data_YB1
# 
_chem_comp.id                                    YB1 
_chem_comp.name                                  "1-[(3aR,6aS)-5-{2-cyclopropyl-6-[(oxan-4-yl)methoxy]pyridine-4-carbonyl}hexahydropyrrolo[3,4-c]pyrrol-2(1H)-yl]-3-(1H-1,2,3-triazol-5-yl)propan-1-one" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C26 H34 N6 O4" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-12 
_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                        494.586 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YB1 
_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        7G79 
_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 
YB1 C10 C1  C 0 1 N N N N N N -11.414 10.209 43.104 5.688   3.490  0.887  C10 YB1 1  
YB1 C11 C2  C 0 1 N N N N N N -10.190 9.784  42.287 6.538   4.110  -0.225 C11 YB1 2  
YB1 C15 C3  C 0 1 N N N N N N -11.323 3.850  42.959 5.452   -2.834 0.322  C15 YB1 3  
YB1 C16 C4  C 0 1 N N N N N N -10.385 3.352  44.055 6.821   -3.296 0.831  C16 YB1 4  
YB1 C17 C5  C 0 1 N N N N N N -10.122 1.805  43.870 6.935   -4.813 0.663  C17 YB1 5  
YB1 C19 C6  C 0 1 N N N N N N -10.550 1.969  41.527 5.461   -4.790 -1.229 C19 YB1 6  
YB1 C20 C7  C 0 1 N N N N N N -10.649 3.534  41.617 5.288   -3.272 -1.137 C20 YB1 7  
YB1 C21 C8  C 0 1 N N N N N N -14.497 10.334 49.298 -1.550  2.490  -0.726 C21 YB1 8  
YB1 C22 C9  C 0 1 N N S N N N -13.409 10.991 50.148 -2.357  1.227  -0.642 C22 YB1 9  
YB1 C23 C10 C 0 1 N N S N N N -12.349 11.443 49.116 -1.558  0.474  0.498  C23 YB1 10 
YB1 C24 C11 C 0 1 N N N N N N -12.257 10.236 48.184 -0.170  0.618  -0.072 C24 YB1 11 
YB1 C25 C12 C 0 1 N N N N N N -11.236 11.877 50.066 -2.365  -0.789 0.583  C25 YB1 12 
YB1 C27 C13 C 0 1 N N N N N N -13.516 12.314 50.960 -3.744  1.084  -0.071 C27 YB1 13 
YB1 C28 C14 C 0 1 N N N N N N -11.438 13.302 52.128 -4.872  -1.130 0.449  C28 YB1 14 
YB1 N1  N1  N 0 1 N N N N N N -13.661 9.810  48.124 -0.142  2.060  -0.476 N1  YB1 15 
YB1 C2  C15 C 0 1 N N N N N N -14.163 9.019  47.159 0.957   2.831  -0.593 C2  YB1 16 
YB1 O3  O1  O 0 1 N N N N N N -15.347 8.689  47.179 0.857   3.974  -0.993 O3  YB1 17 
YB1 C4  C16 C 0 1 Y N N N N N -13.267 8.568  46.027 2.287   2.285  -0.234 C4  YB1 18 
YB1 C5  C17 C 0 1 Y N N N N N -13.072 7.225  45.703 2.530   0.911  -0.268 C5  YB1 19 
YB1 C6  C18 C 0 1 Y N N N N N -12.353 6.987  44.524 3.792   0.443  0.076  C6  YB1 20 
YB1 N7  N2  N 0 1 Y N N N N N -11.861 7.918  43.698 4.750   1.281  0.431  N7  YB1 21 
YB1 C8  C19 C 0 1 Y N N N N N -12.032 9.230  44.046 4.556   2.585  0.474  C8  YB1 22 
YB1 C9  C20 C 0 1 Y N N N N N -12.726 9.616  45.196 3.334   3.133  0.142  C9  YB1 23 
YB1 C12 C21 C 0 1 N N N N N N -11.542 9.932  41.592 5.556   4.980  0.562  C12 YB1 24 
