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The T790M mutation in EGFR kinase causes drug resistance by increasing the affinity for ATP
Open accessAbstract
Lung cancers caused by activating mutations in the epidermal growth factor receptor (EGFR) are initially responsive to small molecule tyrosine kinase inhibitors (TKIs), but the efficacy of these agents is often limited because of the emergence of drug resistance conferred by a second mutation, T790M. Threonine 790 is the “gatekeeper” residue, an important determinant of inhibitor specificity in the ATP binding pocket. The T790M mutation has been thought to cause resistance by sterically blocking binding of TKIs such as gefitinib and erlotinib, but this explanation is difficult to reconcile with the fact that it remains sensitive to structurally similar irreversible inhibitors. Here, we show by using a direct binding assay that T790M mutants retain low-nanomolar affinity for gefitinib. Furthermore, we show that the T790M mutation activates WT EGFR and that introduction of the T790M mutation increases the ATP affinity of the oncogenic L858R mutant by more than an order of magnitude. The increased ATP affinity is the primary mechanism by which the T790M mutation confers drug resistance. Crystallographic analysis of the T790M mutant shows how it can adapt to accommodate tight binding of diverse inhibitors, including the irreversible inhibitor HKI-272, and also suggests a structural mechanism for catalytic activation. We conclude that the T790M mutation is a “generic” resistance mutation that will reduce the potency of any ATP-competitive kinase inhibitor and that irreversible inhibitors overcome this resistance simply through covalent binding, not as a result of an alternative binding mode.
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“The T790M mutation is believed to render the receptor refractory to inhibition by these reversible EGFR TKIs through exerting effects on both steric hindrance (22) and increased ATP affinity (23).”
From AZD9291, an Irreversible EGFR TKI, Overcomes T790M-Mediated Resistance to EGFR Inhibitors in Lung Cancer (2014) · cites this paper as [23]
In the citing paper
“The EGFR-T790M mutation confers resistance by reversing the sensitization conferred by primary activating mutations, but it does so by altering the gatekeeper residue in the ATP-site that is known to be an important determinant of inhibitor specificity 50,57.”
From Structural, Biochemical, and Clinical Characterization of Epidermal Growth Factor Receptor (EGFR) Exon 20 Insertion Mutations in Lung Cancer (2013) · cites this paper as [57]
In the citing paper
“This mutation, leads to an increase in ATP affinity, thus making it more difficult for reversible EGFR TKIs gefitinib and erlotinib to bind the EGFR TKI domain (11).”
From EGFR Mutations and Resistance to Irreversible Pyrimidine-Based EGFR Inhibitors (2015) · cites this paper as [11]
In the citing paper
“Covalent binding is required to overcome the increased ATP affinity mediated by T790M (11).”
From EGFR Mutations and Resistance to Irreversible Pyrimidine-Based EGFR Inhibitors (2015) · cites this paper as [11]
In the citing paper
“The presence of the T790M variant reduces binding of first-generation or second-generation EGFR-TKIs to the ATP-binding pocket of EGFR, thereby reducing EGFR-TKI–mediated inhibition of downstream signaling and potentially leading to disease progression.17–19”
From Osimertinib or Platinum–Pemetrexed in EGFR T790M–Positive Lung Cancer (2017) · cites this paper as [17]
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Ibrutinib targets mutant-EGFR kinase with a distinct binding conformation
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“Covalent binding of ibrutinib to EGFR Cys797 was confirmed in this structure, and we found that Ibrutinib binds EGFR T790M in inactive conformation, although this protein by itself crystallizes in active conformation [15].”
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Dacomitinib, a new therapy for the treatment of non-small cell lung cancer
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“This mutation alters the TKI binding site leading to steric hindrance as well as causing an increased affinity for ATP, thus dramatically reducing the efficacy of reversible inhibitors to bind and induce their effects [11,15].”
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“Often a secondary mutation, substituting threonine with a methionine at position 790 results in an increased affinity for ATP.”
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“Several TKI resistance mechanisms have been demonstrated in recent years, including the T790M mutant [40], MET amplification [7], and HGF overexpression [8].”
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“In addition, many dual inhibitory candidates were designed to bind via hydrogen bonding or covalent bonding with Cys-773 in EGFR and Cys-805 in HER2 [12-16].”
BackgroundCancer pharmacogenomics, challenges in implementation, and patient-focused perspectives
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“reversible EGFR inhibitor, to bind to the EGFR tyrosine kinase domain.(30) Osimertinib (Tagrisso), a novel inhibitor of the EGFR (T790M) mutation, has resulted in ORRs .”
