data_A1JR4 # _chem_comp.id A1JR4 _chem_comp.name "~{N}-[1-[4-[[(3~{a}~{S},6~{a}~{R})-3,3~{a},4,5,6,6~{a}-hexahydro-1~{H}-cyclopenta[c]pyrrol-2-yl]methyl]phenyl]piperidin-4-yl]-4-oxidanylidene-pyrido[1,2-a]pyrimidine-2-carboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H33 N5 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-10-14 _chem_comp.pdbx_modified_date 2026-10-30 _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 471.594 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1JR4 _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 9SYX _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm ? _chem_comp.pdbx_comp_type ? # 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 A1JR4 N3 N1 N 0 1 N N N N N N -21.714 30.816 -2.574 -2.896 -1.908 0.576 N3 A1JR4 1 A1JR4 C2 C1 C 0 1 N N N N N N -20.588 31.440 -2.197 -4.138 -1.923 0.053 C2 A1JR4 2 A1JR4 C6 C2 C 0 1 N N N N N N -22.832 27.344 -1.833 -0.112 -1.892 1.452 C6 A1JR4 3 A1JR4 C5 C3 C 0 1 N N N N N N -21.790 28.430 -2.059 -1.080 -3.034 1.769 C5 A1JR4 4 A1JR4 C4 C4 C 0 1 N N N N N N -22.367 29.801 -1.750 -2.116 -3.146 0.647 C4 A1JR4 5 A1JR4 C10 C5 C 0 1 Y N N N N N -25.282 25.464 -5.544 2.748 0.766 0.566 C10 A1JR4 6 A1JR4 C11 C6 C 0 1 Y N N N N N -24.190 24.675 -5.877 3.493 0.693 -0.597 C11 A1JR4 7 A1JR4 C12 C7 C 0 1 N N N N N N -24.262 23.700 -7.029 4.557 1.723 -0.874 C12 A1JR4 8 A1JR4 C14 C8 C 0 1 N N N N N N -23.836 21.679 -5.640 6.427 0.188 -1.146 C14 A1JR4 9 A1JR4 C15 C9 C 0 1 N N R N N N -24.758 21.292 -4.483 7.928 0.193 -0.787 C15 A1JR4 10 A1JR4 C16 C10 C 0 1 N N N N N N -25.288 19.854 -4.533 8.158 -0.758 0.405 C16 A1JR4 11 A1JR4 C17 C11 C 0 1 N N N N N N -26.677 19.930 -3.921 9.115 0.023 1.339 C17 A1JR4 12 A1JR4 C18 C12 C 0 1 N N N N N N -27.154 21.376 -4.041 8.596 1.477 1.221 C18 A1JR4 13 A1JR4 C19 C13 C 0 1 N N S N N N -26.004 22.135 -4.721 8.208 1.625 -0.264 C19 A1JR4 14 A1JR4 C20 C14 C 0 1 N N N N N N -26.067 22.184 -6.242 6.851 2.354 -0.355 C20 A1JR4 15 A1JR4 C21 C15 C 0 1 Y N N N N N -23.020 24.837 -5.150 3.265 -0.325 -1.505 C21 A1JR4 16 A1JR4 C22 C16 C 0 1 Y N N N N N -22.938 25.758 -4.121 2.291 -1.271 -1.253 C22 A1JR4 17 A1JR4 C23 C17 C 0 1 N N N N N N -24.245 28.870 -3.116 -0.415 -2.220 -0.930 C23 A1JR4 18 A1JR4 C24 C18 C 0 1 N N N N N N -23.870 29.812 -1.980 -1.393 -3.372 -0.683 C24 A1JR4 19 A1JR4 C25 C19 C 0 1 N N N N N N -20.041 32.398 -3.190 -4.929 -0.668 -0.020 C25 A1JR4 20 A1JR4 C27 C20 C 0 1 N N N N N N -20.329 33.460 -5.230 -5.098 1.611 0.379 C27 A1JR4 21 A1JR4 C28 C21 C 0 1 N N N N N N -21.080 33.715 -6.408 -4.512 2.794 0.868 C28 A1JR4 22 A1JR4 C29 C22 C 0 1 N N N N N N -20.613 34.581 -7.344 -5.214 3.961 0.814 C29 A1JR4 23 A1JR4 C30 C23 C 0 1 N N N N N N -19.388 35.237 -7.166 -6.507 3.966 0.274 C30 A1JR4 24 A1JR4 C31 C24 C 0 1 N N N N N N -18.659 35.010 -6.055 -7.054 2.820 -0.191 C31 A1JR4 25 A1JR4 C33 C25 C 0 1 N N N N N N -18.842 33.019 -2.980 -6.212 -0.683 -0.554 C33 A1JR4 26 A1JR4 C34 C26 C 0 1 N N N N N N -18.297 33.932 -3.925 -6.935 0.518 -0.609 C34 A1JR4 27 A1JR4 C8 C27 C 0 1 Y N N N N N -24.034 26.546 -3.790 1.541 -1.201 -0.087 C8 A1JR4 28 A1JR4 C9 C28 C 0 1 Y N N N N N -25.210 26.388 -4.516 1.776 -0.180 0.826 C9 A1JR4 29 A1JR4 N13 N2 N 0 1 N N N N N N -24.667 22.333 -6.666 5.837 1.269 -0.315 N13 A1JR4 30 A1JR4 N26 N3 N 0 1 N N N N N N -20.794 32.616 -4.319 -4.413 0.473 0.431 N26 A1JR4 31 A1JR4 N32 N4 N 0 1 N N N N N N -19.119 34.131 -5.092 -6.362 1.649 -0.143 N32 A1JR4 32 A1JR4 N7 N5 N 0 1 N N N N N N -23.953 27.476 -2.769 0.555 -2.156 0.170 N7 A1JR4 33 A1JR4 O1 O1 O 0 1 N N N N N N -20.039 31.254 -1.110 -4.611 -2.963 -0.359 O1 A1JR4 34 A1JR4 O35 O2 O 0 1 N N N N N N -17.231 34.538 -3.832 -8.064 0.541 -1.071 O35 A1JR4 35 A1JR4 H3 H1 H 0 1 N N N N N N -22.123 31.055 -3.455 -2.517 -1.076 0.901 H3 A1JR4 36 A1JR4 H6A H2 H 0 1 N N N N N N -22.361 26.360 -1.975 -0.665 -0.955 1.387 H6A A1JR4 37 A1JR4 H6B H3 H 0 1 N N N N N N -23.213 27.422 -0.804 0.635 -1.819 2.242 H6B A1JR4 38 A1JR4 H5A H4 H 0 1 N N N N N N -21.463 28.404 -3.109 -0.526 -3.969 1.848 H5A A1JR4 39 A1JR4 H5B H5 H 0 1 N N N N N N -20.927 28.245 -1.402 -1.586 -2.830 2.713 H5B A1JR4 40 A1JR4 H4 H6 H 0 1 N N N N N N -22.179 30.024 -0.689 -2.782 -3.985 0.848 H4 A1JR4 41 A1JR4 H10 H7 H 0 1 N N N N N N -26.204 25.355 -6.096 2.929 1.562 1.273 H10 A1JR4 42 A1JR4 H12A H8 H 0 0 N N N N N N -24.988 24.088 -7.759 4.659 1.860 -1.951 H12A A1JR4 43 A1JR4 H12B H9 H 0 0 N N N N N N -23.267 23.648 -7.494 4.275 2.670 -0.413 H12B A1JR4 44 A1JR4 H14A H10 H 0 0 N N N N N N -23.360 20.780 -6.059 6.289 0.405 -2.205 H14A A1JR4 45 A1JR4 H14B H11 H 0 0 N N N N N N -23.060 22.373 -5.286 5.980 -0.774 -0.895 H14B A1JR4 46 A1JR4 H15 H12 H 0 1 N N N N N N -24.298 21.517 -3.509 8.550 -0.070 -1.642 H15 A1JR4 47 A1JR4 H16A H13 H 0 0 N N N N N N -25.341 19.497 -5.572 7.217 -0.968 0.912 H16A A1JR4 48 A1JR4 H16B H14 H 0 0 N N N N N