data_A1L6B # _chem_comp.id A1L6B _chem_comp.name "Glecirasib bound form" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C31 H26 Cl F4 N7 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "7-[2-azanyl-3,4,5,6-tetrakis(fluoranyl)phenyl]-6-chloranyl-1-(4-methyl-2-propan-2-yl-pyridin-3-yl)-2-oxidanylidene-4-(4-prop-2-enoylpiperazin-1-yl)-1,8-naphthyridine-3-carbonitrile" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-11-25 _chem_comp.pdbx_modified_date 2025-11-17 _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 640.030 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1L6B _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 9KPN _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ _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 A1L6B C1 C1 C 0 1 N N N N N N 13.631 11.392 4.026 -0.603 4.464 2.845 C1 A1L6B 1 A1L6B C2 C2 C 0 1 N N N N N N 12.869 13.728 3.485 -2.177 2.526 2.928 C2 A1L6B 2 A1L6B C3 C3 C 0 1 N N N N N N 13.333 12.383 2.919 -1.060 3.194 2.124 C3 A1L6B 3 A1L6B C4 C4 C 0 1 N N N N N N 15.667 12.131 -1.577 -0.820 2.784 -2.879 C4 A1L6B 4 A1L6B O1 O1 O 0 1 N N N N N N 14.276 9.643 0.766 1.523 3.854 -0.317 O1 A1L6B 5 A1L6B N1 N1 N 0 1 N N N N N N 10.095 9.595 -1.463 3.425 -0.402 0.152 N1 A1L6B 6 A1L6B C5 C5 C 0 1 Y N N N N N 11.883 15.918 -0.892 -2.996 -1.454 -0.091 C5 A1L6B 7 A1L6B C6 C6 C 0 1 Y N N N N N 14.550 12.621 2.054 -1.573 3.552 0.753 C6 A1L6B 8 A1L6B N2 N2 N 0 1 Y N N N N N 15.619 13.212 2.584 -2.594 4.376 0.633 N2 A1L6B 9 A1L6B C7 C7 C 0 1 Y N N N N N 16.685 13.475 1.833 -3.077 4.718 -0.546 C7 A1L6B 10 A1L6B C8 C8 C 0 1 Y N N N N N 16.722 13.142 0.493 -2.524 4.219 -1.711 C8 A1L6B 11 A1L6B C9 C9 C 0 1 Y N N N N N 15.634 12.517 -0.107 -1.449 3.349 -1.632 C9 A1L6B 12 A1L6B C10 C10 C 0 1 Y N N N N N 14.529 12.271 0.714 -0.961 3.014 -0.371 C10 A1L6B 13 A1L6B C11 C11 C 0 1 N N N N N N 11.234 10.280 -1.034 2.343 0.432 0.024 C11 A1L6B 14 A1L6B C12 C12 C 0 1 N N N N N N 12.262 9.577 -0.341 2.510 1.819 -0.089 C12 A1L6B 15 A1L6B C13 C13 C 0 1 N N N N N N 13.371 10.266 0.204 1.371 2.649 -0.220 C13 A1L6B 16 A1L6B N3 N3 N 0 1 N N N N N N 13.395 11.608 0.184 0.128 2.143 -0.239 N3 A1L6B 17 A1L6B C14 C14 C 0 1 Y N N N N N 10.451 12.542 -1.820 0.739 -1.479 0.097 C14 A1L6B 18 A1L6B C15 C15 C 0 1 Y N N N N N 11.346 11.744 -1.104 0.979 -0.102 -0.005 C15 A1L6B 19 A1L6B C16 C16 C 0 1 Y N N N N N 12.420 12.360 -0.428 -0.106 0.787 -0.133 C16 A1L6B 20 A1L6B N4 N4 N 0 1 Y N N N N N 12.538 13.672 -0.407 -1.345 0.317 -0.156 N4 A1L6B 21 A1L6B C17 C17 C 0 1 Y N N N N N 11.692 14.456 -1.064 -1.595 -0.982 -0.061 C17 A1L6B 22 A1L6B C18 C18 C 0 1 Y N N N N N 