data_Y9C
# 
_chem_comp.id                                    Y9C 
_chem_comp.name                                  "(2E)-1-[(3aR,3bS,6aR,6bS)-5-(1H-benzotriazole-5-carbonyl)octahydrocyclobuta[1,2-c:3,4-c']dipyrrol-2(1H)-yl]-3-[4-(trifluoromethoxy)phenyl]prop-2-en-1-one" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C25 H22 F3 N5 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-12 
_chem_comp.pdbx_modified_date                    2024-12-13 
_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                        497.469 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y9C 
_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        7G4D 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              ? 
# 
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 
Y9C C10 C1  C 0 1 N N N N N N -10.661 11.163 51.360 3.663  -0.178 -0.020 C10 Y9C 1  
Y9C C15 C2  C 0 1 N N N N N N -14.822 7.837  47.838 -1.732 -2.789 -0.752 C15 Y9C 2  
Y9C C17 C3  C 0 1 N N N N N N -13.895 7.032  47.035 -2.851 -1.870 -0.550 C17 Y9C 3  
Y9C C18 C4  C 0 1 N N N N N N -14.214 5.821  46.519 -4.102 -2.353 -0.390 C18 Y9C 4  
Y9C C19 C5  C 0 1 Y N N N N N -13.264 5.046  45.744 -5.227 -1.429 -0.187 C19 Y9C 5  
Y9C C21 C6  C 0 1 Y N N N N N -12.443 2.922  44.907 -7.574 -1.058 0.168  C21 Y9C 6  
Y9C C26 C7  C 0 1 N N N N N N -10.736 2.317  42.456 -8.085 2.563  0.394  C26 Y9C 7  
Y9C C30 C8  C 0 1 N N N N N N -10.206 13.363 52.618 5.611  -1.037 1.293  C30 Y9C 8  
Y9C N01 N1  N 0 1 N N N N N N -14.304 9.012  48.252 -0.484 -2.307 -0.911 N01 Y9C 9  
Y9C C02 C9  C 0 1 N N N N N N -14.908 10.240 49.171 0.720  -3.120 -1.120 C02 Y9C 10 
Y9C C03 C10 C 0 1 N N S N N N -13.583 10.782 49.918 1.925  -2.220 -0.792 C03 Y9C 11 
Y9C C04 C11 C 0 1 N N R N N N -12.310 10.018 49.292 1.408  -0.791 -1.086 C04 Y9C 12 
Y9C C05 C12 C 0 1 N N N N N N -12.809 9.426  47.873 -0.116 -0.887 -0.902 C05 Y9C 13 
Y9C C06 C13 C 0 1 N N S N N N -12.523 12.089 50.168 2.006  -1.807 0.683  C06 Y9C 14 
Y9C C07 C14 C 0 1 N N R N N N -11.263 11.112 50.071 2.146  -0.347 0.188  C07 Y9C 15 
Y9C C08 C15 C 0 1 N N N N N N -12.292 12.947 51.203 3.358  -2.121 1.345  C08 Y9C 16 
Y9C N09 N2  N 0 1 N N N N N N -10.997 12.522 51.773 4.322  -1.107 0.906  N09 Y9C 17 
Y9C O16 O1  O 0 1 N N N N N N -15.985 7.577  48.175 -1.928 -3.991 -0.776 O16 Y9C 18 
Y9C C20 C16 C 0 1 Y N N N N N -13.380 3.648  45.637 -6.524 -1.928 -0.022 C20 Y9C 19 
Y9C C22 C17 C 0 1 Y N N N N N -11.388 3.609  44.279 -7.348 0.313  0.195  C22 Y9C 20 
Y9C C23 C18 C 0 1 Y N N N N N -11.265 4.992  44.385 -6.060 0.813  0.037  C23 Y9C 21 
Y9C C24 C19 C 0 1 Y N N N N N -12.200 5.699  45.124 -5.003 -0.048 -0.153 C24 Y9C 22 
Y9C O25 O2  O 0 1 N N N N N N -10.410 2.953  43.553 -8.387 1.167  0.377  O25 Y9C 23 
Y9C F27 F1  F 0 1 N N N N N N -11.894 1.722  42.611 -7.505 2.930  -0.825 F27 Y9C 24 
Y9C F28 F2  F 0 1 N N N N N N -10.805 3.223  41.544 -9.262 3.293  0.589  F28 Y9C 25 
Y9C F29 F3  F 0 1 N N N N N N -9.775  1.480  42.168 -7.190 2.834  1.435  F29 Y9C 26 
Y9C C31 C20 C 0 1 Y N N N N N -8.877  12.858 53.221 6.456  0.090  0.849  C31 Y9C 27 
Y9C O32 O3  O 0 1 N N N N N N -10.669 14.461 52.847 6.078  -1.903 2.007  O32 Y9C 28 
Y9C C33 C21 C 0 1 Y N N N N N -8.734  11.510 53.630 7.539  0.503  1.638  C33 Y9C 29 
