data_K9R
# 
_chem_comp.id                                    K9R 
_chem_comp.name                                  "5-[(3~{a}~{S},4~{S},6~{a}~{R})-2-oxidanylidene-1,3,3~{a},4,6,6~{a}-hexahydrothieno[3,4-d]imidazol-4-yl]-~{N}-[(1~{R},3~{S})-3-[3,5-bis(sulfanylmethyl)phenyl]-2,4-bis(oxidanylidene)cyclopentyl]pentanamide" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C23 H29 N3 O4 S3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-05-23 
_chem_comp.pdbx_modified_date                    2022-08-22 
_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                        507.689 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     K9R 
_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        7ZXZ 
_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 
K9R N1  N1  N 0 1 N N N 31.439 -5.360 7.521  -8.682 0.444  -0.538 N1  K9R 1  
K9R C7  C1  C 0 1 N N N 35.096 -3.187 13.179 -2.108 -0.846 -0.269 C7  K9R 2  
K9R C8  C2  C 0 1 N N N 36.501 -3.049 13.696 -0.902 -1.118 0.633  C8  K9R 3  
K9R N2  N2  N 0 1 N N N 38.276 -4.612 14.169 1.268  -2.295 0.479  N2  K9R 4  
K9R C9  C3  C 0 1 N N N 36.989 -4.328 14.360 0.116  -1.934 -0.120 C9  K9R 5  
K9R O1  O1  O 0 1 N N N 38.924 -4.961 16.912 2.917  -1.655 -2.105 O1  K9R 6  
K9R C1  C4  C 0 1 N N S 32.366 -5.762 9.628  -6.552 1.479  -0.560 C1  K9R 7  
K9R C5  C5  C 0 1 N N N 33.737 -4.398 11.393 -4.347 0.254  -0.406 C5  K9R 8  
K9R C6  C6  C 0 1 N N N 35.081 -4.038 11.915 -3.141 -0.018 0.496  C6  K9R 9  
K9R C4  C7  C 0 1 N N S 33.746 -5.192 10.063 -5.380 1.082  0.359  C4  K9R 10 
K9R C3  C8  C 0 1 N N N 33.835 -5.863 7.631  -7.759 1.061  1.653  C3  K9R 11 
K9R O3  O2  O 0 1 N N N 36.236 -5.079 15.040 -0.101 -2.266 -1.266 O3  K9R 12 
K9R C2  C9  C 0 1 N N R 32.447 -6.188 8.129  -7.899 1.467  0.172  C2  K9R 13 
K9R N   N3  N 0 1 N N N 31.318 -4.773 9.595  -6.709 0.461  -1.611 N   K9R 14 
K9R S   S1  S 0 1 N N N 34.386 -4.418 8.542  -6.205 0.065  1.651  S   K9R 15 
K9R C   C10 C 0 1 N N N 30.815 -4.564 8.382  -7.936 -0.070 -1.525 C   K9R 16 
K9R O   O3  O 0 1 N N N 29.931 -3.746 8.111  -8.336 -0.940 -2.275 O   K9R 17 
K9R C10 C11 C 0 1 N N R 38.882 -5.838 14.647 2.257  -3.089 -0.254 C10 K9R 18 
K9R C21 C12 C 0 1 N N N 38.234 -7.134 14.147 3.174  -3.839 0.732  C21 K9R 19 
K9R C22 C13 C 0 1 N N N 37.830 -7.886 15.386 4.327  -2.886 0.984  C22 K9R 20 
K9R O2  O4  O 0 1 N N N 37.339 -9.002 15.420 4.999  -2.807 1.984  O2  K9R 21 
K9R C12 C14 C 0 1 N N S 38.305 -7.183 16.512 4.465  -2.056 -0.274 C12 K9R 22 
K9R C11 C15 C 0 1 N N N 38.688 -5.871 16.150 3.172  -2.181 -1.048 C11 K9R 23 
K9R C13 C16 C 0 1 Y N N 37.702 -7.294 17.908 4.706  -0.614 0.090  C13 K9R 24 
K9R C20 C17 C 0 1 Y N N 36.355 -7.576 18.081 5.848  0.028  -0.350 C20 K9R 25 
K9R C18 C18 C 0 1 Y N N 35.845 -7.849 19.347 6.069  1.352  -0.016 C18 K9R 26 
K9R C19 C19 C 0 1 N N N 34.403 -8.236 19.514 7.315  2.052  -0.496 C19 K9R 27 
K9R S2  S2  S 0 1 N N N 33.586 -6.659 19.643 6.992  2.827  -2.103 S2  K9R 28 
K9R C17 C20 C 0 1 Y N N 36.690 -7.774 20.448 5.148  2.033  0.757  C17 K9R 29 
K9R C15 C21 C 0 1 Y N N 38.030 -7.437 20.305 4.005  1.391  1.196  C15 K9R 30 
