data_Y1F
# 
_chem_comp.id                                    Y1F 
_chem_comp.name                                  "[(3aR,8aS)-2-(1H-benzotriazole-5-carbonyl)octahydropyrrolo[3,4-d]azepin-6(1H)-yl]{2-cyclopropyl-6-[(oxan-4-yl)methoxy]pyridin-4-yl}methanone" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C30 H36 N6 O4" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-09 
_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                        544.645 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y1F 
_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        7G7F 
_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 
Y1F C10 C1  C 0 1 N N N N N N -13.100 13.083 51.246 -3.560  1.046  0.064  C10 Y1F 1  
Y1F C13 C2  C 0 1 N N N N N N -14.082 8.830  47.309 1.759   3.164  0.036  C13 Y1F 2  
Y1F C16 C3  C 0 1 Y N N N N N -12.702 9.413  45.332 4.259   3.010  0.111  C16 Y1F 3  
Y1F C17 C4  C 0 1 Y N N N N N -11.995 9.058  44.215 5.406   2.243  0.083  C17 Y1F 4  
Y1F C19 C5  C 0 1 Y N N N N N -12.313 6.802  44.665 4.190   0.294  -0.146 C19 Y1F 5  
Y1F C20 C6  C 0 1 Y N N N N N -13.053 7.008  45.842 2.988   0.989  -0.116 C20 Y1F 6  
Y1F C21 C7  C 0 1 N N N N N N -11.489 10.075 43.238 6.751   2.914  0.197  C21 Y1F 7  
Y1F C22 C8  C 0 1 N N N N N N -10.174 9.830  42.476 7.380   3.460  -1.087 C22 Y1F 8  
Y1F C23 C9  C 0 1 N N N N N N -11.505 9.813  41.706 6.810   4.424  -0.044 C23 Y1F 9  
Y1F C25 C10 C 0 1 N N N N N N -11.423 5.208  43.108 5.448   -1.716 -0.292 C25 Y1F 10 
Y1F C26 C11 C 0 1 N N N N N N -11.389 3.673  43.019 5.237   -3.225 -0.432 C26 Y1F 11 
Y1F C27 C12 C 0 1 N N N N N N -10.782 3.343  41.641 6.593   -3.920 -0.584 C27 Y1F 12 
Y1F C28 C13 C 0 1 N N N N N N -10.707 1.776  41.509 6.377   -5.435 -0.645 C28 Y1F 13 
Y1F C1  C14 C 0 1 N N N N N N -14.560 9.990  49.464 -0.572  3.411  0.603  C1  Y1F 14 
Y1F C2  C15 C 0 1 N N N N N N -13.923 10.921 50.556 -1.637  2.600  -0.109 C2  Y1F 15 
Y1F N3  N1  N 0 1 N N N N N N -13.578 9.585  48.363 0.667   2.669  0.652  N3  Y1F 16 
Y1F C4  C16 C 0 1 N N N N N N -12.117 9.698  48.565 0.759   1.395  1.355  C4  Y1F 17 
Y1F C5  C17 C 0 1 N N N N N N -11.606 11.141 48.180 0.102   0.266  0.621  C5  Y1F 18 
Y1F C6  C18 C 0 1 N N R N N N -13.337 12.215 50.030 -2.203  1.464  0.686  C6  Y1F 19 
Y1F C7  C19 C 0 1 N N S N N N -11.906 12.222 49.275 -1.385  0.194  0.705  C7  Y1F 20 
Y1F C8  C20 C 0 1 N N N N N N -10.944 12.038 50.445 -2.008  -0.675 -0.410 C8  Y1F 21 
Y1F N9  N2  N 0 1 N N N N N N -11.609 12.877 51.498 -3.458  -0.389 -0.264 N9  Y1F 22 
Y1F C14 C21 C 0 1 Y N N N N N -13.240 8.383  46.143 3.015   2.379  0.010  C14 Y1F 23 
Y1F O15 O1  O 0 1 N N N N N N -15.245 8.531  47.337 1.713   4.255  -0.497 O15 Y1F 24 
Y1F N18 N3  N 0 1 Y N N N N N -11.787 7.781  43.885 5.343   0.932  -0.042 N18 Y1F 25 
Y1F O24 O2  O 0 1 N N N N N N -12.157 5.503  44.286 4.180   -1.058 -0.267 O24 Y1F 26 
Y1F O29 O3  O 0 1 N N N N N N -9.773  1.341  42.503 5.695   -5.865 0.534  O29 Y1F 27 
