data_YP9
# 
_chem_comp.id                                    YP9 
_chem_comp.name                                  "[(3aS,6aS)-5-(1H-benzotriazole-5-carbonyl)hexahydropyrrolo[3,4-c]pyrrol-2(1H)-yl](4-methoxynaphthalen-2-yl)methanone" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C25 H23 N5 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-19 
_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                        441.482 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YP9 
_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        7G48 
_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 
YP9 C02 C1  C 0 1 N N N N N N -13.104 12.584 50.518 2.046  -3.190 -0.082 C02 YP9 1  
YP9 C04 C2  C 0 1 N N S N N N -12.147 11.188 49.105 0.656  -1.397 0.460  C04 YP9 2  
YP9 C05 C3  C 0 1 N N S N N N -13.358 11.262 49.949 0.711  -2.632 -0.527 C05 YP9 3  
YP9 C06 C4  C 0 1 N N N N N N -14.439 10.964 48.893 -0.626 -3.243 -0.167 C06 YP9 4  
YP9 C11 C5  C 0 1 N N N N N N -11.136 13.174 52.001 4.242  -1.920 -0.150 C11 YP9 5  
YP9 C15 C6  C 0 1 Y N N N N N -8.127  11.248 53.415 6.925  0.522  0.782  C15 YP9 6  
YP9 C16 C7  C 0 1 Y N N N N N -8.710  13.944 52.652 4.359  0.553  -0.322 C16 YP9 7  
YP9 C17 C8  C 0 1 Y N N N N N -7.384  13.586 53.194 5.049  1.755  -0.143 C17 YP9 8  
YP9 C18 C9  C 0 1 Y N N N N N -7.106  12.260 53.579 6.342  1.732  0.413  C18 YP9 9  
YP9 C22 C10 C 0 1 N N N N N N -14.471 9.059  47.178 -2.861 -2.060 -0.375 C22 YP9 10 
YP9 C23 C11 C 0 1 Y N N N N N -13.629 8.470  46.070 -3.643 -0.814 -0.232 C23 YP9 11 
YP9 C25 C12 C 0 1 Y N N N N N -12.885 9.327  45.188 -4.962 -0.870 0.249  C25 YP9 12 
YP9 C26 C13 C 0 1 Y N N N N N -12.096 8.804  44.129 -5.702 0.266  0.389  C26 YP9 13 
YP9 C27 C14 C 0 1 Y N N N N N -13.555 7.044  45.895 -3.067 0.400  -0.569 C27 YP9 14 
YP9 C28 C15 C 0 1 Y N N N N N -12.731 6.493  44.814 -3.811 1.581  -0.432 C28 YP9 15 
YP9 N01 N1  N 0 1 N N N N N N -11.750 12.412 50.946 2.901  -1.962 -0.016 N01 YP9 16 
YP9 C03 C16 C 0 1 N N N N N N -11.124 11.353 50.144 2.002  -0.794 0.223  C03 YP9 17 
YP9 N07 N2  N 0 1 N N N N N N -13.803 9.931  48.098 -1.531 -2.050 -0.157 N07 YP9 18 
YP9 C08 C17 C 0 1 N N N N N N -12.350 9.897  48.394 -0.696 -0.847 0.138  C08 YP9 19 
YP9 C12 C18 C 0 1 Y N N N N N -9.728  12.911 52.489 4.963  -0.645 0.042  C12 YP9 20 
YP9 O13 O1  O 0 1 N N N N N N -11.883 14.048 52.605 4.858  -2.930 -0.427 O13 YP9 21 
YP9 C14 C19 C 0 1 Y N N N N N -9.441  11.593 52.875 6.249  -0.647 0.600  C14 YP9 22 
YP9 N19 N3  N 0 1 Y N N N N N -5.853  12.176 54.039 6.757  3.040  0.464  N19 YP9 23 
YP9 N20 N4  N 0 1 Y N N N N N -5.312  13.445 53.959 5.712  3.815  -0.060 N20 YP9 24 
YP9 N21 N5  N 0 1 Y N N N N N -6.261  14.289 53.445 4.738  3.047  -0.403 N21 YP9 25 
YP9 O24 O2  O 0 1 N N N N N N -15.670 8.814  47.311 -3.418 -3.094 -0.688 O24 YP9 26 
YP9 C29 C20 C 0 1 Y N N N N N -12.032 7.315  43.956 -5.143 1.516  0.049  C29 YP9 27 
YP9 C30 C21 C 0 1 Y N N N N N -11.248 6.729  42.935 -5.884 2.701  0.184  C30 YP9 28 
