Human ATM kinase domain with bound M4076 inhibitor

2025-07-02 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin em_software _em_admin.last_update _em_software.name DATABASE_REFERENCES citation citation_author database_PDB_rev database_PDB_rev_record em_admin pdbx_database_proc _citation.journal_volume _citation.page_first _citation.page_last _citation_author.identifier_ORCID _em_admin.last_update COORDINATE_REPLACEMENT AUTHOR Ligand geometry STRUCTURE_SUMMARY atom_site em_admin em_entity_assembly em_imaging em_map em_software pdbx_chem_comp_depositor_info pdbx_chem_comp_instance_depositor_info pdbx_contact_author pdbx_database_proc pdbx_database_status pdbx_depui_status_flags pdbx_depui_upload pdbx_nonpoly_scheme pdbx_validate_close_contact refine refine_ls_restr _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.pdbx_auth_comp_id _atom_site.pdbx_auth_seq_id _em_admin.last_update _em_entity_assembly.assembly_id _em_imaging.detector_id _em_imaging.sample_support_id _em_imaging.scans_id _em_map.file _em_software.category _pdbx_chem_comp_depositor_info.comp_id _pdbx_chem_comp_depositor_info.formula _pdbx_chem_comp_depositor_info.name _pdbx_chem_comp_instance_depositor_info.auth_seq_id _pdbx_chem_comp_instance_depositor_info.comp_id _pdbx_chem_comp_instance_depositor_info.formula _pdbx_database_status.date_accepted_terms_and_conditions _pdbx_database_status.date_author_approval _pdbx_depui_status_flags.is_grant_funded _pdbx_depui_status_flags.post_rel_replacement_reason _pdbx_depui_upload.file_name _pdbx_depui_upload.file_size _pdbx_depui_upload.file_type _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.auth_seq_num DATA_COLLECTION chem_comp_atom chem_comp_bond em_admin _em_admin.last_update STRUCTURE_SUMMARY em_admin em_software pdbx_entry_details _em_admin.last_update _em_software.name _pdbx_entry_details.has_protein_modification PDBe PDBe 2021-02-11 2021-09-01 2021-09-01 2025-07-02 German Research Foundation (DFG) CRC1054 Germany German Research Foundation (DFG) CRC1064 Germany German Research Foundation (DFG) CRC1361 Germany Leibniz Association Germany Human ATM kinase domain with bound M4076 inhibitor Stakyte K Rotheneder M Rotheneder M Lammens K Hopfner KP Kinase, inhibitor, DNA damage response, cancer research, SIGNALING PROTEIN Stakyte K Rotheneder M Lammens K Bartho JD Gradler U Fuchss T Pehl U Alt A van de Logt E Hopfner KP Molecular basis of human ATM kinase inhibition. Nat.Struct.Mol.Biol. US 28 789 798 2021 34556870 