0 1 N N N N N N 9.694  -4.338 21.589 5.765  -2.386 1.124  H10 O6K 53 
O6K H11 H11 H 0 1 N N N N N N 11.864 -3.986 24.592 3.864  -2.517 3.116  H11 O6K 54 
O6K H12 H12 H 0 1 N N N N N N 12.018 -1.826 25.754 1.394  -2.776 3.265  H12 O6K 55 
O6K H13 H13 H 0 1 N N N N N N 10.740 0.104  24.964 -0.005 -2.182 1.375  H13 O6K 56 
O6K H14 H14 H 0 1 N N N N N N 8.140  -0.037 22.495 1.358  -0.889 -1.804 H14 O6K 57 
O6K H15 H15 H 0 1 N N N N N N 10.004 1.758  24.126 -0.575 -2.896 -0.561 H15 O6K 58 
O6K H16 H16 H 0 1 N N N N N N 8.482  2.269  23.319 -0.744 -2.208 -2.194 H16 O6K 59 
O6K H17 H17 H 0 1 N N N N N N 8.554  0.093  25.566 1.937  -3.518 -1.528 H17 O6K 60 
O6K H18 H18 H 0 1 N N N N N N 7.605  3.110  25.635 0.978  -5.778 -2.167 H18 O6K 61 
O6K H19 H19 H 0 1 N N N N N N 7.337  1.904  26.939 -0.715 -5.048 -2.208 H19 O6K 62 
O6K H20 H20 H 0 1 N N N N N N 6.269  1.597  23.961 0.027  -3.430 -4.015 H20 O6K 63 
O6K H21 H21 H 0 1 N N N N N N 6.001  0.391  25.265 1.720  -4.160 -3.973 H21 O6K 64 
O6K H22 H22 H 0 1 N N N N N N 8.201  1.323  20.681 -1.191 -0.085 -2.316 H22 O6K 65 
O6K H23 H23 H 0 1 N N N N N N 10.877 1.590  19.429 -2.289 1.327  -0.024 H23 O6K 66 
O6K H24 H24 H 0 1 N N N N N N 9.593  1.735  17.212 -0.293 2.711  -0.625 H24 O6K 67 
O6K H25 H25 H 0 1 N N N N N N 8.150  1.139  18.101 -0.941 2.889  -2.273 H25 O6K 68 
O6K H26 H26 H 0 1 N N N N N N 9.590  -0.740 18.957 -3.011 3.939  -1.312 H26 O6K 69 
O6K H27 H27 H 0 1 N N N N N N 10.031 -2.558 15.651 -1.566 4.781  2.366  H27 O6K 70 
O6K H28 H28 H 0 1 N N N N N N 11.665 -2.484 17.808 -0.675 6.481  0.770  H28 O6K 71 
O6K H29 H29 H 0 1 N N N N N N 12.290 -1.687 16.324 0.320  5.018  0.507  H29 O6K 72 
O6K H30 H30 H 0 1 N N N N N N 11.852 -0.275 18.644 -0.544 5.178  -1.679 H30 O6K 73 
O6K H31 H31 H 0 1 N N N N N N 11.594 0.462  17.026 -2.005 6.070  -1.138 H31 O6K 74 
O6K H34 H34 H 0 1 N N N N N N 11.241 4.849  20.527 -4.467 0.478  0.120  H34 O6K 75 
O6K H35 H35 H 0 1 N N N N N N 12.448 6.653  19.643 -6.111 -1.414 -1.181 H35 O6K 76 
O6K H36 H36 H 0 1 N N N N N N 12.068 6.084  17.982 -4.617 -2.231 -0.663 H36 O6K 77 
O6K H37 H37 H 0 1 N N N N N N 13.118 3.284  19.907 -7.666 -0.516 0.454  H37 O6K 78 
O6K H38 H38 H 0 1 N N N N N N 15.349 2.228  19.783 -8.545 -0.671 2.749  H38 O6K 79 
O6K H39 H39 H 0 1 N N N N N N 17.240 3.425  18.713 -7.194 -1.727 4.516  H39 O6K 80 
O6K H40 H40 H 0 1 N N N N N N 16.889 5.694  17.772 -4.966 -2.633 3.987  H40 O6K 81 
O6K H41 H41 H 0 1 N N N N N N 14.654 6.744  17.904 -4.088 -2.479 1.692  H41 O6K 82 
O6K H32 H32 H 0 1 N N N N N N 8.569  3.563  19.367 -3.850 2.295  -1.691 H32 O6K 83 
O6K H33 H33 H 0 1 N N N N N N 9.352  3.329  21.620 -2.223 0.893  -3.645 H33 O6K 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 
O6K N49 C47 SING N N 1  
O6K N49 C51 SING N N 2  
O6K O48 C47 DOUB N N 3  
O6K C47 C45 SING N N 4  
O6K C51 C54 SING N N 5  
O6K O41 C35 DOUB N N 6  
O6K C54 C45 SING N N 7  
O6K C45 C42 SING N N 8  
O6K C42 C40 SING N N 9  
O6K C23 C15 DOUB Y N 10 
O6K C23 C25 SING Y N 11 
O6K C15 C14 SING Y N 12 
O6K C25 C26 DOUB Y N 13 
O6K C35 N36 SING N N 14 
O6K C35 C57 SING N N 15 
O6K C14 C13 SING N N 16 
O6K C14 C28 DOUB Y N 17 
O6K C13 N36 SING N N 18 
O6K C26 C28 SING Y N 19 
O6K C40 C57 SING N N 20 
O6K C40 N38 SING N N 21 
O6K C57 O40 SING N N 22 
O6K C32 C27 SING N N 23 
O6K N38 C36 SING N N 24 
O6K C33 C27 SING N N 25 
O6K C27 O25 SING N N 26 