YB1 O13 O2  O 0 1 N N N N N N -12.111 5.705  44.238 4.043   -0.890 0.048  O13 YB1 25 
YB1 C14 C22 C 0 1 N N N N N N -11.411 5.395  43.029 5.359   -1.310 0.412  C14 YB1 26 
YB1 O18 O3  O 0 1 N N N N N N -9.651  1.511  42.552 6.742   -5.155 -0.711 O18 YB1 27 
YB1 N26 N3  N 0 1 N N N N N N -12.044 12.564 51.108 -3.772  -0.359 0.333  N26 YB1 28 
YB1 O29 O4  O 0 1 N N N N N N -12.177 13.906 52.941 -4.765  -2.290 0.786  O29 YB1 29 
YB1 C30 C23 C 0 1 N N N N N N -9.900  13.333 52.181 -6.233  -0.550 0.161  C30 YB1 30 
YB1 C31 C24 C 0 1 N N N N N N -9.425  13.203 53.652 -7.299  -1.627 0.367  C31 YB1 31 
YB1 C32 C25 C 0 1 Y N N N N N -7.943  12.855 53.759 -8.660  -1.048 0.079  C32 YB1 32 
YB1 C33 C26 C 0 1 Y N N N N N -7.282  11.618 53.816 -9.260  -0.943 -1.130 C33 YB1 33 
YB1 N34 N4  N 0 1 Y N N N N N -5.880  11.872 54.046 -10.451 -0.373 -0.915 N34 YB1 34 
YB1 N35 N5  N 0 1 Y N N N N N -5.668  13.109 54.101 -10.580 -0.139 0.343  N35 YB1 35 
YB1 N36 N6  N 0 1 Y N N N N N -6.881  13.787 53.930 -9.531  -0.533 0.978  N36 YB1 36 
YB1 H41 H1  H 0 1 N N N N N N -11.450 11.268 43.400 6.192   3.220  1.815  H41 YB1 37 
YB1 H43 H2  H 0 1 N N N N N N -9.387  10.508 42.085 7.602   4.247  -0.028 H43 YB1 38 
YB1 H42 H3  H 0 1 N N N N N N -9.754  8.784  42.432 6.279   3.862  -1.254 H42 YB1 39 
YB1 H48 H4  H 0 1 N N N N N N -12.318 3.387  43.032 4.667   -3.286 0.928  H48 YB1 40 
YB1 H50 H5  H 0 1 N N N N N N -9.430  3.895  43.994 7.607   -2.806 0.256  H50 YB1 41 
YB1 H49 H6  H 0 1 N N N N N N -10.845 3.529  45.038 6.924   -3.037 1.885  H49 YB1 42 
YB1 H51 H7  H 0 1 N N N N N N -9.367  1.480  44.601 7.923   -5.141 0.984  H51 YB1 43 
YB1 H52 H8  H 0 1 N N N N N N -11.061 1.259  44.045 6.174   -5.304 1.270  H52 YB1 44 
YB1 H54 H9  H 0 1 N N N N N N -10.166 1.677  40.538 4.680   -5.281 -0.646 H54 YB1 45 
YB1 H53 H10 H 0 1 N N N N N N -11.545 1.525  41.680 5.387   -5.102 -2.270 H53 YB1 46 
YB1 H56 H11 H 0 1 N N N N N N -11.254 3.925  40.786 4.294   -2.996 -1.490 H56 YB1 47 
YB1 H55 H12 H 0 1 N N N N N N -9.645  3.981  41.581 6.043   -2.782 -1.751 H55 YB1 48 
YB1 H58 H13 H 0 1 N N N N N N -15.249 11.065 48.966 -1.641  2.932  -1.718 H58 YB1 49 
YB1 H57 H14 H 0 1 N N N N N N -14.995 9.516  49.838 -1.873  3.199  0.036  H57 YB1 50 
YB1 H38 H15 H 0 1 N N N N N N -12.958 10.224 50.795 -2.284  0.673  -1.577 H38 YB1 51 
YB1 H37 H16 H 0 1 N N N N N N -12.725 12.315 48.560 -1.636  1.025  1.435  H37 YB1 52 
YB1 H59 H17 H 0 1 N N N N N N -11.615 9.449  48.607 0.585   0.412  0.687  H59 YB1 53 
YB1 H60 H18 H 0 1 N N N N N N -11.880 10.522 47.191 -0.036  -0.033 -0.936 H60 YB1 54 
YB1 H61 H19 H 0 1 N N N N N N -10.689 11.015 50.475 -2.043  -1.497 -0.180 H61 YB1 55 
YB1 H62 H20 H 0 1 N N N N N N -10.528 12.564 49.579 -2.274  -1.231 1.575  H62 YB1 56 