doi:10.1038/s41594-021-00654-x 1545-9985 EMD-12343 other EM volume EMD-12345 other EM volume EMD-12346 other EM volume EMD-12347 other EM volume 7ni4 FULLOVERLAP ATM dimer with bound KU-55933 ATM dimer with bound KU-55933 0 1 Homo sapiens Serine-protein kinase ATM Homo sapiens 0.351127688 2 Homo sapiens LEVO MSLVLNDLLICCRQLEHDRATERKKEVEKFKRLIRDPETIKHLDRHSDSKQGKYLNWDAVFRFLQKYIQKETECLRIAKP NVSASTQASRQKKMQEISSLVKYFIKCANRRAPRLKCQELLNYIMDTVKDSSNGAIYGADCSNILLKDILSVRKYWCEIS QQQWLELFSVYFRLYLKPSQDVHRVLVARIIHAVTKGCCSQTDGLNSKFLDFFSKAIQCARQEKSSSGLNHILAALTIFL KTLAVNFRIRVCELGDEILPTLLYIWTQHRLNDSLKEVIIELFQLQIYIHHPKGAKTQEKGAYESTKWRSILYNLYDLLV NEISHIGSRGKYSSGFRNIAVKENLIELMADICHQVFNEDTRSLEISQSYTTTQRESSDYSVPCKRKKIELGWEVIKDHL QKSQNDFDLVPWLQIATQLISKYPASLPNCELSPLLMILSQLLPQQRHGERTPYVLRCLTEVALCQDKRSNLESSQKSDL LKLWNKIWCITFRGISSEQIQAENFGLLGAIIQGSLVEVDREFWKLFTGSACRPSCPAVCCLTLALTTSIVPGTVKMGIE QNMCEVNRSFSLKESIMKWLLFYQLEGDLENSTEVPPILHSNFPHLVLEKILVSLTMKNCKAAMNFFQSVPECEHHQKDK EELSFSEVEELFLQTTFDKMDFLTIVRECGIEKHQSSIGFSVHQNLKESLDRCLLGLSEQLLNNYSSEITNSETLVRCSR LLVGVLGCYCYMGVIAEEEAYKSELFQKAKSLMQCAGESITLFKNKTNEEFRIGSLRNMMQLCTRCLSNCTKKSPNKIAS GFFLRLLTSKLMNDIADICKSLASFIKKPFDRGEVESMEDDTNGNLMEVEDQSSMNLFNDYPDSSVSDANEPGESQSTIG AINPLAEEYLSKQDLLFLDMLKFLCLCVTTAQTNTVSFRAADIRRKLLMLIDSSTLEPTKSLHLHMYLMLLKELPGEEYP LPMEDVLELLKPLSNVCSLYRRDQDVCKTILNHVLHVVKNLGQSNMDSENTRDAQGQFLTVIGAFWHLTKERKYIFSVRM ALVNCLKTLLEADPYSKWAILNVMGKDFPVNEVFTQFLADNHHQVRMLAAESINRLFQDTKGDSSRLLKALPLKLQQTAF ENAYLKAQEGMREMSHSAENPETLDEIYNRKSVLLTLIAVVLSCSPICEKQALFALCKSVKENGLEPHLVKKVLEKVSET FGYRRLEDFMASHLDYLVLEWLNLQDTEYNLSSFPFILLNYTNIEDFYRSCYKVLIPHLVIRSHFDEVKSIANQIQEDWK SLLTDCFPKILVNILPYFAYEGTRDSGMAQQRETATKVYDMLKSENLLGKQIDHLFISNLPEIVVELLMTLHEPANSSAS QSTDLCDFSGDLDPAPNPPHFPSHVIKATFAYISNCHKTKLKSILEILSKSPDSYQKILLAICEQAAETNNVYKKHRILK IYHLFVSLLLKDIKSGLGGAWAFVLRDVIYTLIHYINQRPSCIMDVSLRSFSLCCDLLSQVCQTAVTYCKDALENHLHVI VGTLIPLVYEQVEVQKQVLDLLKYLVIDNKDNENLYITIKLLDPFPDHVVFKDLRITQQKIKYSRGPFSLLEEINHFLSV SVYDALPLTRLEGLKDLRRQLELHKDQMVDIMRASQDNPQDGIMVKLVVNLLQLSKMAINHTGEKEVLEAVGSCLGEVGP IDFSTIAIQHSKDASYTKALKLFEDKELQWTFIMLTYLNNTLVEDCVKVRSAAVTCLKNILATKTGHSFWEIYKMTTDPM LAYLQPFRTSRKKFLEVPRFDKENPFEGLDDINLWIPLSENHDIWIKTLTCAFLDSGGTKCEILQLLKPMCEVKTDFCQT VLPYLIHDILLQDTNESWRNLLSTHVQGFFTSCLRHFSQTSRSTTPANLDSESEHFFRCCLDKKSQRTMLAVVDYMRRQK RPSSGTIFNDAFWLDLNYLEVAKVAQSCAAHFTALLYAEIYADKKSMDDQEKRSLAFEEGSQSTTISSLSEKSKEETGIS LQDLLLEIYRSIGEPDSLYGCGGGKMLQPITRLRTYEHEAMWGKALVTYDLETAIPSSTRQAGIIQALQNLGLCHILSVY LKGLDYENKDWCPELEELHYQAAWRNMQWDHCTSVSKEVEGTSYHESLYNALQSLRDREFSTFYESLKYARVKEVEEMCK