data_YPK # _chem_comp.id YPK _chem_comp.name "[(3S)-1-[4-(dimethylamino)butanoyl]pyrrolidin-3-yl] 4-[(5-methyl-3-propan-2-yl-pyrazolo[1,5-a]pyrimidin-7-yl)amino]piperidine-1-carboxylate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C26 H41 N7 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "HYDROXYETHYLAMINE BACE INHIBITOR" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-12-08 _chem_comp.pdbx_modified_date 2024-05-24 _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 499.649 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YPK _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 8R9S _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # 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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 YPK C1 C1 C 0 1 N N N N N N 11.920 28.622 -9.357 -10.215 2.188 1.565 C1 YPK 1 YPK C2 C2 C 0 1 N N N N N N 11.112 29.915 -9.378 -9.825 1.477 0.268 C2 YPK 2 YPK C3 C3 C 0 1 N N N N N N 11.841 30.987 -10.181 -10.464 2.198 -0.921 C3 YPK 3 YPK C5 C4 C 0 1 Y N N N N N 9.226 28.703 -10.742 -7.521 2.620 0.042 C5 YPK 4 YPK C8 C5 C 0 1 Y N N N N N 6.282 30.432 -10.211 -5.181 -0.043 -0.218 C8 YPK 5 YPK C10 C6 C 0 1 N N N N N N 4.123 29.182 -10.447 -2.784 -0.553 -0.468 C10 YPK 6 YPK C11 C7 C 0 1 N N N N N N 2.966 29.465 -11.388 -2.338 -0.992 0.929 C11 YPK 7 YPK C12 C8 C 0 1 N N N N N N 1.719 28.730 -10.923 -1.211 -2.022 0.799 C12 YPK 8 YPK C14 C9 C 0 1 N N N N N N 2.550 28.872 -8.584 -0.476 -0.912 -1.350 C14 YPK 9 YPK C15 C10 C 0 1 N N N N N N 3.757 29.653 -9.056 -1.611 0.105 -1.197 C15 YPK 10 YPK C16 C11 C 0 1 N N N N N N 0.264 29.593 -9.118 1.131 -1.413 0.427 C16 YPK 11 YPK O17 O1 O 0 1 N N N N N N 0.166 30.330 -8.160 1.397 -1.858 1.526 O17 YPK 12 YPK C19 C12 C 0 1 N N S N N N -1.071 27.839 -10.164 3.447 -0.879 0.213 C19 YPK 13 YPK C21 C13 C 0 1 N N N N N N -2.274 27.461 -9.277 4.220 -2.162 -0.194 C21 YPK 14 YPK C22 C14 C 0 1 N N N N N N -3.365 26.991 -10.222 5.693 -1.707 -0.152 C22 YPK 15 YPK C24 C15 C 0 1 N N N N N N -1.535 27.656 -11.613 4.313 0.226 -0.443 C24 YPK 16 YPK C25 C16 C 0 1 N N N N N N -2.591 25.476 -11.962 6.799 0.540 -0.281 C25 YPK 17 YPK C27 C17 C 0 1 N N N N N N -2.647 25.339 -13.471 8.164 -0.077 -0.116 C27 YPK 18 YPK C28 C18 C 0 1 N N N N N N -3.519 24.163 -13.931 9.227 1.024 -0.139 C28 YPK 19 YPK C35 C19 C 0 1 Y N N N N N 7.200 32.125 -8.739 -6.773 -1.813 -0.065 C35 YPK 20 YPK C36 C20 C 0 1 N N N N N N 7.046 33.344 -7.882 -7.083 -3.288 -0.042 C36 YPK 21 YPK C38 C21 C 0 1 Y N N N N N 8.596 30.492 -9.586 -7.500 0.379 0.031 C38 YPK 22 YPK C29 C22 C 0 1 N N N N N N -3.070 23.605 -15.282 10.613 0.398 0.028 C29 YPK 23 YPK N30 N1 N 0 1 N N N N N N -3.827 22.381 -15.726 11.634 1.454 0.006 N30 YPK 24 YPK C32 C23 C 0 1 N N N N N N -3.343 21.892 -17.050 11.505 2.335 1.175 C32 YPK 25 YPK C33 C24 C 0 1 N N N N N N -3.798 21.281 -14.716 12.983 0.880 -0.075 C33 YPK 26 YPK O26 O2 O 0 1 N N N N N N -2.506 24.486 -11.239 6.687 1.742 -0.404 O26 YPK 27 YPK N23 N2 N 0 1 N N N N N N -2.636 26.708 -11.458 5.702 -0.243 -0.291 N23 YPK 28 YPK O18 O3 O 0 1 N N N N N N -0.793 29.236 -9.935 2.104 -0.884 -0.338 O18 YPK 29 YPK N13 N3 N 0 1 N N N N N N 1.425 29.021 -9.513 -0.138 -1.448 -0.025 N13 YPK 30 YPK N9 N4 N 0 1 N N N N N N 5.353 29.775 -10.928 -3.885 0.407 -0.348 N9 YPK 31 YPK C34 C25 C 0 1 Y N N N N N 6.116 31.565 -9.422 -5.452 -1.384 -0.198 C34 YPK 32 YPK N37 N5 N 0 1 Y N N N N N 8.435 31.596 -8.817 -7.748 -0.938 0.050 N37 YPK 33 YPK C4 C26 C 0 1 Y N N N N N 9.704 29.705 -9.886 -8.326 1.491 0.118 C4 YPK 34 YPK N6 N6 N 0 1 Y N N N N N 7.930 28.811 -10.988 -6.270 2.243 -0.090 N6 YPK 35 YPK N7 N7 N 0 1 Y N N N N N 7.543 29.915 -10.276 -6.218 0.845 -0.105 N7 YPK 36 YPK H40 H1 H 0 1 N N N N N N 11.380 27.861 -8.774 -11.299 2.177 1.674 H40 YPK 37 YPK H41 H2 H 0 1 N N N N N N 12.063 28.262 -10.387 -9.760 1.674 2.412 H41 YPK 38 YPK H39 H3 H 0 1 N N N N N N 12.900 28.810 -8.895 -9.863 3.219 1.534 H39 YPK 39 YPK H42 H4 H 0 1 N N N N N N 11.040 30.274 -8.341 -10.177 0.445 0.299 H42 YPK 40 YPK H44 H5 H 0 1 N N N N N N 12.860 31.113 -9.785 -10.186 1.691 -1.845 H44 YPK 41 YPK H45 H6 H 0 1 N N N N N N 11.893 30.682 -11.237 -11.548 2.187 -0.812 H45 YPK 42 YPK H43 H7 H 0 1 N N N N N N 11.296 31.939 -10.101 -10.112 3.229 -0.952 H43 YPK 43 YPK H46 H8 H 0 1 N N N N N N 9.850 27.925 -11.157 -7.868 3.642 0.080 H46 YPK 44 YPK H48 H9 H 0 1 N N N N N N 4.256 28.091 -10.404 -3.121 -1.423 -1.031 H48 YPK 45 YPK H50 H10 H 0 1 N N N N N N 3.230 29.127 -12.401 -1.978 -0.126 1.485 H50 YPK 46 YPK H49 H11 H 0 1 N N N N N N 2.766 30.547 -11.403 -3.180 -1.439 1.456 H49 YPK 47 YPK H52 H12 H 0 1 N N N N N N 0.865 29.046 -11.540 -0.822 -2.264 1.788 H52 YPK 48 YPK H51 H13 H 0 1 N N N N N N 1.876 27.648 -11.041 -1.593 -2.925 0.324 H51 YPK 49 YPK H54 H14 H 0 1 N N N N N N 2.248 29.242 -7.593 -0.798 -1.725 -2.001 H54 YPK 50 YPK H53 H15 H 0 1 N N N N N N 2.817 27.807 -8.512 0.397 -0.423 -1.782 H53 YPK 51 YPK H56 H16 H 0 1 N N N N N N 4.601 29.480 -8.372 -1.936 0.439 -2.182 H56 YPK 52 YPK H55 H17 H 0 1 N N N N N N 3.518 30.726 -9.079 -1.258 0.960 -0.621 H55 YPK 53 YPK H20 H18 H 0 1 N N N N N N -0.205 27.198 -9.943 3.423 -0.765 1.296 H20 YPK 54 YPK H57 H19 H 0 1 N N N N N N -2.616 28.336 -8.705 4.042 -2.963 0.524 H57 YPK 55 YPK H58 H20 H 0 1 N N N N N N -1.997 26.654 -8.583 3.940 -2.478 -1.199 H58 YPK 56 YPK H60 H21 H 0 1 N N N N N N -4.117 27.778 -10.379 6.142 -1.991 0.800 H60 YPK 57 YPK H59 H22 H 0 1 N N N N N N -3.857 26.085 -9.838 6.246 -2.163 -0.973 H59 YPK 58 YPK H61 H23 H 0 1 N N N N N N -0.733 27.239 -12.240 4.061 0.329 -1.499 H61 YPK 59 YPK H62 H24 H 0 1 N N N N N N -1.883 28.606 -12.045 4.174 1.174 0.075 H62 YPK 60 YPK H63 H25 H 0 1 N N N N N N -1.625 25.187 -13.848 8.211 -0.607 0.835 H63 YPK 61 YPK H64 H27 H 0 1 N N N N N N -4.560 24.507 -14.018 9.180 1.554 -1.090 H64 YPK 62 YPK H75 H29 H 0 1 N N N N N N 8.019 33.609 -7.442 -7.052 -3.650 0.985 H75 YPK 63 YPK H74 H30 H 0 1 N N N N N N 6.681 34.180 -8.496 -8.077 -3.456 -0.457 H74 YPK 64 YPK H76 H31 H 0 1 N N N N N N 6.324 33.138 -7.078 -6.345 -3.823 -0.639 H76 YPK 65 YPK H66 H32 H 0 1 N N N N N N -2.004 23.344 -15.211 10.660 -0.133 0.979 H66 YPK 66 YPK H65 H33 H 0 1 N N N N N N -3.206 24.389 -16.042 10.796 -0.302 -0.788 H65 YPK 67 YPK H69 H35 H 0 1 N N N N N N -3.915 21.000 -17.344 11.627 1.749 2.086 H69 YPK 68 YPK H67 H36 H 0 1 N N N N N N -3.481 22.680 -17.805 12.272 3.107 1.133 H67 YPK 69 YPK H68 H37 H 0 1 N N N N N N -2.276 21.635 -16.978 10.519 2.800 1.172 H68 YPK 70 YPK H70 H38 H 0 1 N N N N N N -4.158 21.661 -13.749 13.073 0.289 -0.986 H70 YPK 71 YPK H71 H39 H 0 1 N N N N N N -4.447 20.459 -15.051 13.719 1.684 -0.090 H71 YPK 72 YPK H72 H40 H 0 1 N N N N N N -2.767 20.913 -14.605 13.159 0.242 0.791 H72 YPK 73 YPK H47 H41 H 0 1 N N N N N N 5.849 29.020 -11.357 -3.701 1.360 -0.361 H47 YPK 74 YPK H73 H42 H 0 1 N N N N N N 5.139 32.017 -9.336 -4.652 -2.104 -0.286 H73 YPK 75 YPK H1 H43 H 0 1 N N N N N N -3.059 26.268 -13.893 8.347 -0.776 -0.932 H1 YPK 76 YPK H2 H44 H 0 1 N N N N N N -3.459 23.362 -13.179 9.044 1.723 0.677 H2 YPK 77 # 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 YPK C32 N30 SING N N 1 YPK N30 C29 SING N N 2 YPK N30 C33 SING N N 3 YPK C29 C28 SING N N 4 YPK C28 C27 SING N N 5 YPK C27 C25 SING N N 6 YPK C25 N23 SING N N 7 YPK C25 O26 DOUB N N 8 YPK C24 N23 SING N N 9 YPK C24 C19 SING N N 10 YPK N23 C22 SING N N 11 YPK C11 C12 SING N N 12 YPK C11 C10 SING N N 13 YPK N6 C5 DOUB Y N 14 YPK N6 N7 SING Y N 15 YPK N9 C10 SING N N 16 YPK N9 C8 SING N N 17 YPK C12 N13 SING N N 18 YPK C5 C4 SING Y N 19 YPK C10 C15 SING N N 20 YPK