data_A1BYL # _chem_comp.id A1BYL _chem_comp.name "Almonertinib, bound form" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C30 H37 N7 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-02-27 _chem_comp.pdbx_modified_date 2025-10-03 _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 527.660 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1BYL _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 9NJ7 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm Y # 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 A1BYL C01 C1 C 0 1 N N N N N N -3.738 14.587 46.684 9.802 -0.648 0.823 C01 A1BYL 1 A1BYL C03 C2 C 0 1 N N N N N N -2.238 16.422 46.910 7.957 -0.649 2.392 C03 A1BYL 2 A1BYL C04 C3 C 0 1 N N N N N N -1.629 14.246 47.765 7.548 -0.230 0.043 C04 A1BYL 3 A1BYL C05 C4 C 0 1 N N N N N N -0.470 14.898 48.562 6.112 -0.754 0.108 C05 A1BYL 4 A1BYL C07 C5 C 0 1 N N N N N N -1.724 13.950 50.592 5.703 -0.334 -2.241 C07 A1BYL 5 A1BYL C08 C6 C 0 1 Y N N N N N -0.202 15.976 50.860 3.924 -0.321 -0.681 C08 A1BYL 6 A1BYL C09 C7 C 0 1 Y N N N N N 0.989 15.726 51.532 3.472 -1.628 -0.787 C09 A1BYL 7 A1BYL C10 C8 C 0 1 Y N N N N N 1.543 16.718 52.339 2.129 -1.914 -0.604 C10 A1BYL 8 A1BYL C11 C9 C 0 1 Y N N N N N 0.918 17.946 52.479 1.232 -0.890 -0.314 C11 A1BYL 9 A1BYL C12 C10 C 0 1 Y N N N N N -0.286 18.188 51.806 1.682 0.418 -0.207 C12 A1BYL 10 A1BYL C13 C11 C 0 1 Y N N N N N -0.845 17.195 50.995 3.027 0.704 -0.385 C13 A1BYL 11 A1BYL C15 C12 C 0 1 N N N N N N -3.226 18.205 50.608 2.839 2.895 0.531 C15 A1BYL 12 A1BYL C17 C13 C 0 1 N N N N N N -4.690 18.213 49.889 3.263 4.341 0.570 C17 A1BYL 13 A1BYL C18 C14 C 0 1 N N N N N N -5.918 17.874 50.279 2.376 5.106 1.554 C18 A1BYL 14 A1BYL C20 C15 C 0 1 Y N N N N N 1.388 20.379 53.364 -1.091 -0.259 -0.506 C20 A1BYL 15 A1BYL C22 C16 C 0 1 Y N N N N N 1.806 22.400 54.350 -1.608 1.740 -1.534 C22 A1BYL 16 A1BYL C23 C17 C 0 1 Y N N N N N 1.059 23.054 53.373 -2.944 1.538 -1.246 C23 A1BYL 17 A1BYL C24 C18 C 0 1 Y N N N N N 0.486 22.267 52.392 -3.310 0.371 -0.564 C24 A1BYL 18 A1BYL C26 C19 C 0 1 Y N N N N N -0.365 22.892 51.274 -4.727 0.108 -0.233 C26 A1BYL 19 A1BYL C27 C20 C 0 1 Y N N N N N -0.832 24.200 51.260 -5.790 0.899 -0.529 C27 A1BYL 20 A1BYL C29 C21 C 0 1 Y N N N N N -1.536 23.196 49.411 -6.650 -0.873 0.553 C29 A1BYL 21 A1BYL C30 C22 C 0 1 Y N N N N N -2.139 22.881 48.156 -7.439 -1.831 1.181 C30 A1BYL 22 A1BYL C31 C23 C 0 1 Y N N N N N -1.997 21.600 47.620 -6.855 -2.957 1.719 C31 A1BYL 23 A1BYL C32 C24 C 0 1 Y N N N N N -1.264 20.626 48.310 -5.483 -3.148 1.641 C32 A1BYL 24 A1BYL C33 C25 C 0 1 Y N N N N N -0.674 20.940 49.537 -4.685 -2.212 1.022 C33 A1BYL 25 A1BYL C34 C26 C 0 1 Y N N N N N -0.818 22.247 50.089 -5.261 -1.067 0.475 