Y9C C34 C22 C 0 1 Y N N N N N -7.526  11.065 54.194 8.327  1.542  1.240  C34 Y9C 30 
Y9C C35 C23 C 0 1 Y N N N N N -7.801  13.732 53.399 6.177  0.734  -0.350 C35 Y9C 31 
Y9C C36 C24 C 0 1 Y N N N N N -6.582  13.288 53.983 6.981  1.799  -0.764 C36 Y9C 32 
Y9C C37 C25 C 0 1 Y N N N N N -6.427  11.964 54.377 8.060  2.204  0.043  C37 Y9C 33 
Y9C N38 N3  N 0 1 Y N N N N N -5.147  11.816 54.902 8.652  3.255  -0.612 N38 Y9C 34 
Y9C N39 N4  N 0 1 Y N N N N N -4.538  13.028 54.833 7.916  3.462  -1.787 N39 Y9C 35 
Y9C N40 N5  N 0 1 Y N N N N N -5.421  13.949 54.261 6.961  2.603  -1.854 N40 Y9C 36 
Y9C H1  H1  H 0 1 N N N N N N -11.097 10.415 52.039 3.928  -0.426 -1.048 H1  Y9C 37 
Y9C H2  H2  H 0 1 N N N N N N -9.572  11.016 51.303 3.959  0.846  0.205  H2  Y9C 38 
Y9C H3  H3  H 0 1 N N N N N N -12.907 7.425  46.845 -2.678 -0.804 -0.528 H3  Y9C 39 
Y9C H4  H4  H 0 1 N N N N N N -15.203 5.422  46.689 -4.275 -3.419 -0.412 H4  Y9C 40 
Y9C H5  H5  H 0 1 N N N N N N -12.525 1.848  44.824 -8.576 -1.442 0.291  H5  Y9C 41 
Y9C H6  H6  H 0 1 N N N N N N -15.362 11.022 48.545 0.707  -3.983 -0.455 H6  Y9C 42 
Y9C H7  H7  H 0 1 N N N N N N -15.651 9.871  49.893 0.772  -3.448 -2.158 H7  Y9C 43 
Y9C H8  H8  H 0 1 N N N N N N -13.667 10.347 50.925 2.860  -2.510 -1.273 H8  Y9C 44 
Y9C H9  H9  H 0 1 N N N N N N -12.224 9.119  49.921 1.730  -0.338 -2.024 H9  Y9C 45 
Y9C H10 H10 H 0 1 N N N N N N -12.212 8.556  47.561 -0.620 -0.371 -1.719 H10 Y9C 46 
Y9C H11 H11 H 0 1 N N N N N N -12.786 10.190 47.082 -0.401 -0.439 0.050  H11 Y9C 47 
Y9C H12 H12 H 0 1 N N N N N N -12.542 12.659 49.227 1.126  -2.031 1.287  H12 Y9C 48 
Y9C H13 H13 H 0 1 N N N N N N -10.577 11.506 49.306 1.666  0.435  0.777  H13 Y9C 49 
Y9C H14 H14 H 0 1 N N N N N N -12.232 13.984 50.840 3.255  -2.087 2.429  H14 Y9C 50 
Y9C H15 H15 H 0 1 N N N N N N -13.090 12.868 51.956 3.698  -3.110 1.037  H15 Y9C 51 
Y9C H16 H16 H 0 1 N N N N N N -14.198 3.137  46.122 -6.701 -2.993 -0.043 H16 Y9C 52 
Y9C H17 H17 H 0 1 N N N N N N -10.451 5.507  43.897 -5.890 1.880  0.058  H17 Y9C 53 
Y9C H18 H18 H 0 1 N N N N N N -12.103 6.770  45.221 -4.003 0.342  -0.276 H18 Y9C 54 
Y9C H19 H19 H 0 1 N N N N N N -9.557  10.821 53.508 7.751  -0.005 2.567  H19 Y9C 55 
Y9C H20 H20 H 0 1 N N N N N N -7.426  10.032 54.493 9.159  1.853  1.853  H20 Y9C 56 
Y9C H21 H21 H 0 1 N N N N N N -7.896  14.762 53.088 5.345  0.412  -0.959 H21 Y9C 57 
Y9C H22 H22 H 0 1 N N N N N N -4.749  10.973 55.263 9.428  3.757  -0.318 H22 Y9C 58 
# 
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 
Y9C N01 C02 SING N N 1  
Y9C N01 C05 SING N N 2  
Y9C N01 C15 SING N N 3  
Y9C C02 C03 SING N N 4  
Y9C C03 C04 SING N N 5  
Y9C C03 C06 SING N N 6  
Y9C C04 C05 SING N N 7  
Y9C C04 C07 SING N N 8  
Y9C C06 C07 SING N N 9  
Y9C C06 C08 SING N N 10 
Y9C C07 C10 SING N N 11 
Y9C C08 N09 SING N N 12 
Y9C N09 C10 SING N N 13 
Y9C N09 C30 SING N N 14 
Y9C C15 O16 DOUB N N 15 
Y9C C15 C17 SING N N 16 
Y9C C17 C18 DOUB N E 17 
Y9C C18 C19 SING N N 18 
Y9C C19 C20 DOUB Y N 19 
Y9C C19 C24 SING Y N 20 
Y9C C20 C21 SING Y N 21 
Y9C C21 C22 DOUB Y N 22 
Y9C C22 C23 SING Y N 23 
Y9C C22 O25 SING N N 24 
Y9C C23 C24 DOUB Y N 25 
Y9C O25 C26 SING N N 26 
Y9C C26 F27 SING N N 27 
Y9C C26 F28 SING N N 28 
Y9C C26 F29 SING N N 29 
Y9C C30 C31 SING N N 30 