Y1F C30 C22 C 0 1 N N N N N N -10.159 1.595  43.855 4.401   -5.284 0.705  C30 Y1F 28 
Y1F C31 C23 C 0 1 N N N N N N -10.440 3.104  44.104 4.537   -3.763 0.820  C31 Y1F 29 
Y1F C32 C24 C 0 1 N N N N N N -11.028 13.400 52.642 -4.475  -1.263 -0.401 C32 Y1F 30 
Y1F C33 C25 C 0 1 Y N N N N N -9.647  13.043 53.042 -5.872  -0.788 -0.340 C33 Y1F 31 
Y1F O34 O4  O 0 1 N N N N N N -11.654 14.233 53.310 -4.241  -2.444 -0.576 O34 Y1F 32 
Y1F C35 C26 C 0 1 Y N N N N N -9.509  11.678 53.341 -6.164  0.557  -0.609 C35 Y1F 33 
Y1F C36 C27 C 0 1 Y N N N N N -8.312  11.183 53.770 -7.449  1.009  -0.555 C36 Y1F 34 
Y1F C37 C28 C 0 1 Y N N N N N -8.607  14.019 53.151 -6.891  -1.676 -0.021 C37 Y1F 35 
Y1F C38 C29 C 0 1 Y N N N N N -7.366  13.494 53.637 -8.211  -1.219 0.035  C38 Y1F 36 
Y1F C39 C30 C 0 1 Y N N N N N -7.239  12.096 53.924 -8.484  0.136  -0.232 C39 Y1F 37 
Y1F N40 N4  N 0 1 Y N N N N N -5.901  11.911 54.354 -9.843  0.283  -0.100 N40 Y1F 38 
Y1F N41 N5  N 0 1 Y N N N N N -5.291  13.115 54.341 -10.352 -0.977 0.247  N41 Y1F 39 
Y1F N42 N6  N 0 1 Y N N N N N -6.130  14.071 53.928 -9.389  -1.827 0.311  N42 Y1F 40 
Y1F H54 H1  H 0 1 N N N N N N -13.327 14.138 51.034 -4.365  1.208  0.782  H54 Y1F 41 
Y1F H53 H2  H 0 1 N N N N N N -13.701 12.743 52.103 -3.749  1.623  -0.842 H53 Y1F 42 
Y1F H55 H3  H 0 1 N N N N N N -12.846 10.452 45.589 4.321   4.084  0.214  H55 Y1F 43 
Y1F H56 H4  H 0 1 N N N N N N -13.439 6.205  46.453 2.048   0.462  -0.189 H56 Y1F 44 
Y1F H57 H5  H 0 1 N N N N N N -11.665 11.124 43.519 7.422   2.497  0.948  H57 Y1F 45 
Y1F H58 H6  H 0 1 N N N N N N -9.465  10.657 42.326 8.464   3.402  -1.180 H58 Y1F 46 
Y1F H59 H7  H 0 1 N N N N N N -9.618  8.894  42.630 6.820   3.334  -2.014 H59 Y1F 47 
Y1F H61 H8  H 0 1 N N N N N N -11.902 8.865  41.313 5.877   4.932  -0.285 H61 Y1F 48 
Y1F H60 H9  H 0 1 N N N N N N -11.749 10.629 41.010 7.520   5.001  0.549  H60 Y1F 49 
Y1F H63 H10 H 0 1 N N N N N N -11.924 5.633  42.226 5.983   -1.509 0.635  H63 Y1F 50 
Y1F H62 H11 H 0 1 N N N N N N -10.402 5.612  43.180 6.031   -1.351 -1.137 H62 Y1F 51 
Y1F H64 H12 H 0 1 N N N N N N -12.399 3.248  43.118 4.623   -3.427 -1.310 H64 Y1F 52 
Y1F H66 H13 H 0 1 N N N N N N -11.418 3.755  40.844 7.074   -3.584 -1.503 H66 Y1F 53 
Y1F H65 H14 H 0 1 N N N N N N -9.773  3.773  41.564 7.225   -3.677 0.269  H65 Y1F 54 
Y1F H67 H15 H 0 1 N N N N N N -11.695 1.329  41.692 5.779   -5.682 -1.522 H67 Y1F 55 
Y1F H68 H16 H 0 1 N N N N N N -10.357 1.493  40.505 7.343   -5.937 -0.710 H68 Y1F 56 
Y1F H43 H17 H 0 1 N N N N N N -14.928 9.078  49.956 -0.412  4.346  0.067  H43 Y1F 57 
Y1F H44 H18 H 0 1 N N N N N N -15.403 10.523 49.000 -0.902  3.630  1.618  H44 Y1F 58 
Y1F H45 H19 H 0 1 N N N N N N -14.704 11.173 51.288 -2.454  3.269  -0.381 H45 Y1F 59 
Y1F H46 H20 H 0 1 N N N N N N -13.119 10.361 51.056 -1.208  2.198  -1.026 H46 Y1F 60 
Y1F H47 H21 H 0 1 N N N N N N -11.883 9.503  49.622 1.811   1.152  1.502  H47 Y1F 61 