YP9 C31 C22 C 0 1 Y N N N N N -11.195 5.371  42.809 -5.318 3.893  -0.152 C31 YP9 29 
YP9 C32 C23 C 0 1 Y N N N N N -11.931 4.523  43.694 -4.011 3.958  -0.631 C32 YP9 30 
YP9 C33 C24 C 0 1 Y N N N N N -12.689 5.086  44.672 -3.259 2.831  -0.765 C33 YP9 31 
YP9 O34 O3  O 0 1 N N N N N N -11.390 9.715  43.305 -6.976 0.195  0.856  O34 YP9 32 
YP9 C35 C25 C 0 1 N N N N N N -11.427 9.702  41.929 -7.476 -1.104 1.180  C35 YP9 33 
YP9 H37 H1  H 0 1 N N N N N N -13.775 12.801 51.362 1.964  -3.657 0.899  H37 YP9 34 
YP9 H36 H2  H 0 1 N N N N N N -13.196 13.378 49.763 2.435  -3.897 -0.815 H36 YP9 35 
YP9 H10 H3  H 0 1 N N N N N N -12.119 12.023 48.390 0.638  -1.789 1.477  H10 YP9 36 
YP9 H09 H4  H 0 1 N N N N N N -13.353 10.481 50.724 0.743  -2.317 -1.570 H09 YP9 37 
YP9 H40 H5  H 0 1 N N N N N N -15.364 10.596 49.360 -0.940 -3.961 -0.924 H40 YP9 38 
YP9 H41 H6  H 0 1 N N N N N N -14.663 11.854 48.287 -0.587 -3.708 0.818  H41 YP9 39 
YP9 H45 H7  H 0 1 N N N N N N -7.916  10.226 53.695 7.918  0.511  1.208  H45 YP9 40 
YP9 H46 H8  H 0 1 N N N N N N -8.926  14.966 52.377 3.367  0.554  -0.748 H46 YP9 41 
YP9 H48 H9  H 0 1 N N N N N N -12.927 10.396 45.334 -5.394 -1.824 0.511  H48 YP9 42 
YP9 H49 H10 H 0 1 N N N N N N -14.101 6.385  46.554 -2.051 0.437  -0.934 H49 YP9 43 
YP9 H38 H11 H 0 1 N N N N N N -10.161 11.675 49.722 1.980  -0.145 -0.652 H38 YP9 44 
YP9 H39 H12 H 0 1 N N N N N N -10.979 10.431 50.726 2.329  -0.237 1.102  H39 YP9 45 
YP9 H43 H13 H 0 1 N N N N N N -11.755 9.852  47.470 -1.099 -0.305 0.993  H43 YP9 46 
YP9 H42 H14 H 0 1 N N N N N N -12.093 9.042  49.037 -0.644 -0.197 -0.736 H42 YP9 47 
YP9 H44 H15 H 0 1 N N N N N N -10.196 10.828 52.772 6.707  -1.582 0.888  H44 YP9 48 
YP9 H47 H16 H 0 1 N N N N N N -5.396  11.353 54.376 7.608  3.365  0.797  H47 YP9 49 
YP9 H50 H17 H 0 1 N N N N N N -10.691 7.356  42.255 -6.898 2.667  0.553  H50 YP9 50 
YP9 H51 H18 H 0 1 N N N N N N -10.589 4.931  42.031 -5.891 4.802  -0.047 H51 YP9 51 
YP9 H52 H19 H 0 1 N N N N N N -11.885 3.449  43.587 -3.586 4.916  -0.891 H52 YP9 52 
YP9 H53 H20 H 0 1 N N N N N N -13.259 4.459  45.341 -2.245 2.896  -1.133 H53 YP9 53 
YP9 H54 H21 H 0 1 N N N N N N -10.793 10.511 41.537 -6.854 -1.549 1.957  H54 YP9 54 
YP9 H55 H22 H 0 1 N N N N N N -11.055 8.734  41.561 -8.501 -1.019 1.540  H55 YP9 55 
YP9 H56 H23 H 0 1 N N N N N N -12.463 9.850  41.589 -7.454 -1.734 0.291  H56 YP9 56 
# 
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 
YP9 N01 C02 SING N N 1  
YP9 N01 C03 SING N N 2  
YP9 C03 C04 SING N N 3  
YP9 C02 C05 SING N N 4  
YP9 C04 C05 SING N N 5  
YP9 C05 C06 SING N N 6  
YP9 C06 N07 SING N N 7  
YP9 C04 C08 SING N N 8  
YP9 N07 C08 SING N N 9  
YP9 N01 C11 SING N N 10 
YP9 C11 C12 SING N N 11 
YP9 C11 O13 DOUB N N 12 
YP9 C12 C14 DOUB Y N 13 
YP9 C14 C15 SING Y N 14 
YP9 C12 C16 SING Y N 15 
YP9 C16 C17 DOUB Y N 16 
YP9 C15 C18 DOUB Y N 17 
YP9 C17 C18 SING Y N 18 
YP9 C18 N19 SING Y N 19 
YP9 N19 N20 SING Y N 20 
YP9 C17 N21 SING Y N 21 
YP9 N20 N21 DOUB Y N 22 
YP9 N07 C22 SING N N 23 
YP9 C22 C23 SING N N 24 
YP9 C22 O24 DOUB N N 25 