Y9C C30 O32 DOUB N N 31 
Y9C C31 C33 DOUB Y N 32 
Y9C C31 C35 SING Y N 33 
Y9C C33 C34 SING Y N 34 
Y9C C34 C37 DOUB Y N 35 
Y9C C35 C36 DOUB Y N 36 
Y9C C36 C37 SING Y N 37 
Y9C C36 N40 SING Y N 38 
Y9C C37 N38 SING Y N 39 
Y9C N38 N39 SING Y N 40 
Y9C N39 N40 DOUB Y N 41 
Y9C C10 H1  SING N N 42 
Y9C C10 H2  SING N N 43 
Y9C C17 H3  SING N N 44 
Y9C C18 H4  SING N N 45 
Y9C C21 H5  SING N N 46 
Y9C C02 H6  SING N N 47 
Y9C C02 H7  SING N N 48 
Y9C C03 H8  SING N N 49 
Y9C C04 H9  SING N N 50 
Y9C C05 H10 SING N N 51 
Y9C C05 H11 SING N N 52 
Y9C C06 H12 SING N N 53 
Y9C C07 H13 SING N N 54 
Y9C C08 H14 SING N N 55 
Y9C C08 H15 SING N N 56 
Y9C C20 H16 SING N N 57 
Y9C C23 H17 SING N N 58 
Y9C C24 H18 SING N N 59 
Y9C C33 H19 SING N N 60 
Y9C C34 H20 SING N N 61 
Y9C C35 H21 SING N N 62 
Y9C N38 H22 SING N N 63 
# 
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 
Y9C SMILES           ACDLabs              12.01 "FC(F)(F)Oc1ccc(cc1)/C=C/C(=O)N1CC2C3CN(CC3C2C1)C(=O)c1cc2nn[NH]c2cc1"                                                                                                                                
Y9C InChI            InChI                1.06  "InChI=1S/C25H22F3N5O3/c26-25(27,28)36-16-5-1-14(2-6-16)3-8-23(34)32-10-17-18(11-32)20-13-33(12-19(17)20)24(35)15-4-7-21-22(9-15)30-31-29-21/h1-9,17-20H,10-13H2,(H,29,30,31)/b8-3+/t17-,18+,19+,20-" 
Y9C InChIKey         InChI                1.06  RNTVVANWEGFYEA-FQNXGMEXSA-N                                                                                                                                                                           
Y9C SMILES_CANONICAL CACTVS               3.385 "FC(F)(F)Oc1ccc(/C=C/C(=O)N2C[C@H]3[C@@H](C2)[C@@H]4CN(C[C@H]34)C(=O)c5ccc6[nH]nnc6c5)cc1"                                                                                                            
Y9C SMILES           CACTVS               3.385 "FC(F)(F)Oc1ccc(C=CC(=O)N2C[CH]3[CH](C2)[CH]4CN(C[CH]34)C(=O)c5ccc6[nH]nnc6c5)cc1"                                                                                                                    
Y9C SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(ccc1/C=C/C(=O)N2C[C@@H]3[C@H](C2)[C@@H]4[C@H]3CN(C4)C(=O)c5ccc6c(c5)nn[nH]6)OC(F)(F)F"                                                                                                          
Y9C SMILES           "OpenEye OEToolkits" 2.0.7 "c1cc(ccc1C=CC(=O)N2CC3C(C2)C4C3CN(C4)C(=O)c5ccc6c(c5)nn[nH]6)OC(F)(F)F"                                                                                                                              
# 
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 
Y9C "SYSTEMATIC NAME" ACDLabs              12.01 "(2E)-1-[(3aR,3bS,6aR,6bS)-5-(1H-benzotriazole-5-carbonyl)octahydrocyclobuta[1,2-c:3,4-c']dipyrrol-2(1H)-yl]-3-[4-(trifluoromethoxy)phenyl]prop-2-en-1-one"           
Y9C "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(~{E})-1-[(1~{R},2~{S},6~{R},7~{S})-9-(1~{H}-benzotriazol-5-ylcarbonyl)-4,9-diazatricyclo[5.3.0.0^{2,6}]decan-4-yl]-3-[4-(trifluoromethyloxy)phenyl]prop-2-en-1-one" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
Y9C "Create component" 2023-06-12 RCSB 
Y9C "Initial release"  2024-12-18 RCSB 
# 