K9R C14 C22 C 0 1 Y N N 38.528 -7.224 19.025 3.782  0.069  0.859  C14 K9R 31 
K9R C16 C23 C 0 1 N N N 38.888 -7.187 21.520 3.001  2.133  2.039  C16 K9R 32 
K9R S1  S3  S 0 1 N N N 40.339 -8.268 21.436 1.775  2.925  0.962  S1  K9R 33 
K9R H6  H1  H 0 1 N N N 31.228 -5.382 6.544  -9.591 0.180  -0.324 H6  K9R 34 
K9R H12 H2  H 0 1 N N N 34.694 -2.189 12.950 -1.784 -0.297 -1.153 H12 K9R 35 
K9R H11 H3  H 0 1 N N N 34.472 -3.667 13.947 -2.554 -1.793 -0.573 H11 K9R 36 
K9R H14 H4  H 0 1 N N N 37.168 -2.808 12.855 -0.456 -0.171 0.937  H14 K9R 37 
K9R H13 H5  H 0 1 N N N 36.530 -2.232 14.432 -1.226 -1.667 1.517  H13 K9R 38 
K9R H15 H6  H 0 1 N N N 38.846 -3.954 13.677 1.442  -2.029 1.396  H15 K9R 39 
K9R H   H7  H 0 1 N N N 32.096 -6.626 10.254 -6.371 2.459  -1.001 H   K9R 40 
K9R H8  H8  H 0 1 N N N 33.172 -3.468 11.232 -4.023 0.803  -1.290 H8  K9R 41 
K9R H7  H9  H 0 1 N N N 33.228 -5.009 12.153 -4.793 -0.693 -0.710 H7  K9R 42 
K9R H10 H10 H 0 1 N N N 35.620 -4.972 12.131 -3.465 -0.567 1.380  H10 K9R 43 
K9R H9  H11 H 0 1 N N N 35.611 -3.482 11.128 -2.695 0.929  0.800  H9  K9R 44 
K9R H2  H12 H 0 1 N N N 34.406 -6.058 10.219 -4.917 1.966  0.798  H2  K9R 45 
K9R H5  H13 H 0 1 N N N 34.512 -6.709 7.817  -7.659 1.942  2.287  H5  K9R 46 
K9R H4  H14 H 0 1 N N N 33.809 -5.644 6.553  -8.606 0.451  1.968  H4  K9R 47 
K9R H1  H15 H 0 1 N N N 32.227 -7.260 8.021  -8.387 2.438  0.092  H1  K9R 48 
K9R H3  H16 H 0 1 N N N 30.999 -4.289 10.409 -6.033 0.214  -2.261 H3  K9R 49 
K9R H16 H17 H 0 1 N N N 39.957 -5.854 14.413 1.757  -3.794 -0.917 H16 K9R 50 
K9R H28 H18 H 0 1 N N N 37.352 -6.909 13.529 2.643  -4.048 1.661  H28 K9R 51 
K9R H27 H19 H 0 1 N N N 38.954 -7.722 13.558 3.536  -4.765 0.284  H27 K9R 52 
K9R H17 H20 H 0 1 N N N 39.283 -7.661 16.674 5.295  -2.430 -0.874 H17 K9R 53 
K9R H26 H21 H 0 1 N N N 35.696 -7.584 17.226 6.568  -0.504 -0.954 H26 K9R 54 
K9R H23 H22 H 0 1 N N N 34.040 -8.800 18.642 7.602  2.817  0.226  H23 K9R 55 
K9R H24 H23 H 0 1 N N N 34.256 -8.834 20.425 8.123  1.327  -0.597 H24 K9R 56 
K9R H25 H24 H 0 1 N N N 32.342 -7.010 19.787 8.170  3.404  -2.403 H25 K9R 57 
K9R H22 H25 H 0 1 N N N 36.298 -7.982 21.433 5.320  3.067  1.017  H22 K9R 58 
K9R H18 H26 H 0 1 N N N 39.576 -7.000 18.895 2.887  -0.432 1.199  H18 K9R 59 
K9R H19 H27 H 0 1 N N N 39.210 -6.135 21.536 2.499  1.433  2.708  H19 K9R 60 
K9R H20 H28 H 0 1 N N N 38.313 -7.409 22.431 3.512  2.894  2.628  H20 K9R 61 
K9R H21 H29 H 0 1 N N N 40.976 -7.951 22.524 0.957  3.539  1.835  H21 K9R 62 
# 
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 
K9R N1  C2  SING N N 1  
K9R N1  C   SING N N 2  
K9R C3  C2  SING N N 3  
K9R C3  S   SING N N 4  
K9R O   C   DOUB N N 5  
K9R C2  C1  SING N N 6  
K9R C   N   SING N N 7  
K9R S   C4  SING N N 8  
K9R N   C1  SING N N 9  
K9R C1  C4  SING N N 10 
K9R C4  C5  SING N N 11 
K9R C5  C6  SING N N 12 
K9R C6  C7  SING N N 13 
K9R C7  C8  SING N N 14 
K9R C8  C9  SING N N 15 
K9R C21 C10 SING N N 16 
K9R C21 C22 SING N N 17 
K9R N2  C9  SING N N 18 
K9R N2  C10 SING N N 19 
K9R C9  O3  DOUB N N 20 
K9R C10 C11 SING N N 21 
K9R C22 O2  DOUB N N 22 
K9R C22 C12 SING N N 23 
K9R C11 C12 SING N N 24 
K9R C11 O1  DOUB N N 25 