RSLESVYSLYPTLSRLQAIGELESIGELFSRSVTHRQLSEVYIKWQKHSQLLKDSDFSFQEPIMALRTVILEILMEKEMD NSQRECIKDILTKHLVELSILARTFKNTQLPERAIFQIKQYNSVSCGVSEWQLEEAQVFWAKKEQSLALSILKQMIKKLD ASCAANNPSLKLTYTECLRVCGNWLAETCLENPAVIMQTYLEKAVEVAGNYDGESSDELRNGKMKAFLSLARFSDTQYQR IENYMKSSEFENKQALLKRAKEEVGLLREHKIQTNRYTVKVQRELELDELALRALKEDRKRFLCKAVENYINCLLSGEEH DMWVFRLCSLWLENSGVSEVNGMMKRDGMKIPTYKFLPLMYQLAARMGTKMMGGLGFHEVLNNLISRISMDHPHHTLFII LALANANRDEFLTKPEVARRSRITKNVPKQSSQLDEDRTEAANRIICTIRSRRPQMVRSVEALCDAYIILANLDATQWKT QRKGINIPADQPITKLKNLEDVVVPTMEIKVDHTGEYGNLVTIQSFKAEFRLAGGVNLPKIIDCVGSDGKERRQLVKGRD DLRQDAVMQQVFQMCNTLLQRNTETRKRKLTICTYKVVPLSQRSGVLEWCTGTVPIGEFLVNNEDGAHKRYRPNDFSAFQ CQKKMMEVQKKSFEEKYEVFMDVCQNFQPVFRYFCMEKFLDPAIWFEKRLAYTRSVATSSIVGYILGLGDRHVQNILINE QSAELVHIDLGVAFEQGKILPTPETVPFRLTRDIVDGMGITGVEGVFRRCCEKTMEVMRNSQETLLTIVEVLLYDPLFDW TMNPLKALYLQQRPEDETELHPTLNADDQECKRNLSDIDQSFNKVAERVLMRLQEKLKGVEEGTVLSVGGQVNLLIQQAI DPKNLSRLFPGWKAWV Q13315 2.7.11.1 ZINC ION 6.5409e-05 2 ZN 8-(1,3-dimethylpyrazol-4-yl)-1-(3-fluoranyl-5-methoxy-pyridin-4-yl)-7-methoxy-3-methyl-imidazo[4,5-c]quinolin-2-one 0.00044845 2 UGK singleParticle particle 7.5 ETHANE FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 GATAN K2 SUMMIT (4k x 4k) COUNTING 42.0 1 PHASE FLIPPING AND AMPLITUDE CORRECTION 3.0 FSC 0.143 CUT-OFF 455866 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_12350.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 720 720 720 0 0 0 720 720 720 381.24 381.24 381.24 90.0 90.0 90.0 X Y Z -0.09557491 0.14437355 0.000084902036 0.002505585 0.5295 0.5295 0.5295 0.0213 AUTHOR ::::EMDATABANK.org::::EMD-12350:::: Human ATM kinase domain with bound inhibitor M4076, LAFTER filtered map emd_12350_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 381.24 381.24 381.24 90.0 90.0 90.0 X Y Z -3.4245644 4.814075 0.0036624619 0.11203774 1.059 1.059 1.059 AUTHOR ::::EMDATABANK.org::::EMD-12350:::: Human ATM kinase domain with bound inhibitor M4076, unfiltered map emd_12350_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 381.24 381.24 381.24 90.0 90.0 90.0 X Y Z -0.6567721 1.5422283 0.0034394967 0.066248 1.059 1.059 1.059 AUTHOR ::::EMDATABANK.org::::EMD-12350:::: Human ATM kinase domain with bound inhibitor M4076, half map 1 emd_12350_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 381.24 381.24 381.24 90.0 90.0 90.0 X Y Z -0.5797883 1.5032418 0.0034814621 0.06624684 1.059 1.059 1.059 AUTHOR ::::EMDATABANK.org::::EMD-12350:::: Human ATM kinase domain with bound inhibitor M4076, half map 2