YP9 C23 C25 DOUB Y N 26 
YP9 C25 C26 SING Y N 27 
YP9 C23 C27 SING Y N 28 
YP9 C27 C28 DOUB Y N 29 
YP9 C26 C29 DOUB Y N 30 
YP9 C28 C29 SING Y N 31 
YP9 C29 C30 SING Y N 32 
YP9 C30 C31 DOUB Y N 33 
YP9 C31 C32 SING Y N 34 
YP9 C28 C33 SING Y N 35 
YP9 C32 C33 DOUB Y N 36 
YP9 C26 O34 SING N N 37 
YP9 O34 C35 SING N N 38 
YP9 C02 H37 SING N N 39 
YP9 C02 H36 SING N N 40 
YP9 C04 H10 SING N N 41 
YP9 C05 H09 SING N N 42 
YP9 C06 H40 SING N N 43 
YP9 C06 H41 SING N N 44 
YP9 C15 H45 SING N N 45 
YP9 C16 H46 SING N N 46 
YP9 C25 H48 SING N N 47 
YP9 C27 H49 SING N N 48 
YP9 C03 H38 SING N N 49 
YP9 C03 H39 SING N N 50 
YP9 C08 H43 SING N N 51 
YP9 C08 H42 SING N N 52 
YP9 C14 H44 SING N N 53 
YP9 N19 H47 SING N N 54 
YP9 C30 H50 SING N N 55 
YP9 C31 H51 SING N N 56 
YP9 C32 H52 SING N N 57 
YP9 C33 H53 SING N N 58 
YP9 C35 H54 SING N N 59 
YP9 C35 H55 SING N N 60 
YP9 C35 H56 SING N N 61 
# 
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 
YP9 SMILES           ACDLabs              12.01 "COc1cc(cc2ccccc21)C(=O)N1CC2CN(CC2C1)C(=O)c1cc2nn[NH]c2cc1"                                                                                                                            
YP9 InChI            InChI                1.06  "InChI=1S/C25H23N5O3/c1-33-23-10-17(8-15-4-2-3-5-20(15)23)25(32)30-13-18-11-29(12-19(18)14-30)24(31)16-6-7-21-22(9-16)27-28-26-21/h2-10,18-19H,11-14H2,1H3,(H,26,27,28)/t18-,19-/m0/s1" 
YP9 InChIKey         InChI                1.06  OFGYEQIUHWWSBV-OALUTQOASA-N                                                                                                                                                             
YP9 SMILES_CANONICAL CACTVS               3.385 "COc1cc(cc2ccccc12)C(=O)N3C[C@@H]4CN(C[C@H]4C3)C(=O)c5ccc6[nH]nnc6c5"                                                                                                                   
YP9 SMILES           CACTVS               3.385 "COc1cc(cc2ccccc12)C(=O)N3C[CH]4CN(C[CH]4C3)C(=O)c5ccc6[nH]nnc6c5"                                                                                                                      
YP9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "COc1cc(cc2c1cccc2)C(=O)N3C[C@@H]4CN(C[C@H]4C3)C(=O)c5ccc6c(c5)nn[nH]6"                                                                                                                 
YP9 SMILES           "OpenEye OEToolkits" 2.0.7 "COc1cc(cc2c1cccc2)C(=O)N3CC4CN(CC4C3)C(=O)c5ccc6c(c5)nn[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 
YP9 "SYSTEMATIC NAME" ACDLabs              12.01 "[(3aS,6aS)-5-(1H-benzotriazole-5-carbonyl)hexahydropyrrolo[3,4-c]pyrrol-2(1H)-yl](4-methoxynaphthalen-2-yl)methanone"                                   
YP9 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(3~{a}~{S},6~{a}~{S})-5-(4-methoxynaphthalen-2-yl)carbonyl-1,3,3~{a},4,6,6~{a}-hexahydropyrrolo[3,4-c]pyrrol-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 
YP9 "Create component" 2023-06-19 RCSB 
YP9 "Initial release"  2024-12-18 RCSB 
# 