N7 C8 SING Y N 21 YPK N7 C38 SING Y N 22 YPK C22 C21 SING N N 23 YPK C8 C34 DOUB Y N 24 YPK C3 C2 SING N N 25 YPK C19 O18 SING N N 26 YPK C19 C21 SING N N 27 YPK O18 C16 SING N N 28 YPK C4 C38 DOUB Y N 29 YPK C4 C2 SING N N 30 YPK C38 N37 SING Y N 31 YPK N13 C16 SING N N 32 YPK N13 C14 SING N N 33 YPK C34 C35 SING Y N 34 YPK C2 C1 SING N N 35 YPK C16 O17 DOUB N N 36 YPK C15 C14 SING N N 37 YPK N37 C35 DOUB Y N 38 YPK C35 C36 SING N N 39 YPK C1 H40 SING N N 40 YPK C1 H41 SING N N 41 YPK C1 H39 SING N N 42 YPK C2 H42 SING N N 43 YPK C3 H44 SING N N 44 YPK C3 H45 SING N N 45 YPK C3 H43 SING N N 46 YPK C5 H46 SING N N 47 YPK C10 H48 SING N N 48 YPK C11 H50 SING N N 49 YPK C11 H49 SING N N 50 YPK C12 H52 SING N N 51 YPK C12 H51 SING N N 52 YPK C14 H54 SING N N 53 YPK C14 H53 SING N N 54 YPK C15 H56 SING N N 55 YPK C15 H55 SING N N 56 YPK C19 H20 SING N N 57 YPK C21 H57 SING N N 58 YPK C21 H58 SING N N 59 YPK C22 H60 SING N N 60 YPK C22 H59 SING N N 61 YPK C24 H61 SING N N 62 YPK C24 H62 SING N N 63 YPK C27 H63 SING N N 64 YPK C28 H64 SING N N 65 YPK C36 H75 SING N N 66 YPK C36 H74 SING N N 67 YPK C36 H76 SING N N 68 YPK C29 H66 SING N N 69 YPK C29 H65 SING N N 70 YPK C32 H69 SING N N 71 YPK C32 H67 SING N N 72 YPK C32 H68 SING N N 73 YPK C33 H70 SING N N 74 YPK C33 H71 SING N N 75 YPK C33 H72 SING N N 76 YPK N9 H47 SING N N 77 YPK C34 H73 SING N N 78 YPK C27 H1 SING N N 79 YPK C28 H2 SING N N 80 # 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 YPK InChI InChI 1.06 "InChI=1S/C26H41N7O3/c1-18(2)22-16-27-33-23(15-19(3)28-25(22)33)29-20-8-12-31(13-9-20)26(35)36-21-10-14-32(17-21)24(34)7-6-11-30(4)5/h15-16,18,20-21,29H,6-14,17H2,1-5H3/t21-/m0/s1" YPK InChIKey InChI 1.06 GRQNIAZNGVLLKQ-NRFANRHFSA-N YPK SMILES_CANONICAL CACTVS 3.385 "CC(C)c1cnn2c(NC3CCN(CC3)C(=O)O[C@H]4CCN(C4)C(=O)CCCN(C)C)cc(C)nc12" YPK SMILES CACTVS 3.385 "CC(C)c1cnn2c(NC3CCN(CC3)C(=O)O[CH]4CCN(C4)C(=O)CCCN(C)C)cc(C)nc12" YPK SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1cc(n2c(n1)c(cn2)C(C)C)NC3CCN(CC3)C(=O)O[C@H]4CCN(C4)C(=O)CCCN(C)C" YPK SMILES "OpenEye OEToolkits" 2.0.7 "Cc1cc(n2c(n1)c(cn2)C(C)C)NC3CCN(CC3)C(=O)OC4CCN(C4)C(=O)CCCN(C)C" # _pdbx_chem_comp_identifier.comp_id YPK _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "[(3~{S})-1-[4-(dimethylamino)butanoyl]pyrrolidin-3-yl] 4-[(5-methyl-3-propan-2-yl-pyrazolo[1,5-a]pyrimidin-7-yl)amino]piperidine-1-carboxylate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YPK "Create component" 2023-12-08 PDBE YPK "Initial release" 2024-05-29 RCSB #