Non-small cell lung cancer treatment (r)evolution: ten years of advances and more to come
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“The T790M mutation causes treatment failure by increasing adenosine triphosphate (ATP) affinity within the ATP-binding pocket in the EGFR tyrosine kinase domain rather than sterically blocking drug binding [31].”
BackgroundDifferential impact of BTK active site inhibitors on the conformational state of full-length BTK
Joseph, R. E., Amatya, N., Fulton, D. B., Engen, J. R., Wales, T. E., & Andreotti, A. H. (2020) · eLife · doi:10.7554/elife.60470 · Cited by 47
“…on previous kinase-targeted therapies, it has become clear that acquisition of drug resistance occurs via a variety of mechanisms including loss of drug binding, activation of the kinase, or the activation of downstream substrates (Lovly and Shaw, 2014; Sherbenou et al., 2010; Yun et al., 2008).”
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“The predominant mechanism of gefitinib resistance is a secondary T790M mutation in the kinase domain, which increases the affinity of the kinase domain for ATP over gefitinib [20].”
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“For instance, EGFR T790M leads to gefitinib resistance through enhancing EGFR’s affinity toward adenosine triphosphate (ATP) and/or blocking of gefitinib binding ( 19 , 20 ), and C797S mutation renders osimertinib ineffective through replacement of the osimertinib-reactive cysteine residue ( 21 ).”
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“Interestingly, the T790M mutation alone increases the catalytic turnover of EGFR to that of approximately six-fold of the wild-type receptor [54], indicating that T790M in isolation has oncogenic potential, as reflected by reports of inherited susceptibility to lung cancer and the germline presence of T790M [49, 50].”
BackgroundInfluentialNew drug design with covalent modifiers
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ResultDesign and synthesis of quinazolinones as EGFR inhibitors to overcome EGFR resistance obstacle
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Structural basis of mutant-selectivity and drug-resistance related to CO-1686
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“In consequence new agents to counter EGFR T790M drug-resistance mutation must overcome the reinforced ATP binding affinity conferred by T790M [10].”
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“HCC827ER cells, with deletions in EGFR exon 19 and Met gene amplification [27], and H1975 cells, with the L858R/T790M double mutation in EGFR [28], were kindly provided by Drs.”
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“It is believed that T790M sterically hinders TKI binding and increases the affinity of activated EGFR mutants for ATP, while causing a negative effect on drug affinity and enhancing catalytic activity [14, 16].”
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“In vitro studies have shown that EGFR T790M restores the affinity for ATP to the same levels of WT EGFR (48).”
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“A variety of mechanisms have been identified for this acquired resistance, including a second T790M mutation at exon 20 of the EGFR gene (14, 15); amplification of theMET (16, 17) or ERBB2 (18) gene; mutations of the KRAS gene (19); activation of AXL, c-Src kinases (20, 21), and ERK (22); loss of PTEN (23); and activa…”
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Zielgerichtete kovalente Inhibitoren für das Wirkstoffdesign
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“We previously showed that T790M mutation dramatically increases the ATP binding affinity of the oncogenic activating mutants and weakens the binding affinity of the drugs, hence reducing the potency of any ATP-competitive inhibitors [13].”
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“In the αC-β4 loop, the HxN + 1 and HxN + 2 positions are spatially proximal to the gatekeeper position: a wellstudied hotspot for secondary drug resistance mutations.(75,76) Mutations at HxN + 1 and HxN + 2 positions have been associated with drug resistance in several tyrosine kinases.”
BackgroundRaghu, M. S., Swarup, H. A., Shamala, T., Prathibha, B. S., Kumar, K. Y., Alharethy, F., Prashanth, M. K., & Jeon, B. (2023) · Heliyon · doi:10.1016/j.heliyon.2023.e20300 · Cited by 44
“These medications raise concerns due to their developed drug resistance and significant adverse effects [5,6].”
Enhancing cellular immunotherapies in cancer by engineering selective therapeutic resistance
Wellhausen, N., Baek, J. S., Gill, S. I., & June, C. H. (2024) · Nature reviews. Cancer · doi:10.1038/s41568-024-00723-5 · Cited by 45
“Another example is the T790M mutation in epidermal growth factor receptor (EGFR), which was identified in non-small-cell lung cancer and can confer resistance to TKIs by increasing the ATP affinity of EGFR 33 .”