YB1 H64 H21 H 0 1 N N N N N N -14.023 13.112 50.398 -3.877  1.732  0.795  H64 YB1 57 
YB1 H63 H22 H 0 1 N N N N N N -14.017 12.173 51.929 -4.499  1.292  -0.829 H63 YB1 58 
YB1 H39 H23 H 0 1 N N N N N N -13.450 6.423  46.319 1.749   0.222  -0.557 H39 YB1 59 
YB1 H40 H24 H 0 1 N N N N N N -12.852 10.657 45.452 3.187   4.202  0.176  H40 YB1 60 
YB1 H45 H25 H 0 1 N N N N N N -12.080 9.040  41.240 4.650   5.305  0.051  H45 YB1 61 
YB1 H44 H26 H 0 1 N N N N N N -11.713 10.764 40.893 5.973   5.689  1.277  H44 YB1 62 
YB1 H47 H27 H 0 1 N N N N N N -11.962 5.785  42.160 5.572   -0.993 1.434  H47 YB1 63 
YB1 H46 H28 H 0 1 N N N N N N -10.402 5.833  43.050 6.085   -0.861 -0.266 H46 YB1 64 
YB1 H66 H29 H 0 1 N N N N N N -9.497  12.497 51.591 -6.423  0.283  0.837  H66 YB1 65 
YB1 H65 H30 H 0 1 N N N N N N -9.539  14.284 51.763 -6.266  -0.198 -0.869 H65 YB1 66 
YB1 H67 H31 H 0 1 N N N N N N -9.601  14.160 54.165 -7.109  -2.461 -0.309 H67 YB1 67 
YB1 H68 H32 H 0 1 N N N N N N -10.010 12.411 54.143 -7.266  -1.980 1.398  H68 YB1 68 
YB1 H69 H33 H 0 1 N N N N N N -7.742  10.647 53.707 -8.857  -1.259 -2.081 H69 YB1 69 
YB1 H70 H34 H 0 1 N N N N N N -6.986  14.781 53.928 -9.389  -0.469 1.935  H70 YB1 70 
# 
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 
YB1 N1  C2  SING N N 1  
YB1 N1  C21 SING N N 2  
YB1 N1  C24 SING N N 3  
YB1 C2  O3  DOUB N N 4  
YB1 C2  C4  SING N N 5  
YB1 C4  C5  DOUB Y N 6  
YB1 C4  C9  SING Y N 7  
YB1 C5  C6  SING Y N 8  
YB1 C6  N7  DOUB Y N 9  
YB1 C6  O13 SING N N 10 
YB1 N7  C8  SING Y N 11 
YB1 C8  C9  DOUB Y N 12 
YB1 C8  C10 SING N N 13 
YB1 C10 C11 SING N N 14 
YB1 C10 C12 SING N N 15 
YB1 C11 C12 SING N N 16 
YB1 O13 C14 SING N N 17 
YB1 C14 C15 SING N N 18 
YB1 C15 C16 SING N N 19 
YB1 C15 C20 SING N N 20 
YB1 C16 C17 SING N N 21 
YB1 C17 O18 SING N N 22 
YB1 O18 C19 SING N N 23 
YB1 C19 C20 SING N N 24 
YB1 C21 C22 SING N N 25 
YB1 C22 C23 SING N N 26 
YB1 C22 C27 SING N N 27 
YB1 C23 C24 SING N N 28 
YB1 C23 C25 SING N N 29 
YB1 C25 N26 SING N N 30 
YB1 N26 C27 SING N N 31 
YB1 N26 C28 SING N N 32 
YB1 C28 O29 DOUB N N 33 
YB1 C28 C30 SING N N 34 
YB1 C30 C31 SING N N 35 
YB1 C31 C32 SING N N 36 
YB1 C32 C33 DOUB Y N 37 
YB1 C32 N36 SING Y N 38 
YB1 C33 N34 SING Y N 39 
YB1 N34 N35 DOUB Y N 40 
YB1 N35 N36 SING Y N 41 
YB1 C10 H41 SING N N 42 
YB1 C11 H43 SING N N 43 
YB1 C11 H42 SING N N 44 
YB1 C15 H48 SING N N 45 
YB1 C16 H50 SING N N 46 
YB1 C16 H49 SING N N 47 
YB1 C17 H51 SING N N 48 
YB1 C17 H52 SING N N 49 
YB1 C19 H54 SING N N 50 
YB1 C19 H53 SING N N 51 
YB1 C20 H56 SING N N 52 
YB1 C20 H55 SING N N 53 
YB1 C21 H58 SING N N 54 
YB1 C21 H57 SING N N 55 
YB1 C22 H38 SING N N 56 
YB1 C23 H37 SING N N 57 
YB1 C24 H59 SING N N 58 
YB1 C24 H60 SING N N 59 
YB1 C25 H61 SING N N 60 