10.623 13.897 -1.788 -0.559 -1.915 0.068 C18 A1L6B 23 A1L6B C19 C19 C 0 1 N N N N N N 10.134 8.281 -2.098 4.247 -0.380 1.371 C19 A1L6B 24 A1L6B C20 C20 C 0 1 N N N N N N 9.019 8.045 -3.095 5.707 -0.131 0.973 C20 A1L6B 25 A1L6B N5 N5 N 0 1 N N N N N N 7.697 8.591 -2.699 6.065 -1.063 -0.106 N5 A1L6B 26 A1L6B C21 C21 C 0 1 N N N N N N 7.675 9.887 -1.994 5.243 -1.085 -1.324 C21 A1L6B 27 A1L6B C22 C22 C 0 1 N N N N N N 8.771 9.962 -0.938 3.780 -1.338 -0.924 C22 A1L6B 28 A1L6B C23 C23 C 0 1 Y N N N N N 13.097 16.555 -1.117 -3.812 -1.166 -1.192 C23 A1L6B 29 A1L6B C24 C24 C 0 1 Y N N N N N 13.167 17.918 -0.866 -5.125 -1.618 -1.215 C24 A1L6B 30 A1L6B C25 C25 C 0 1 Y N N N N N 12.113 18.639 -0.377 -5.625 -2.352 -0.153 C25 A1L6B 31 A1L6B C26 C26 C 0 1 Y N N N N N 10.919 18.032 -0.114 -4.819 -2.639 0.941 C26 A1L6B 32 A1L6B C27 C27 C 0 1 Y N N N N N 10.811 16.675 -0.337 -3.510 -2.196 0.976 C27 A1L6B 33 A1L6B N6 N6 N 0 1 N N N N N N 14.164 15.820 -1.615 -3.308 -0.426 -2.263 N6 A1L6B 34 A1L6B CL CL1 CL 0 0 N N N N N N 9.551 14.865 -2.743 -0.917 -3.609 0.191 CL A1L6B 35 A1L6B F1 F1 F 0 1 N N N N N N 14.317 18.572 -1.117 -5.916 -1.341 -2.275 F1 A1L6B 36 A1L6B F2 F2 F 0 1 N N N N N N 12.230 19.973 -0.150 -6.903 -2.789 -0.180 F2 A1L6B 37 A1L6B F3 F3 F 0 1 N N N N N N 9.882 18.758 0.380 -5.315 -3.356 1.973 F3 A1L6B 38 A1L6B F4 F4 F 0 1 N N N N N N 9.614 16.122 -0.052 -2.728 -2.483 2.040 F4 A1L6B 39 A1L6B C28 C28 C 0 1 N N N N N N 6.522 7.999 -3.044 7.128 -1.882 0.020 C28 A1L6B 40 A1L6B O2 O2 O 0 1 N N N N N N 5.486 8.561 -2.736 7.744 -1.922 1.068 O2 A1L6B 41 A1L6B C29 C29 C 0 1 N N N N N N 6.477 6.691 -3.819 7.542 -2.727 -1.110 C29 A1L6B 42 A1L6B C30 C30 C 0 1 N N N N N N 5.363 5.751 -3.321 8.528 -3.607 -0.956 C30 A1L6B 43 A1L6B C31 C31 C 0 1 N N N N N N 12.272 8.152 -0.172 3.822 2.392 -0.071 C31 A1L6B 44 A1L6B N7 N7 N 0 1 N N N N N N 12.307 7.021 -0.015 4.864 2.846 -0.057 N7 A1L6B 45 A1L6B H1 H1 H 0 1 N N N N N N 12.728 11.241 4.636 -0.232 4.205 3.837 H1 A1L6B 46 A1L6B H2 H2 H 0 1 N N N N N N 13.941 10.433 3.586 0.193 4.940 2.272 H2 A1L6B 47 A1L6B H3 H3 H 0 1 N N N N N N 14.440 11.783 4.660 -1.444 5.151 2.939 H3 A1L6B 48 A1L6B H4 H4 H 0 1 N N N N N N 11.983 13.574 4.118 -1.806 2.267 3.920 H4 A1L6B 49 A1L6B H5 H5 H 0 1 N N N N N N 13.677 14.171 4.086 -3.018 3.213 3.023 H5 A1L6B 50 A1L6B H6 H6 H 0 1 N N N N N N 12.615 14.406 2.657 -2.503 1.621 2.415 H6 A1L6B 51 A1L6B H7 H7 H 0 1 N N N N N N 12.528 11.975 2.290 -0.219 2.507 2.030 H7 A1L6B 52 A1L6B H8 H8 H 0 1 N N N N N N 16.068 11.112 -1.680 -0.020 3.445 -3.214 H8 A1L6B 53 A1L6B H9 H9 H 0 1 N N N N N N 14.647 12.167 -1.988 -0.409 1.798 -2.664 H9 