Koizumi, H., Yamada, T., Takeuchi, S., et al. (2012) · Journal of Thoracic Oncology · doi:10.1097/jto.0b013e3182519a2c · Cited by 41
Formisano, L., D'Amato, V., Servetto, A., Brillante, S., Raimondo, L., Mauro, C. D., Marciano, R., Orsini, R. C., Cosconati, S., Randazzo, A., et al. (2015) · Oncotarget · doi:10.18632/oncotarget.4636 · Cited by 42
Lou, N.-N., Zhang, X., Chen, H., Zhou, Q. H., Yan, L., Xie, Z., Su, J., Chen, Z., Tu, H., Yan, H., et al. (2016) · Oncotarget · doi:10.18632/oncotarget.11218 · Cited by 43
“The T790M mutation is thought to reactivate EGFR signaling by increasing the receptor’s affinity for ATP over TKIs [32] This mutation is also thought to amplify the expression of components of the hepatocyte growth factor receptor and mesenchymal epithelial transition (MET) pathways [27, 33–36] In addition, PIK3CA and…”
BackgroundLi, Y., Xiao, J., Zhang, Q., Yu, W., Liu, M., Guo, Y. C., He, J., & Liu, Y. (2018) · Bioorganic & Medicinal Chemistry · doi:10.1016/j.bmc.2018.12.032 · Cited by 43
Harnessing Reversed Allosteric Communication: A Novel Strategy for Allosteric Drug Discovery
Fan, J., Liu, Y., Kong, R., Ni, D., Yu, Z., Lu, S., & Zhang, J. (2021) · Journal of Medicinal Chemistry · doi:10.1021/acs.jmedchem.1c01695 · Cited by 43
Kinase-targeting small-molecule inhibitors and emerging bifunctional molecules
Goebel, G. L., Qiu, X., & Wu, P. (2022) · Trends in Pharmacological Sciences · doi:10.1016/j.tips.2022.04.006 · Cited by 44
Wang, J., Lam, D., Yang, J., & Hu, L. (2022) · Medicinal Chemistry Research · doi:10.1007/s00044-022-02952-5 · Cited by 43
“the pyrimidine ring, ii) mobocertinib is active and selective for all variants of EGFR exon 20 mutants, including T790M [43], iii) the T790M mutation was found not to directly impede drug binding in the active site; binding mode of an irreversible TKI to T790M was found to be essentially the same as that in the wild t…”
BackgroundBelani, C. P. (2010) · Cancer Investigation · doi:10.3109/07357901003631072 · Cited by 41
“Alternatively, T790M has been shown to increase the binding affinity of ATP by more than 10-fold, at least when EGFR carries the L858R primary activating mutation (49).”
Srikar, R., Suresh, D., Zambre, A., Taylor, K., Chapman, S., Leevy, M., Upendran, A., & Kannan, R. (2016) · Scientific Reports · doi:10.1038/srep30245 · Cited by 43
Venugopalan, A., Lee, M.-J., Niu, G., Medina-Echeverz, J., Tomita, Y., Lizak, M. J., Cultraro, C. M., Simpson, R. M., Chen, X., Trepel, J. B., et al. (2016) · Oncotarget · doi:10.18632/oncotarget.11021 · Cited by 40
“As expected, however, erlotinib has proven ineffective against EGFR-TKIresistant EGFRL858R/T790M-driven tumors [11, 35].”
BackgroundDeng, H., Lei, Q., Wang, C., Wang, Z., Chen, H., Wang, G., Yang, N. Y., Huang, D. A., Yu, Q., Yao, M., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-34627-5 · Cited by 40
Ji, X., Peng, T., Zhang, X., Li, J., Yang, W., Tong, L., Qu, R., Jiang, H., Ding, J., Xie, H., et al. (2014) · Bioorganic & Medicinal Chemistry · doi:10.1016/j.bmc.2014.01.035 · Cited by 40
Ai, X., Sun, Y., Wang, H., & Lü, S. (2014) · Amino Acids · doi:10.1007/s00726-014-1716-0 · Cited by 40
“Previous experimental evidences suggested that the increased ATP affinity is a primary mechanism by which the T790M mutation confers drug resistance (Yun et al. 2008)—this can be well reflected in the calculated mutation energy profile (Fig.”
InfluentialLazzari, C., Spreafico, A., Bachi, A., Röder, H., Floriani, I., Garavaglia, D., Cattaneo, A., Grigorieva, J., Viganò, M. G., Sorlini, C., et al. (2011) · Journal of Thoracic Oncology · doi:10.1097/jto.0b013e3182307f17 · Cited by 40
The Potential of panHER Inhibition in Cancer
Wang, X., Batty, K., Crowe, P. J., Goldstein, D., & Yang, J. (2015) · Frontiers in Oncology · doi:10.3389/fonc.2015.00002 · Cited by 40
“The T790M mutation is believed to account for 50% of the resistance to the aforementioned drugs (43).”