O6K C27 C31 SING N N 27 
O6K O25 C24 SING N N 28 
O6K O37 C36 DOUB N N 29 
O6K O22 C21 DOUB N N 30 
O6K C36 C20 SING N N 31 
O6K N23 C24 SING N N 32 
O6K N23 C19 SING N N 33 
O6K C24 O26 DOUB N N 34 
O6K C21 C19 SING N N 35 
O6K C21 N15 SING N N 36 
O6K C20 N15 SING N N 37 
O6K C20 C22 SING N N 38 
O6K C19 C18 DOUB N N 39 
O6K N15 C16 SING N N 40 
O6K C22 C29 SING N N 41 
O6K C18 C17 SING N N 42 
O6K C16 C17 DOUB N N 43 
O6K C30 C29 SING N N 44 
O6K C30 C34 SING N N 45 
O6K C29 C34 SING N N 46 
O6K C31 H1  SING N N 47 
O6K C31 H2  SING N N 48 
O6K C31 H3  SING N N 49 
O6K C32 H4  SING N N 50 
O6K C32 H5  SING N N 51 
O6K C32 H6  SING N N 52 
O6K C33 H7  SING N N 53 
O6K C33 H8  SING N N 54 
O6K C33 H9  SING N N 55 
O6K N23 H10 SING N N 56 
O6K C18 H11 SING N N 57 
O6K C17 H12 SING N N 58 
O6K C16 H13 SING N N 59 
O6K C20 H14 SING N N 60 
O6K C22 H15 SING N N 61 
O6K C22 H16 SING N N 62 
O6K C29 H17 SING N N 63 
O6K C34 H18 SING N N 64 
O6K C34 H19 SING N N 65 
O6K C30 H20 SING N N 66 
O6K C30 H21 SING N N 67 
O6K N38 H22 SING N N 68 
O6K C40 H23 SING N N 69 
O6K C42 H24 SING N N 70 
O6K C42 H25 SING N N 71 
O6K C45 H26 SING N N 72 
O6K N49 H27 SING N N 73 
O6K C51 H28 SING N N 74 
O6K C51 H29 SING N N 75 
O6K C54 H30 SING N N 76 
O6K C54 H31 SING N N 77 
O6K N36 H34 SING N N 78 
O6K C13 H35 SING N N 79 
O6K C13 H36 SING N N 80 
O6K C28 H37 SING N N 81 
O6K C26 H38 SING N N 82 
O6K C25 H39 SING N N 83 
O6K C23 H40 SING N N 84 
O6K C15 H41 SING N N 85 
O6K C57 H32 SING N N 86 
O6K O40 H33 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 
O6K 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" 
O6K InChIKey         InChI                1.06  FRACPXUHUTXLCX-BELIEFIBSA-N                                                                                                                                                                                                                                         
O6K 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"                                                                                                                                                                  
O6K 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"                                                                                                                                                                          
O6K 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"                                                                                                                                                                   
O6K 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           O6K 
_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~{S})-3-cyclopropyl-1-oxidanylidene-1-[[(2~{S},3~{R})-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 O6K "(S,S,S)-13b"                     AUTHOR ? 
2 O6K 13b-K                             AUTHOR ? 
3 O6K "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 
O6K "Create component" 2020-02-17 PDBE 
O6K "Initial release"  2020-03-04 RCSB 
O6K "Modify synonyms"  2023-02-28 PDBE 
O6K "Modify synonyms"  2023-08-13 PDBE 
O6K "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            O6K 
_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               C57 
_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      ? 
# 