A1L6B 54 A1L6B H10 H10 H 0 1 N N N N N N 16.309 12.835 -2.126 -1.574 2.701 -3.661 H10 A1L6B 55 A1L6B H11 H11 H 0 1 N N N N N N 17.540 13.959 2.281 -3.915 5.397 -0.601 H11 A1L6B 56 A1L6B H12 H12 H 0 1 N N N N N N 17.601 13.368 -0.092 -2.927 4.504 -2.672 H12 A1L6B 57 A1L6B H13 H13 H 0 1 N N N N N N 9.644 12.099 -2.384 1.556 -2.178 0.196 H13 A1L6B 58 A1L6B H14 H14 H 0 1 N N N N N N 10.063 7.515 -1.312 3.905 0.421 2.027 H14 A1L6B 59 A1L6B H15 H15 H 0 1 N N N N N N 11.095 8.179 -2.623 4.163 -1.337 1.886 H15 A1L6B 60 A1L6B H16 H16 H 0 1 N N N N N N 8.911 6.959 -3.236 5.821 0.895 0.623 H16 A1L6B 61 A1L6B H17 H17 H 0 1 N N N N N N 9.309 8.511 -4.048 6.354 -0.301 1.833 H17 A1L6B 62 A1L6B H18 H18 H 0 1 N N N N N N 7.826 10.695 -2.725 5.324 -0.127 -1.838 H18 A1L6B 63 A1L6B H19 H19 H 0 1 N N N N N N 6.698 10.012 -1.505 5.585 -1.885 -1.981 H19 A1L6B 64 A1L6B H20 H20 H 0 1 N N N N N N 8.819 10.991 -0.553 3.666 -2.362 -0.570 H20 A1L6B 65 A1L6B H21 H21 H 0 1 N N N N N N 8.516 9.275 -0.117 3.130 -1.171 -1.783 H21 A1L6B 66 A1L6B H22 H22 H 0 1 N N N N N N 14.960 16.416 -1.721 -2.413 -0.054 -2.217 H22 A1L6B 67 A1L6B H23 H23 H 0 1 N N N N N N 14.384 15.080 -0.979 -3.852 -0.283 -3.053 H23 A1L6B 68 A1L6B H24 H24 H 0 1 N N N N N N 7.151 6.449 -4.628 7.047 -2.634 -2.065 H24 A1L6B 69 A1L6B H26 H26 H 0 1 N N N N N N 5.222 4.787 -3.787 9.024 -3.700 -0.001 H26 A1L6B 70 A1L6B H27 H27 H 0 1 N N N N N N 4.723 6.056 -2.506 8.833 -4.228 -1.785 H27 A1L6B 71 # 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 A1L6B C29 C30 DOUB N N 1 A1L6B C29 C28 SING N N 2 A1L6B C20 N5 SING N N 3 A1L6B C20 C19 SING N N 4 A1L6B C28 O2 DOUB N N 5 A1L6B C28 N5 SING N N 6 A1L6B CL C18 SING N N 7 A1L6B N5 C21 SING N N 8 A1L6B C19 N1 SING N N 9 A1L6B C21 C22 SING N N 10 A1L6B C14 C18 DOUB Y N 11 A1L6B C14 C15 SING Y N 12 A1L6B C18 C17 SING Y N 13 A1L6B N6 C23 SING N N 14 A1L6B C4 C9 SING N N 15 A1L6B N1 C11 SING N N 16 A1L6B N1 C22 SING N N 17 A1L6B C23 C5 DOUB Y N 18 A1L6B C23 C24 SING Y N 19 A1L6B F1 C24 SING N N 20 A1L6B C15 C11 SING N N 21 A1L6B C15 C16 DOUB Y N 22 A1L6B C17 C5 SING N N 23 A1L6B C17 N4 DOUB Y N 24 A1L6B C11 C12 DOUB N N 25 A1L6B C5 C27 SING Y N 26 A1L6B C24 C25 DOUB Y N 27 A1L6B C16 N4 SING Y N 28 A1L6B C16 N3 SING N N 29 A1L6B C25 F2 SING N N 30 A1L6B C25 C26 SING Y N 31 A1L6B C12 C31 SING N N 32 A1L6B C12 C13 SING N N 33 A1L6B C27 C26 DOUB Y N 34 A1L6B C27 F4 SING N N 35 A1L6B C31 N7 TRIP N N 36 A1L6B C26 F3 SING N N 37 A1L6B C9 C8 DOUB Y N 38 A1L6B C9 C10 SING Y N 39 A1L6B N3 C13 SING N N 40 A1L6B N3 C10 SING N N 41 A1L6B C13 O1 DOUB N N 42 A1L6B C8 C7 SING Y N 43 A1L6B C10 C6 DOUB Y N 44 A1L6B C7 N2 