Y1F H48 H22 H 0 1 N N N N N N -11.607 8.955  47.934 0.287   1.500  2.332  H48 Y1F 62 
Y1F H49 H23 H 0 1 N N N N N N -10.518 11.095 48.024 0.378   0.341  -0.431 H49 Y1F 63 
Y1F H50 H24 H 0 1 N N N N N N -12.098 11.447 47.245 0.507   -0.669 1.008  H50 Y1F 64 
Y1F H11 H25 H 0 1 N N N N N N -14.070 12.704 49.372 -2.365  1.790  1.713  H11 Y1F 65 
Y1F H12 H26 H 0 1 N N N N N N -11.756 13.219 48.836 -1.624  -0.315 1.638  H12 Y1F 66 
Y1F H51 H27 H 0 1 N N N N N N -10.877 10.984 50.751 -1.649  -0.364 -1.391 H51 Y1F 67 
Y1F H52 H28 H 0 1 N N N N N N -9.939  12.414 50.204 -1.803  -1.732 -0.238 H52 Y1F 68 
Y1F H70 H29 H 0 1 N N N N N N -11.071 1.022  44.078 3.776   -5.529 -0.155 H70 Y1F 69 
Y1F H69 H30 H 0 1 N N N N N N -9.348  1.269  44.523 3.942   -5.677 1.612  H69 Y1F 70 
Y1F H72 H31 H 0 1 N N N N N N -9.489  3.657  44.078 5.128   -3.516 1.702  H72 Y1F 71 
Y1F H71 H32 H 0 1 N N N N N N -10.908 3.226  45.092 3.547   -3.314 0.905  H71 Y1F 72 
Y1F H73 H33 H 0 1 N N N N N N -10.355 11.016 53.231 -5.365  1.239  -0.860 H73 Y1F 73 
Y1F H74 H34 H 0 1 N N N N N N -8.187  10.132 53.985 -7.664  2.046  -0.764 H74 Y1F 74 
Y1F H75 H35 H 0 1 N N N N N N -8.745  15.058 52.890 -6.666  -2.712 0.181  H75 Y1F 75 
Y1F H76 H36 H 0 1 N N N N N N -5.483  11.042 54.620 -10.351 1.099  -0.223 H76 Y1F 76 
# 
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 
Y1F C1  C2  SING N N 1  
Y1F C1  N3  SING N N 2  
Y1F C2  C6  SING N N 3  
Y1F N3  C4  SING N N 4  
Y1F N3  C13 SING N N 5  
Y1F C4  C5  SING N N 6  
Y1F C5  C7  SING N N 7  
Y1F C6  C7  SING N N 8  
Y1F C6  C10 SING N N 9  
Y1F C7  C8  SING N N 10 
Y1F C8  N9  SING N N 11 
Y1F N9  C10 SING N N 12 
Y1F N9  C32 SING N N 13 
Y1F C13 C14 SING N N 14 
Y1F C13 O15 DOUB N N 15 
Y1F C14 C16 DOUB Y N 16 
Y1F C14 C20 SING Y N 17 
Y1F C16 C17 SING Y N 18 
Y1F C17 N18 DOUB Y N 19 
Y1F C17 C21 SING N N 20 
Y1F N18 C19 SING Y N 21 
Y1F C19 C20 DOUB Y N 22 
Y1F C19 O24 SING N N 23 
Y1F C21 C22 SING N N 24 
Y1F C21 C23 SING N N 25 
Y1F C22 C23 SING N N 26 
Y1F O24 C25 SING N N 27 
Y1F C25 C26 SING N N 28 
Y1F C26 C27 SING N N 29 
Y1F C26 C31 SING N N 30 
Y1F C27 C28 SING N N 31 
Y1F C28 O29 SING N N 32 
Y1F O29 C30 SING N N 33 
Y1F C30 C31 SING N N 34 
Y1F C32 C33 SING N N 35 
Y1F C32 O34 DOUB N N 36 
Y1F C33 C35 DOUB Y N 37 
Y1F C33 C37 SING Y N 38 
Y1F C35 C36 SING Y N 39 
Y1F C36 C39 DOUB Y N 40 
Y1F C37 C38 DOUB Y N 41 
Y1F C38 C39 SING Y N 42 
Y1F C38 N42 SING Y N 43 
Y1F C39 N40 SING Y N 44 
Y1F N40 N41 SING Y N 45 
Y1F N41 N42 DOUB Y N 46 
Y1F C10 H54 SING N N 47 
Y1F C10 H53 SING N N 48 
Y1F C16 H55 SING N N 49 
Y1F C20 H56 SING N N 50 
Y1F C21 H57 SING N N 51 
Y1F C22 H58 SING N N 52 
Y1F C22 H59 SING N N 53 
Y1F C23 H61 SING N N 54 
Y1F C23 H60 SING N N 55 
Y1F C25 H63 SING N N 56 
Y1F C25 H62 SING N N 57 
Y1F C26 H64 SING N N 58 
Y1F C27 H66 SING N N 59 
Y1F C27 H65 SING N N 60 
Y1F C28 H67 SING N N 61 
Y1F C28 H68 SING N N 62 
Y1F C1  H43 SING N N 63 
Y1F C1  H44 SING N N 64 
Y1F C2  H45 SING N N 65 