N -24.643 19.183 -3.947 8.626 -1.683 0.068 H16B A1JR4 49 A1JR4 H17A H15 H 0 0 N N N N N N -27.363 19.262 -4.463 9.031 -0.335 2.365 H17A A1JR4 50 A1JR4 H17B H16 H 0 0 N N N N N N -26.637 19.634 -2.862 10.144 -0.049 0.986 H17B A1JR4 51 A1JR4 H18A H17 H 0 0 N N N N N N -28.065 21.430 -4.654 7.724 1.623 1.859 H18A A1JR4 52 A1JR4 H18B H18 H 0 0 N N N N N N -27.357 21.797 -3.045 9.382 2.185 1.483 H18B A1JR4 53 A1JR4 H19 H19 H 0 1 N N N N N N -25.890 23.143 -4.295 8.978 2.127 -0.849 H19 A1JR4 54 A1JR4 H20A H20 H 0 0 N N N N N N -26.498 21.255 -6.643 6.722 3.025 0.494 H20A A1JR4 55 A1JR4 H20B H21 H 0 0 N N N N N N -26.668 23.042 -6.578 6.779 2.907 -1.292 H20B A1JR4 56 A1JR4 H21 H22 H 0 1 N N N N N N -22.158 24.233 -5.392 3.849 -0.379 -2.412 H21 A1JR4 57 A1JR4 H22 H23 H 0 1 N N N N N N -22.015 25.866 -3.571 2.113 -2.066 -1.963 H22 A1JR4 58 A1JR4 H23A H24 H 0 0 N N N N N N -23.671 29.144 -4.013 0.112 -2.386 -1.870 H23A A1JR4 59 A1JR4 H23B H25 H 0 0 N N N N N N -25.320 28.970 -3.324 -0.967 -1.281 -0.983 H23B A1JR4 60 A1JR4 H24A H26 H 0 0 N N N N N N -24.189 30.833 -2.237 -0.843 -4.313 -0.644 H24A A1JR4 61 A1JR4 H24B H27 H 0 0 N N N N N N -24.379 29.489 -1.060 -2.122 -3.410 -1.492 H24B A1JR4 62 A1JR4 H28 H28 H 0 1 N N N N N N -22.027 33.218 -6.560 -3.515 2.777 1.282 H28 A1JR4 63 A1JR4 H29 H29 H 0 1 N N N N N N -21.193 34.766 -8.236 -4.777 4.876 1.186 H29 A1JR4 64 A1JR4 H30 H30 H 0 1 N N N N N N -19.028 35.924 -7.918 -7.069 4.888 0.229 H30 A1JR4 65 A1JR4 H31 H31 H 0 1 N N N N N N -17.715 35.515 -5.917 -8.051 2.834 -0.605 H31 A1JR4 66 A1JR4 H33 H32 H 0 1 N N N N N N -18.294 32.811 -2.073 -6.645 -1.602 -0.919 H33 A1JR4 67 A1JR4 H9 H33 H 0 1 N N N N N N -26.073 26.991 -4.276 1.195 -0.122 1.734 H9 A1JR4 68 # 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 A1JR4 O1 C2 DOUB N N 1 A1JR4 C2 N3 SING N N 2 A1JR4 N3 C4 SING N N 3 A1JR4 C4 C5 SING N N 4 A1JR4 C5 C6 SING N N 5 A1JR4 C6 N7 SING N N 6 A1JR4 N7 C8 SING N N 7 A1JR4 C8 C9 DOUB Y N 8 A1JR4 C9 C10 SING Y N 9 A1JR4 C10 C11 DOUB Y N 10 A1JR4 C11 C12 SING N N 11 A1JR4 C12 N13 SING N N 12 A1JR4 N13 C14 SING N N 13 A1JR4 C14 C15 SING N N 14 A1JR4 C15 C16 SING N N 15 A1JR4 C16 C17 SING N N 16 A1JR4 C17 C18 SING N N 17 A1JR4 C15 C19 SING N N 18 A1JR4 C19 C20 SING N N 19 A1JR4 C11 C21 SING Y N 20 A1JR4 C21 C22 DOUB Y N 21 A1JR4 N7 C23 SING N N 22 A1JR4 C23 C24 SING N N 23 A1JR4 C2 C25 SING N N 24 A1JR4 C25 N26 SING N N 25 A1JR4 N26 C27 DOUB N N 26 