DOUB Y N 45 A1L6B C6 N2 SING Y N 46 A1L6B C6 C3 SING N N 47 A1L6B C3 C2 SING N N 48 A1L6B C3 C1 SING N N 49 A1L6B C1 H1 SING N N 50 A1L6B C1 H2 SING N N 51 A1L6B C1 H3 SING N N 52 A1L6B C2 H4 SING N N 53 A1L6B C2 H5 SING N N 54 A1L6B C2 H6 SING N N 55 A1L6B C3 H7 SING N N 56 A1L6B C4 H8 SING N N 57 A1L6B C4 H9 SING N N 58 A1L6B C4 H10 SING N N 59 A1L6B C7 H11 SING N N 60 A1L6B C8 H12 SING N N 61 A1L6B C14 H13 SING N N 62 A1L6B C19 H14 SING N N 63 A1L6B C19 H15 SING N N 64 A1L6B C20 H16 SING N N 65 A1L6B C20 H17 SING N N 66 A1L6B C21 H18 SING N N 67 A1L6B C21 H19 SING N N 68 A1L6B C22 H20 SING N N 69 A1L6B C22 H21 SING N N 70 A1L6B N6 H22 SING N N 71 A1L6B N6 H23 SING N N 72 A1L6B C29 H24 SING N N 73 A1L6B C30 H26 SING N N 74 A1L6B C30 H27 SING N N 75 # 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 A1L6B InChI InChI 1.06 "InChI=1S/C31H26ClF4N7O2/c1-5-19(44)41-8-10-42(11-9-41)29-16-12-18(32)27(20-21(33)22(34)23(35)24(36)25(20)38)40-30(16)43(31(45)17(29)13-37)28-15(4)6-7-39-26(28)14(2)3/h5-7,12,14H,1,8-11,38H2,2-4H3" A1L6B InChIKey InChI 1.06 QRRJEUIQLZNPIO-UHFFFAOYSA-N A1L6B SMILES_CANONICAL CACTVS 3.385 "CC(C)c1nccc(C)c1N2C(=O)C(=C(N3CCN(CC3)C(=O)C=C)c4cc(Cl)c(nc24)c5c(N)c(F)c(F)c(F)c5F)C#N" A1L6B SMILES CACTVS 3.385 "CC(C)c1nccc(C)c1N2C(=O)C(=C(N3CCN(CC3)C(=O)C=C)c4cc(Cl)c(nc24)c5c(N)c(F)c(F)c(F)c5F)C#N" A1L6B SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1ccnc(c1N2c3c(cc(c(n3)c4c(c(c(c(c4F)F)F)F)N)Cl)C(=C(C2=O)C#N)N5CCN(CC5)C(=O)C=C)C(C)C" A1L6B SMILES "OpenEye OEToolkits" 2.0.7 "Cc1ccnc(c1N2c3c(cc(c(n3)c4c(c(c(c(c4F)F)F)F)N)Cl)C(=C(C2=O)C#N)N5CCN(CC5)C(=O)C=C)C(C)C" # _pdbx_chem_comp_identifier.comp_id A1L6B _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 "7-[2-azanyl-3,4,5,6-tetrakis(fluoranyl)phenyl]-6-chloranyl-1-(4-methyl-2-propan-2-yl-pyridin-3-yl)-2-oxidanylidene-4-(4-prop-2-enoylpiperazin-1-yl)-1,8-naphthyridine-3-carbonitrile" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1L6B "Create component" 2024-11-25 PDBJ A1L6B "Modify PCM" 2024-11-26 PDBJ A1L6B "Initial release" 2025-03-12 RCSB A1L6B "Modify synonyms" 2025-11-17 PDBJ # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1L6B _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 C30 _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 ? # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1L6B _pdbx_chem_comp_synonyms.name "7-[2-azanyl-3,4,5,6-tetrakis(fluoranyl)phenyl]-6-chloranyl-1-(4-methyl-2-propan-2-yl-pyridin-3-yl)-2-oxidanylidene-4-(4-prop-2-enoylpiperazin-1-yl)-1,8-naphthyridine-3-carbonitrile" _pdbx_chem_comp_synonyms.provenance AUTHOR _pdbx_chem_comp_synonyms.type ? #