BackgroundSocinski, M. A., Villaruz, L. C., & Ross, J. S. (2016) · The Oncologist · doi:10.1634/theoncologist.2016-0285 · Cited by 40
Goins, C. M., Dajnowicz, S., Thanna, S., Sucheck, S. J., Parks, J. M., & Ronning, D. R. (2017) · ACS Infectious Diseases · doi:10.1021/acsinfecdis.7b00003 · Cited by 41
Zou, B., Lee, V. H.-F., Chen, L., Ma, L., Wang, D. D., & Yan, H. (2017) · Scientific Reports · doi:10.1038/s41598-017-06632-y · Cited by 40
“Another explanation is that introduction of the T790M mutation increases the affinity for adenosine triphosphate (ATP) which in turn causes reduced binding of the ATP-competitive TKI including gefitinib and erlotinib 20, 21, 23 .”
BackgroundBronte, G., Bravaccini, S., Bronte, E., Burgio, M. A., Rolfo, C. D., Delmonte, A., & Crinò, L. (2018) · Biological reviews/Biological reviews of the Cambridge Philosophical Society · doi:10.1111/brv.12416 · Cited by 38
“Consequently, binding to ATP is restored to the same level as wild-type EGFR (Yun et al., 2008).”
BackgroundZhao, S., Li, X., Zhao, C., Jiang, T., Jia, Y., Shi, J., He, Y., Li, J., Zhou, F., Gao, G., et al. (2018) · Lung Cancer · doi:10.1016/j.lungcan.2018.12.010 · Cited by 40
Mediating EGFR-TKI Resistance by VEGF/VEGFR Autocrine Pathway in Non-Small Cell Lung Cancer
Osude, C., Lin, L. Y.-C., Patel, M., Eckburg, A., Berei, J., Kuckovic, A., Dube, N., Rastogi, A., Gautam, S., Smith, T. J., et al. (2022) · Cells · doi:10.3390/cells11101694 · Cited by 41
“The T790M mutation causes resistance to TKIs by way of steric hindrance, which interrupts TKI binding to the ATP binding pocket [44].”
BackgroundMechanisms of resistance to EGFR inhibitors in head and neck cancer
Cooper, J. B., & Cohen, E. E. W. (2009) · Head & Neck · doi:10.1002/hed.21109 · Cited by 39
“These double mutants also have higher activity relative to simple L858R mutants due to the T790M mutation.(40) T790M also seems to mediate resistance to HKI-272, an irreversible TKI similar to the aforementioned, at low physiological concentrations in NSCLC.”
BackgroundKo, J., Hong, J.-H., Wang, L.-H., Cheng, C.-M., Ciou, S., Lin, S., Jheng, M.-Y., & Lin, Y. (2008) · Molecular Cancer Therapeutics · doi:10.1158/1535-7163.mct-08-0578 · Cited by 40
“A recent report has revealed that MET amplification occurs independently of EGFR (T790M) mutations and that MET may be a clinically relevant therapeutic target for some patients with acquired resistance to small-molecule TKIs (46).”
BackgroundNon-small cell lung cancer - genetic predictors
Koudeláková, V., Kneblova, M., Trojanec, R., Drábek, J., & Hajdúch, M. (2013) · Biomedical Papers · doi:10.5507/bp.2013.034 · Cited by 39
BCR::ABL1 kinase N-lobe mutants confer moderate to high degrees of resistance to asciminib
Leyte-Vidal, A., Garrido Ruiz, D., DeFilippis, R., Leske, I. B., Rea, D., Phan, S., Miller, K. B., Hu, F., Mase, A., Shan, Y., et al. (2024) · Blood · doi:10.1182/blood.2023022538 · Cited by 40
Majem, M., & Remón, J. (2013) · Europe PMC (PubMed Central) · doi:10.3978/j.issn.2218-6751.2013.03.09 · Cited by 41
“This gatekeeper mutation also occurs within exon 20, which encodes part of the kinase domain EGFR and alters the binding of EGFR TKI to the ATPbinding pocket, and therefore EGFR TKI are unable to block EGFR signalling (20-22).”