Y1F C2  H46 SING N N 66 
Y1F C4  H47 SING N N 67 
Y1F C4  H48 SING N N 68 
Y1F C5  H49 SING N N 69 
Y1F C5  H50 SING N N 70 
Y1F C6  H11 SING N N 71 
Y1F C7  H12 SING N N 72 
Y1F C8  H51 SING N N 73 
Y1F C8  H52 SING N N 74 
Y1F C30 H70 SING N N 75 
Y1F C30 H69 SING N N 76 
Y1F C31 H72 SING N N 77 
Y1F C31 H71 SING N N 78 
Y1F C35 H73 SING N N 79 
Y1F C36 H74 SING N N 80 
Y1F C37 H75 SING N N 81 
Y1F N40 H76 SING N N 82 
# 
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 
Y1F SMILES           ACDLabs              12.01 "O=C(c1ccc2[NH]nnc2c1)N1CC2CCN(CCC2C1)C(=O)c1cc(OCC2CCOCC2)nc(c1)C1CC1"                                                                                                                                          
Y1F InChI            InChI                1.06  "InChI=1S/C30H36N6O4/c37-29(21-3-4-25-27(13-21)33-34-32-25)36-16-22-5-9-35(10-6-23(22)17-36)30(38)24-14-26(20-1-2-20)31-28(15-24)40-18-19-7-11-39-12-8-19/h3-4,13-15,19-20,22-23H,1-2,5-12,16-18H2,(H,32,33,34)" 
Y1F InChIKey         InChI                1.06  OTCUUGJFNKLLBB-UHFFFAOYSA-N                                                                                                                                                                                      
Y1F SMILES_CANONICAL CACTVS               3.385 "O=C(N1CC[C@H]2CN(C[C@H]2CC1)C(=O)c3ccc4[nH]nnc4c3)c5cc(OCC6CCOCC6)nc(c5)C7CC7"                                                                                                                                  
Y1F SMILES           CACTVS               3.385 "O=C(N1CC[CH]2CN(C[CH]2CC1)C(=O)c3ccc4[nH]nnc4c3)c5cc(OCC6CCOCC6)nc(c5)C7CC7"                                                                                                                                    
Y1F SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc2c(cc1C(=O)N3C[C@H]4CCN(CC[C@H]4C3)C(=O)c5cc(nc(c5)OCC6CCOCC6)C7CC7)nn[nH]2"                                                                                                                                
Y1F SMILES           "OpenEye OEToolkits" 2.0.7 "c1cc2c(cc1C(=O)N3CC4CCN(CCC4C3)C(=O)c5cc(nc(c5)OCC6CCOCC6)C7CC7)nn[nH]2"                                                                                                                                        
# 
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 
Y1F "SYSTEMATIC NAME" ACDLabs              12.01 "[(3aR,8aS)-2-(1H-benzotriazole-5-carbonyl)octahydropyrrolo[3,4-d]azepin-6(1H)-yl]{2-cyclopropyl-6-[(oxan-4-yl)methoxy]pyridin-4-yl}methanone"                                     
Y1F "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(3~{a}~{S},8~{a}~{R})-6-[2-cyclopropyl-6-(oxan-4-ylmethoxy)pyridin-4-yl]carbonyl-1,3,3~{a},4,5,7,8,8~{a}-octahydropyrrolo[3,4-d]azepin-2-yl]-(1~{H}-benzotriazol-5-yl)methanone" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
Y1F "Create component" 2023-06-09 RCSB 
Y1F "Initial release"  2024-12-18 RCSB 
# 