A1JR4 C27 C28 SING N N 27 A1JR4 C28 C29 DOUB N N 28 A1JR4 C29 C30 SING N N 29 A1JR4 C30 C31 DOUB N N 30 A1JR4 C31 N32 SING N N 31 A1JR4 C25 C33 DOUB N N 32 A1JR4 C33 C34 SING N N 33 A1JR4 C34 O35 DOUB N N 34 A1JR4 C24 C4 SING N N 35 A1JR4 C22 C8 SING Y N 36 A1JR4 C20 N13 SING N N 37 A1JR4 C19 C18 SING N N 38 A1JR4 N32 C27 SING N N 39 A1JR4 C34 N32 SING N N 40 A1JR4 N3 H3 SING N N 41 A1JR4 C6 H6A SING N N 42 A1JR4 C6 H6B SING N N 43 A1JR4 C5 H5A SING N N 44 A1JR4 C5 H5B SING N N 45 A1JR4 C4 H4 SING N N 46 A1JR4 C10 H10 SING N N 47 A1JR4 C12 H12A SING N N 48 A1JR4 C12 H12B SING N N 49 A1JR4 C14 H14A SING N N 50 A1JR4 C14 H14B SING N N 51 A1JR4 C15 H15 SING N N 52 A1JR4 C16 H16A SING N N 53 A1JR4 C16 H16B SING N N 54 A1JR4 C17 H17A SING N N 55 A1JR4 C17 H17B SING N N 56 A1JR4 C18 H18A SING N N 57 A1JR4 C18 H18B SING N N 58 A1JR4 C19 H19 SING N N 59 A1JR4 C20 H20A SING N N 60 A1JR4 C20 H20B SING N N 61 A1JR4 C21 H21 SING N N 62 A1JR4 C22 H22 SING N N 63 A1JR4 C23 H23A SING N N 64 A1JR4 C23 H23B SING N N 65 A1JR4 C24 H24A SING N N 66 A1JR4 C24 H24B SING N N 67 A1JR4 C28 H28 SING N N 68 A1JR4 C29 H29 SING N N 69 A1JR4 C30 H30 SING N N 70 A1JR4 C31 H31 SING N N 71 A1JR4 C33 H33 SING N N 72 A1JR4 C9 H9 SING N N 73 # 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 A1JR4 InChI InChI 1.06 "InChI=1S/C28H33N5O2/c34-27-16-25(30-26-6-1-2-13-33(26)27)28(35)29-23-11-14-32(15-12-23)24-9-7-20(8-10-24)17-31-18-21-4-3-5-22(21)19-31/h1-2,6-10,13,16,21-23H,3-5,11-12,14-15,17-19H2,(H,29,35)/t21-,22+" A1JR4 InChIKey InChI 1.06 YGUNIAYCWXEUIF-SZPZYZBQSA-N A1JR4 SMILES_CANONICAL CACTVS 3.385 "O=C(NC1CCN(CC1)c2ccc(CN3C[C@@H]4CCC[C@@H]4C3)cc2)C5=CC(=O)N6C=CC=CC6=N5" A1JR4 SMILES CACTVS 3.385 "O=C(NC1CCN(CC1)c2ccc(CN3C[CH]4CCC[CH]4C3)cc2)C5=CC(=O)N6C=CC=CC6=N5" A1JR4 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(ccc1CN2C[C@H]3CCC[C@H]3C2)N4CCC(CC4)NC(=O)C5=CC(=O)N6C=CC=CC6=N5" A1JR4 SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(ccc1CN2CC3CCCC3C2)N4CCC(CC4)NC(=O)C5=CC(=O)N6C=CC=CC6=N5" # _pdbx_chem_comp_identifier.comp_id A1JR4 _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 "~{N}-[1-[4-[[(3~{a}~{S},6~{a}~{R})-3,3~{a},4,5,6,6~{a}-hexahydro-1~{H}-cyclopenta[c]pyrrol-2-yl]methyl]phenyl]piperidin-4-yl]-4-oxidanylidene-pyrido[1,2-a]pyrimidine-2-carboxamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1JR4 "Create component" 2025-10-14 PDBE A1JR4 "Initial release" 2026-11-04 RCSB #