BackgroundTargeted Inhibition of Kinases in Cancer Therapy
Baker, S. J., & Reddy, E. P. (2010) · Mount Sinai Journal of Medicine A Journal of Translational and Personalized Medicine · doi:10.1002/msj.20220 · Cited by 39
James, K. A., & Verkhivker, G. M. (2014) · PLoS ONE · doi:10.1371/journal.pone.0113488 · Cited by 40
Targeted Covalent Enzyme Inhibitors
Noe, M. C., & Gilbert, A. M. (2012) · Annual reports in medicinal chemistry · doi:10.1016/b978-0-12-396492-2.00027-8 · Cited by 39
Kuan, F., Li, S., Wang, C., Lin, M., Tsai, Y., & Yang, C. (2016) · Oncotarget · doi:10.18632/oncotarget.13815 · Cited by 40
Xu, M. M., Xie, Y., Ni, S., & Liu, H. (2015) · Europe PMC (PubMed Central) · doi:10.3978/j.issn.2305-5839.2015.03.60 · Cited by 41
“T790M mutation which prevents drug binding to the domain through steric hindrance, but the combination of ATP and tyrosine kinase was not affected, facilitates continued signal transduction (12,13).”
BackgroundHammoud, M. K., Yosef, H. K., Lechtonen, T., Aljakouch, K., Schuler, M., Alsaidi, W., Daho, I., Maghnouj, A., Hahn, S. A., El‐Mashtoly, S. F., et al. (2018) · Scientific Reports · doi:10.1038/s41598-018-33682-7 · Cited by 42
Kadi, N. E., Wang, L., Davis, A., Körkaya, H., Cooke, A., Vadnala, V., Brown, N. A., Betz, B. L., Cascalho, M., Kalemkerian, G. P., et al. (2018) · Cancer Research · doi:10.1158/0008-5472.can-17-3370 · Cited by 41
“This T790M mutation occurs in cis with the original driving mutation, and leads to steric hindrance and increased binding affinity for ATP (16, 17).”
Development of a Novel EGFR-Targeting Antibody-Drug Conjugate for Pancreatic Cancer Therapy
Li, Z., Wang, M., Yao, X., et al. (2019) · Targeted Oncology · doi:10.1007/s11523-018-0616-8 · Cited by 39
Lung Adenocarcinoma: Lessons in Translation from Bench to Bedside
Sangodkar, J., Katz, S., Melville, H., & Narla, G. (2010) · Mount Sinai Journal of Medicine A Journal of Translational and Personalized Medicine · doi:10.1002/msj.20226 · Cited by 38
Metadata
- Authors
- Yun, C.-H., Mengwasser, K. E., Toms, A. V., Woo, M. S., Greulich, H., Wong, K.-K., Meyerson, M., & Eck, M. J.
- Affiliations
- Dana-Farber Cancer Institute (US)
- Broad Institute (US)
- Brigham and Women's Hospital (US)
- Corresponding author
- Eck, Michael J.
- Venue
- Proceedings of the National Academy of Sciences
- Publisher
- National Academy of Sciences
- Published
- 2008-02-12
- Volume
- 105
- Issue
- 6
- Pages
- 2070-2075
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- PMC
- PMC2538882
- OpenAlex
- W2159013299
- Cited by
- 2,118
- References
- 42
- Citations by year
- 2026: 101 · 2025: 125 · 2024: 94 · 2023: 141 · 2022: 132 · 2021: 138 · 2020: 107 · 2019: 111 · 2018: 144 · 2017: 142 · 2016: 139 · 2015: 143 · 2014: 112 · 2013: 121 · 2012: 115
- FWCI
- 79.66
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Proceedings of the National Academy of Sciences (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Digital Access to Scholarship at Harvard (DASH) (Harvard University) (submittedVersion, cc-by)
- Funders
- Leukemia and Lymphoma Society
- National Institutes of Health
- Novartis Institutes for BioMedical Research
- National Cancer Institute (R01CA116020, CA 116020, R01CA080942, CA080942)
- Topics
- Health Sciences › Medicine › Pulmonary and Respiratory Medicine › Lung Cancer Treatments and Mutations
- Health Sciences › Medicine › Oncology › HER2/EGFR in Cancer Research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Kinase Regulation and GTPase Signaling
- Keywords
- T790M mutation, EGFR, drug resistance, tyrosine kinase inhibitors, gefitinib, erlotinib, ATP affinity, gatekeeper residue, L858R mutation, irreversible inhibitors, covalent binding, kinase activation, lung cancer, ATP-competitive inhibitors
- MeSH terms
- Gefitinib, Adenosine Triphosphate, Animals, Drug Resistance, Enzyme Inhibitors, Insecta, Kinetics, Mutation, Protein Conformation, Quinazolines, Crystallography, X-Ray, ErbB Receptors
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