YB1 C25 H62 SING N N 61 
YB1 C27 H64 SING N N 62 
YB1 C27 H63 SING N N 63 
YB1 C5  H39 SING N N 64 
YB1 C9  H40 SING N N 65 
YB1 C12 H45 SING N N 66 
YB1 C12 H44 SING N N 67 
YB1 C14 H47 SING N N 68 
YB1 C14 H46 SING N N 69 
YB1 C30 H66 SING N N 70 
YB1 C30 H65 SING N N 71 
YB1 C31 H67 SING N N 72 
YB1 C31 H68 SING N N 73 
YB1 C33 H69 SING N N 74 
YB1 N36 H70 SING N N 75 
# 
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 
YB1 SMILES           ACDLabs              12.01 "O=C(CCc1cnn[NH]1)N1CC2CN(CC2C1)C(=O)c1cc(OCC2CCOCC2)nc(c1)C1CC1"                                                                                                                       
YB1 InChI            InChI                1.06  "InChI=1S/C26H34N6O4/c33-25(4-3-22-11-27-30-29-22)31-12-20-14-32(15-21(20)13-31)26(34)19-9-23(18-1-2-18)28-24(10-19)36-16-17-5-7-35-8-6-17/h9-11,17-18,20-21H,1-8,12-16H2,(H,27,29,30)" 
YB1 InChIKey         InChI                1.06  XSPZRFRUMUKODI-UHFFFAOYSA-N                                                                                                                                                             
YB1 SMILES_CANONICAL CACTVS               3.385 "O=C(CCc1[nH]nnc1)N2C[C@H]3CN(C[C@@H]3C2)C(=O)c4cc(OCC5CCOCC5)nc(c4)C6CC6"                                                                                                              
YB1 SMILES           CACTVS               3.385 "O=C(CCc1[nH]nnc1)N2C[CH]3CN(C[CH]3C2)C(=O)c4cc(OCC5CCOCC5)nc(c4)C6CC6"                                                                                                                 
YB1 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1c(cc(nc1C2CC2)OCC3CCOCC3)C(=O)N4C[C@@H]5CN(C[C@H]5C4)C(=O)CCc6cnn[nH]6"                                                                                                              
YB1 SMILES           "OpenEye OEToolkits" 2.0.7 "c1c(cc(nc1C2CC2)OCC3CCOCC3)C(=O)N4CC5CN(CC5C4)C(=O)CCc6cnn[nH]6"                                                                                                                       
# 
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 
YB1 "SYSTEMATIC NAME" ACDLabs              12.01 "1-[(3aR,6aS)-5-{2-cyclopropyl-6-[(oxan-4-yl)methoxy]pyridine-4-carbonyl}hexahydropyrrolo[3,4-c]pyrrol-2(1H)-yl]-3-(1H-1,2,3-triazol-5-yl)propan-1-one"                                
YB1 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "1-[(3~{a}~{S},6~{a}~{S})-5-[2-cyclopropyl-6-(oxan-4-ylmethoxy)pyridin-4-yl]carbonyl-1,3,3~{a},4,6,6~{a}-hexahydropyrrolo[3,4-c]pyrrol-2-yl]-3-(1~{H}-1,2,3-triazol-5-yl)propan-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 
YB1 "Create component" 2023-06-12 RCSB 
YB1 "Initial release"  2024-12-18 RCSB 
# 