C34 A1BYL 26 A1BYL C35 C27 C 0 1 N N N N N N -2.194 25.616 49.740 -8.274 0.902 -0.201 C35 A1BYL 27 A1BYL C36 C28 C 0 1 N N N N N N -2.757 26.614 50.755 -8.425 2.138 -1.090 C36 A1BYL 28 A1BYL C37 C29 C 0 1 N N N N N N -3.643 26.095 49.629 -8.521 2.274 0.431 C37 A1BYL 29 A1BYL C39 C30 C 0 1 N N N N N N 3.501 15.443 52.462 2.662 -4.197 -1.009 C39 A1BYL 30 A1BYL N02 N1 N 0 1 N N N N N N -2.744 15.203 47.561 8.377 -0.951 1.017 N02 A1BYL 31 A1BYL N06 N2 N 0 1 N N N N N N -0.800 14.939 50.003 5.283 -0.032 -0.866 N06 A1BYL 32 A1BYL N14 N3 N 0 1 N N N N N N -2.095 17.365 50.239 3.484 2.026 -0.271 N14 A1BYL 33 A1BYL N19 N4 N 0 1 N N N N N N 1.580 18.925 53.369 -0.129 -1.181 -0.129 N19 A1BYL 34 A1BYL N21 N5 N 0 1 Y N N N N N 1.956 21.083 54.316 -0.718 0.835 -1.155 N21 A1BYL 35 A1BYL N25 N6 N 0 1 Y N N N N N 0.674 20.962 52.424 -2.360 -0.496 -0.214 N25 A1BYL 36 A1BYL N28 N7 N 0 1 Y N N N N N -1.529 24.366 50.133 -6.934 0.327 -0.064 N28 A1BYL 37 A1BYL O16 O1 O 0 1 N N N N N N -3.235 18.858 51.591 1.918 2.514 1.222 O16 A1BYL 38 A1BYL O38 O2 O 0 1 N N N N N N 2.740 16.481 53.016 1.686 -3.197 -0.709 O38 A1BYL 39 A1BYL H012 H1 H 0 0 N N N N N N -4.128 13.673 47.156 10.393 -1.195 1.557 H012 A1BYL 40 A1BYL H013 H2 H 0 0 N N N N N N -4.565 15.293 46.514 10.103 -0.946 -0.181 H013 A1BYL 41 A1BYL H011 H3 H 0 0 N N N N N N -3.270 14.332 45.722 9.966 0.422 0.949 H011 A1BYL 42 A1BYL H032 H4 H 0 0 N N N N N N -1.488 16.899 47.557 6.918 -0.948 2.528 H032 A1BYL 43 A1BYL H031 H5 H 0 0 N N N N N N -1.777 16.159 45.947 8.588 -1.196 3.093 H031 A1BYL 44 A1BYL H033 H6 H 0 0 N N N N N N -3.071 17.119 46.739 8.055 0.421 2.575 H033 A1BYL 45 A1BYL H041 H7 H 0 0 N N N N N N -2.002 13.374 48.322 7.946 -0.386 -0.960 H041 A1BYL 46 A1BYL H042 H8 H 0 0 N N N N N N -1.252 13.920 46.784 7.557 0.835 0.276 H042 A1BYL 47 A1BYL H052 H9 H 0 0 N N N N N N 0.448 14.309 48.416 6.103 -1.819 -0.125 H052 A1BYL 48 A1BYL H051 H10 H 0 0 N N N N N N -0.310 15.923 48.197 5.714 -0.598 1.111 H051 A1BYL 49 A1BYL H071 H11 H 0 0 N N N N N N -1.838 14.149 51.668 5.119 0.266 -2.939 H071 A1BYL 50 A1BYL H073 H12 H 0 0 N N N N N N -2.705 14.026 50.099 6.761 -0.101 -2.357 H073 A1BYL 51 A1BYL H072 H13 H 0 0 N N N N N N -1.318 12.938 50.448 5.539 -1.392 -2.447 H072 A1BYL 52 A1BYL H091 H14 H 0 0 N N N N N N 1.481 14.770 51.429 4.168 -2.423 -1.013 H091 A1BYL 53 A1BYL H121 H15 H 0 0 N N N N N N -0.783 19.141 51.913 0.986 1.212 0.018 H121 A1BYL 54 A1BYL H171 H16 H 0 0 N N N N N N -4.809 19.263 49.582 4.302 4.407 0.892 H171 A1BYL 55 A1BYL H182 H17 H 0 0 N N N N N N -6.625 18.044 49.454 2.476 4.671 2.548 H182 A1BYL 56 A1BYL H181 H18 H 0 0 N N N N N N -5.933 16.811 50.561 2.682 6.152 1.582 H181 A1BYL 57 A1BYL H221 H19 H 0 0 N N N N N N 2.267 22.971 55.142 -1.292 2.628 -2.062 H221 A1BYL 58 A1BYL H231 H20 H 0 0 N N N N N N 0.933 24.127 53.382 -3.688 2.261 -1.543 H231 A1BYL 59 A1BYL H271 H21 H 0 0 N N N N N N -0.662 24.947 52.022 -5.735 1.842 -1.053 H271 A1BYL 60 A1BYL H301 H22 H 0 0 N N N N N N -2.703 23.632 47.623 -8.508 -1.692 1.247 H301 A1BYL 61 A1BYL H311 H23 H 0 0 N N N N N N -2.453 21.359 46.671 -7.472 -3.699 2.205 H311 A1BYL 62 A1BYL H321 H24 H 0 0 N N N N N N -1.155 19.635 47.895 -5.039 -4.036 2.067 H321 A1BYL 63 A1BYL H331 H25 H 0 0 N N N N N N -0.107 20.190 50.069 -3.617 -2.364 0.963 H331 A1BYL 64 A1BYL H351 H26 H 0 0 N N N N N N -1.578 26.156 49.006 -9.096 0.187 -0.189 H351 A1BYL 65 A1BYL H361 H27 H 0 0 N N N N N N -2.944 26.297 51.792 -7.527 2.523 -1.573 H361 A1BYL 66 A1BYL H362 H28 H 0 0 N N N N N N -2.414 27.659 50.747 -9.346 2.236 -1.664 H362 A1BYL 67 A1BYL H371 H29 H 0 0 N N N N N N -4.469 25.404 49.854 -9.507 2.461 0.858 H371 A1BYL 68 A1BYL H372 H30 H 0 0 N N N N N N -3.939 26.766 48.809 -7.687 2.747 0.948 H372 A1BYL 69 A1BYL H393 H31 H 0 0 N N N N N N 4.425 15.314 53.045 3.132 -3.970 -1.966 H393 A1BYL 70 A1BYL H391 H32 H 0 0 N N N N N N 2.920 14.509 52.485 3.420 -4.212 -0.226 H391 A1BYL 71 A1BYL H392 H33 H 0 0 N N N N N N 3.756 15.690 51.421 2.177 -5.172 -1.064 H392 A1BYL 72 A1BYL H141 H35 H 0 0 N N N N N N -2.177 16.852 49.385 4.264 2.313 -0.771 H141 A1BYL 73 A1BYL H191 H36 H 0 0 N N N N N N 2.223 18.559 54.042 -0.395 -2.027 0.263 H191 A1BYL 74 A1BYL H2 H38 H 0 1 N N N N N N -4.532 17.587 48.999 3.162 4.776 -0.424 H2 A1BYL 75 A1BYL H3 H37 H 0 1 N N N N N N -6.210 18.487 51.144 1.336 5.041 1.232 H3 A1BYL 76 # 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 A1BYL N02 C01 SING N N 1 A1BYL C03 N02 SING N N 2 A1BYL C04 N02 SING N N 3 A1BYL C05 C04 SING N N 4 A1BYL N06 C05 SING N N 5 A1BYL C07 N06 SING N N 6 A1BYL C08 N06 SING N N 7 A1BYL C09 C08 DOUB Y N 8 A1BYL C10 C09 SING Y N 9 A1BYL C13 C12 DOUB Y N 10 A1BYL N14 C13 SING N N 11 A1BYL C15 N14 SING N N 12 A1BYL O16 C15 DOUB N N 13 A1BYL C17 C15 SING N N 14 A1BYL C18 C17 SING N N 15 A1BYL C12 C11 SING Y N 16 A1BYL N19 C11 SING N N 17 A1BYL C20 N19 SING N N 18 A1BYL N21 C20 DOUB Y N 19 A1BYL C22 N21 SING Y N 20 A1BYL C23 C22 DOUB Y N 21 A1BYL C24 C23 SING Y N 22 A1BYL N25 C24 DOUB Y N 23 A1BYL C26 C24 SING N N 24 A1BYL C27 C26 DOUB Y N 25 A1BYL N28 C27 SING Y N 26 A1BYL C30 C29 DOUB Y N 27 A1BYL C31 C30 SING Y N 28 A1BYL C32 C31 DOUB Y N 29 A1BYL C33 C32 SING Y N 30 A1BYL C34 C33 DOUB Y N 31 A1BYL C29 N28 SING Y N 32 A1BYL C35 N28 SING N N 33 A1BYL C36 C35 SING N N 34 A1BYL C37 C36 SING N N 35 A1BYL C11 C10 DOUB Y N 36 A1BYL O38 C10 SING N N 37 A1BYL C39 O38 SING N N 38 A1BYL C08 C13 SING Y N 39 A1BYL C20 N25 SING Y N 40 A1BYL C26 C34 SING Y N 41 A1BYL C29 