K9R C12 C13 SING N N 26 
K9R C13 C20 DOUB Y N 27 
K9R C13 C14 SING Y N 28 
K9R C20 C18 SING Y N 29 
K9R C14 C15 DOUB Y N 30 
K9R C18 C19 SING N N 31 
K9R C18 C17 DOUB Y N 32 
K9R C19 S2  SING N N 33 
K9R C15 C17 SING Y N 34 
K9R C15 C16 SING N N 35 
K9R S1  C16 SING N N 36 
K9R N1  H6  SING N N 37 
K9R C7  H12 SING N N 38 
K9R C7  H11 SING N N 39 
K9R C8  H14 SING N N 40 
K9R C8  H13 SING N N 41 
K9R N2  H15 SING N N 42 
K9R C1  H   SING N N 43 
K9R C5  H8  SING N N 44 
K9R C5  H7  SING N N 45 
K9R C6  H10 SING N N 46 
K9R C6  H9  SING N N 47 
K9R C4  H2  SING N N 48 
K9R C3  H5  SING N N 49 
K9R C3  H4  SING N N 50 
K9R C2  H1  SING N N 51 
K9R N   H3  SING N N 52 
K9R C10 H16 SING N N 53 
K9R C21 H28 SING N N 54 
K9R C21 H27 SING N N 55 
K9R C12 H17 SING N N 56 
K9R C20 H26 SING N N 57 
K9R C19 H23 SING N N 58 
K9R C19 H24 SING N N 59 
K9R S2  H25 SING N N 60 
K9R C17 H22 SING N N 61 
K9R C14 H18 SING N N 62 
K9R C16 H19 SING N N 63 
K9R C16 H20 SING N N 64 
K9R S1  H21 SING N N 65 
# 
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 
K9R InChI            InChI                1.06  "InChI=1S/C23H29N3O4S3/c27-17-8-15(22(29)20(17)14-6-12(9-31)5-13(7-14)10-32)24-19(28)4-2-1-3-18-21-16(11-33-18)25-23(30)26-21/h5-7,15-16,18,20-21,31-32H,1-4,8-11H2,(H,24,28)(H2,25,26,30)/t15-,16+,18+,20+,21+/m1/s1" 
K9R InChIKey         InChI                1.06  UYYZXEJGUBQKBA-JSCGBJRHSA-N                                                                                                                                                                                            
K9R SMILES_CANONICAL CACTVS               3.385 "SCc1cc(CS)cc(c1)[C@H]2C(=O)C[C@@H](NC(=O)CCCC[C@@H]3SC[C@@H]4NC(=O)N[C@H]34)C2=O"                                                                                                                                     
K9R SMILES           CACTVS               3.385 "SCc1cc(CS)cc(c1)[CH]2C(=O)C[CH](NC(=O)CCCC[CH]3SC[CH]4NC(=O)N[CH]34)C2=O"                                                                                                                                             
K9R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1c(cc(cc1CS)[C@H]2C(=O)C[C@H](C2=O)NC(=O)CCCC[C@H]3[C@@H]4[C@H](CS3)NC(=O)N4)CS"                                                                                                                                     
K9R SMILES           "OpenEye OEToolkits" 2.0.7 "c1c(cc(cc1CS)C2C(=O)CC(C2=O)NC(=O)CCCCC3C4C(CS3)NC(=O)N4)CS"                                                                                                                                                          
# 
_pdbx_chem_comp_identifier.comp_id           K9R 
_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        "5-[(3~{a}~{S},4~{S},6~{a}~{R})-2-oxidanylidene-1,3,3~{a},4,6,6~{a}-hexahydrothieno[3,4-d]imidazol-4-yl]-~{N}-[(1~{R},3~{S})-3-[3,5-bis(sulfanylmethyl)phenyl]-2,4-bis(oxidanylidene)cyclopentyl]pentanamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
K9R "Create component"  2022-05-23 PDBE 
K9R "Initial release"   2022-06-15 RCSB 
K9R "Modify descriptor" 2022-08-22 RCSB 
# 
