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 #