C34 SING Y N 42 A1BYL C35 C37 SING N N 43 A1BYL C01 H012 SING N N 44 A1BYL C01 H013 SING N N 45 A1BYL C01 H011 SING N N 46 A1BYL C03 H032 SING N N 47 A1BYL C03 H031 SING N N 48 A1BYL C03 H033 SING N N 49 A1BYL C04 H041 SING N N 50 A1BYL C04 H042 SING N N 51 A1BYL C05 H052 SING N N 52 A1BYL C05 H051 SING N N 53 A1BYL C07 H071 SING N N 54 A1BYL C07 H073 SING N N 55 A1BYL C07 H072 SING N N 56 A1BYL C09 H091 SING N N 57 A1BYL C12 H121 SING N N 58 A1BYL C17 H171 SING N N 59 A1BYL C18 H182 SING N N 60 A1BYL C18 H181 SING N N 61 A1BYL C22 H221 SING N N 62 A1BYL C23 H231 SING N N 63 A1BYL C27 H271 SING N N 64 A1BYL C30 H301 SING N N 65 A1BYL C31 H311 SING N N 66 A1BYL C32 H321 SING N N 67 A1BYL C33 H331 SING N N 68 A1BYL C35 H351 SING N N 69 A1BYL C36 H361 SING N N 70 A1BYL C36 H362 SING N N 71 A1BYL C37 H371 SING N N 72 A1BYL C37 H372 SING N N 73 A1BYL C39 H393 SING N N 74 A1BYL C39 H391 SING N N 75 A1BYL C39 H392 SING N N 76 A1BYL N14 H141 SING N N 77 A1BYL N19 H191 SING N N 78 A1BYL C17 H2 SING N N 79 A1BYL C18 H3 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 A1BYL SMILES ACDLabs 14.52 "CN(C)CCN(C)c1cc(OC)c(cc1NC(=O)CC)Nc1nccc(n1)c1cn(c2ccccc21)C1CC1" A1BYL InChI InChI 1.06 "InChI=1S/C30H37N7O2/c1-6-29(38)32-24-17-25(28(39-5)18-27(24)36(4)16-15-35(2)3)34-30-31-14-13-23(33-30)22-19-37(20-11-12-20)26-10-8-7-9-21(22)26/h7-10,13-14,17-20H,6,11-12,15-16H2,1-5H3,(H,32,38)(H,31,33,34)" A1BYL InChIKey InChI 1.06 FBRYXFGDUYYXEG-UHFFFAOYSA-N A1BYL SMILES_CANONICAL CACTVS 3.385 "CCC(=O)Nc1cc(Nc2nccc(n2)c3cn(C4CC4)c5ccccc35)c(OC)cc1N(C)CCN(C)C" A1BYL SMILES CACTVS 3.385 "CCC(=O)Nc1cc(Nc2nccc(n2)c3cn(C4CC4)c5ccccc35)c(OC)cc1N(C)CCN(C)C" A1BYL SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "CCC(=O)Nc1cc(c(cc1N(C)CCN(C)C)OC)Nc2nccc(n2)c3cn(c4c3cccc4)C5CC5" A1BYL SMILES "OpenEye OEToolkits" 3.1.0.0 "CCC(=O)Nc1cc(c(cc1N(C)CCN(C)C)OC)Nc2nccc(n2)c3cn(c4c3cccc4)C5CC5" # 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 A1BYL "SYSTEMATIC NAME" ACDLabs 14.52 "N-(5-{[(4P)-4-(1-cyclopropyl-1H-indol-3-yl)pyrimidin-2-yl]amino}-2-{[2-(dimethylamino)ethyl](methyl)amino}-4-methoxyphenyl)propanamide" A1BYL "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "~{N}-[5-[[4-(1-cyclopropylindol-3-yl)pyrimidin-2-yl]amino]-2-[2-(dimethylamino)ethyl-methyl-amino]-4-methoxy-phenyl]propanamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1BYL "Create component" 2025-02-27 RCSB A1BYL "Modify PCM" 2025-02-27 RCSB A1BYL "Modify atom id" 2025-10-01 RCSB A1BYL "Initial release" 2025-10-08 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1BYL _pdbx_chem_comp_pcm.modified_residue_id CYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C18 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #