5hic Citations

Activation Mechanism of Oncogenic Deletion Mutations in BRAF, EGFR, and HER2.

Abstract

Activating mutations in protein kinases drive many cancers. While how recurring point mutations affect kinase activity has been described, the effect of in-frame deletions is not well understood. We show that oncogenic deletions within the β3-αC loop of HER2 and BRAF are analogous to the recurrent EGFR exon 19 deletions. We identify pancreatic carcinomas with BRAF deletions mutually exclusive with KRAS mutations. Crystal structures of BRAF deletions reveal the truncated loop restrains αC in an active "in" conformation, imparting resistance to inhibitors like vemurafenib that bind the αC "out" conformation. Characterization of loop length explains the prevalence of five amino acid deletions in BRAF, EGFR, and HER2 and highlights the importance of this region for kinase activity and inhibitor efficacy.

Articles - 5hic mentioned but not cited (1)

  1. Molecular Docking Optimization in the Context of Multi-Drug Resistant and Sensitive EGFR Mutants. García-Godoy MJ, López-Camacho E, García-Nieto J, Nebro AJ, Aldana-Montes JF. Molecules 21 E1575 (2016)


Reviews citing this publication (32)

  1. KRAS: The Critical Driver and Therapeutic Target for Pancreatic Cancer. Waters AM, Der CJ. Cold Spring Harb Perspect Med 8 a031435 (2018)
  2. Drugging RAS: Know the enemy. Papke B, Der CJ. Science 355 1158-1163 (2017)
  3. Targeting Alterations in the RAF-MEK Pathway. Yaeger R, Corcoran RB. Cancer Discov 9 329-341 (2019)
  4. New perspectives for targeting RAF kinase in human cancer. Karoulia Z, Gavathiotis E, Poulikakos PI. Nat Rev Cancer 17 676-691 (2017)
  5. Classifying BRAF alterations in cancer: new rational therapeutic strategies for actionable mutations. Dankner M, Rose AAN, Rajkumar S, Siegel PM, Watson IR. Oncogene 37 3183-3199 (2018)
  6. New Treatment Strategies for Metastatic Pancreatic Ductal Adenocarcinoma. Singh RR, O'Reilly EM. Drugs 80 647-669 (2020)
  7. Targeting the Raf kinases in human cancer: the Raf dimer dilemma. Durrant DE, Morrison DK. Br J Cancer 118 3-8 (2018)
  8. BRAF Mutations and the Utility of RAF and MEK Inhibitors in Primary Brain Tumors. Schreck KC, Grossman SA, Pratilas CA. Cancers (Basel) 11 E1262 (2019)
  9. Pancreatic Cancer: Molecular Characterization, Clonal Evolution and Cancer Stem Cells. Pelosi E, Castelli G, Testa U. Biomedicines 5 E65 (2017)
  10. Atropisomerism in medicinal chemistry: challenges and opportunities. Toenjes ST, Gustafson JL. Future Med Chem 10 409-422 (2018)
  11. The next tier of EGFR resistance mutations in lung cancer. Tumbrink HL, Heimsoeth A, Sos ML. Oncogene 40 1-11 (2021)
  12. Genomic Hallmarks of Thyroid Neoplasia. Giordano TJ. Annu Rev Pathol 13 141-162 (2018)
  13. RAF kinase dimerization: implications for drug discovery and clinical outcomes. Brummer T, McInnes C. Oncogene 39 4155-4169 (2020)
  14. Receptor tyrosine kinases and cancer: oncogenic mechanisms and therapeutic approaches. Saraon P, Pathmanathan S, Snider J, Lyakisheva A, Wong V, Stagljar I. Oncogene 40 4079-4093 (2021)
  15. Targeting the MAPK Pathway in RAS Mutant Cancers. Hymowitz SG, Malek S. Cold Spring Harb Perspect Med 8 a031492 (2018)
  16. Mutations in key driver genes of pancreatic cancer: molecularly targeted therapies and other clinical implications. Hu HF, Ye Z, Qin Y, Xu XW, Yu XJ, Zhuo QF, Ji SR. Acta Pharmacol Sin 42 1725-1741 (2021)
  17. BRAF-Mutated Non-Small Cell Lung Cancer: Current Treatment Status and Future Perspective. Yan N, Guo S, Zhang H, Zhang Z, Shen S, Li X. Front Oncol 12 863043 (2022)
  18. Impact of the Protein Data Bank on antineoplastic approvals. Westbrook JD, Soskind R, Hudson BP, Burley SK. Drug Discov Today 25 837-850 (2020)
  19. Switching Aurora-A kinase on and off at an allosteric site. Bayliss R, Burgess SG, McIntyre PJ. FEBS J 284 2947-2954 (2017)
  20. Structural features of the protein kinase domain and targeted binding by small-molecule inhibitors. Arter C, Trask L, Ward S, Yeoh S, Bayliss R. J Biol Chem 298 102247 (2022)
  21. A structural perspective on targeting the RTK/Ras/MAP kinase pathway in cancer. Heppner DE, Eck MJ. Protein Sci 30 1535-1553 (2021)
  22. Coordinating ERK signaling via the molecular scaffold Kinase Suppressor of Ras. Frodyma D, Neilsen B, Costanzo-Garvey D, Fisher K, Lewis R. F1000Res 6 1621 (2017)
  23. RAS Function in cancer cells: translating membrane biology and biochemistry into new therapeutics. Kattan WE, Hancock JF. Biochem J 477 2893-2919 (2020)
  24. Implications of BRAF V600E mutation in gliomas: Molecular considerations, prognostic value and treatment evolution. Di Nunno V, Gatto L, Tosoni A, Bartolini S, Franceschi E. Front Oncol 12 1067252 (2022)
  25. Drug resistance in targeted cancer therapies with RAF inhibitors. Degirmenci U, Yap J, Sim YRM, Qin S, Hu J. Cancer Drug Resist 4 665-683 (2021)
  26. Toward structure-based drug design against the epidermal growth factor receptor (EGFR). Haddad Y, Remes M, Adam V, Heger Z. Drug Discov Today 26 289-295 (2021)
  27. Context Matters-Why We Need to Change From a One Size Fits all Approach to Made-to-Measure Therapies for Individual Patients With Pancreatic Cancer. Sankarasubramanian S, Pfohl U, Regenbrecht CRA, Reinhard C, Wedeken L. Front Cell Dev Biol 9 760705 (2021)
  28. Structure-Guided Strategies of Targeted Therapies for Patients with EGFR-Mutant Non-Small Cell Lung Cancer. Du Z, Sun J, Zhang Y, Hesilaiti N, Xia Q, Cui H, Fan N, Xu X. Biomolecules 13 210 (2023)
  29. Signaling pathways, microenvironment, and targeted treatments in Langerhans cell histiocytosis. Gao XM, Li J, Cao XX. Cell Commun Signal 20 195 (2022)
  30. BRAF - a tumour-agnostic drug target with lineage-specific dependencies. Hanrahan AJ, Chen Z, Rosen N, Solit DB. Nat Rev Clin Oncol 21 224-247 (2024)
  31. Langerhans cell histiocytosis: promises and caveats of targeted therapies in high-risk and CNS disease. Abla O. Hematology Am Soc Hematol Educ Program 2023 386-395 (2023)
  32. Tumor Cell Resistance to the Inhibition of BRAF and MEK1/2. Chen W, Park JI. Int J Mol Sci 24 14837 (2023)

Articles citing this publication (75)

  1. Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma. Cancer Genome Atlas Research Network. Electronic address: andrew_aguirre@dfci.harvard.edu, Cancer Genome Atlas Research Network. Cancer Cell 32 185-203.e13 (2017)
  2. Combination of ERK and autophagy inhibition as a treatment approach for pancreatic cancer. Bryant KL, Stalnecker CA, Zeitouni D, Klomp JE, Peng S, Tikunov AP, Gunda V, Pierobon M, Waters AM, George SD, Tomar G, Papke B, Hobbs GA, Yan L, Hayes TK, Diehl JN, Goode GD, Chaika NV, Wang Y, Zhang GF, Witkiewicz AK, Knudsen ES, Petricoin EF, Singh PK, Macdonald JM, Tran NL, Lyssiotis CA, Ying H, Kimmelman AC, Cox AD, Der CJ. Nat Med 25 628-640 (2019)
  3. Accelerating Discovery of Functional Mutant Alleles in Cancer. Chang MT, Bhattarai TS, Schram AM, Bielski CM, Donoghue MTA, Jonsson P, Chakravarty D, Phillips S, Kandoth C, Penson A, Gorelick A, Shamu T, Patel S, Harris C, Gao J, Sumer SO, Kundra R, Razavi P, Li BT, Reales DN, Socci ND, Jayakumaran G, Zehir A, Benayed R, Arcila ME, Chandarlapaty S, Ladanyi M, Schultz N, Baselga J, Berger MF, Rosen N, Solit DB, Hyman DM, Taylor BS. Cancer Discov 8 174-183 (2018)
  4. Real-time Genomic Characterization of Advanced Pancreatic Cancer to Enable Precision Medicine. Aguirre AJ, Nowak JA, Camarda ND, Moffitt RA, Ghazani AA, Hazar-Rethinam M, Raghavan S, Kim J, Brais LK, Ragon D, Welch MW, Reilly E, McCabe D, Marini L, Anderka K, Helvie K, Oliver N, Babic A, Da Silva A, Nadres B, Van Seventer EE, Shahzade HA, St Pierre JP, Burke KP, Clancy T, Cleary JM, Doyle LA, Jajoo K, McCleary NJ, Meyerhardt JA, Murphy JE, Ng K, Patel AK, Perez K, Rosenthal MH, Rubinson DA, Ryou M, Shapiro GI, Sicinska E, Silverman SG, Nagy RJ, Lanman RB, Knoerzer D, Welsch DJ, Yurgelun MB, Fuchs CS, Garraway LA, Getz G, Hornick JL, Johnson BE, Kulke MH, Mayer RJ, Miller JW, Shyn PB, Tuveson DA, Wagle N, Yeh JJ, Hahn WC, Corcoran RB, Carter SL, Wolpin BM. Cancer Discov 8 1096-1111 (2018)
  5. KRAS Suppression-Induced Degradation of MYC Is Antagonized by a MEK5-ERK5 Compensatory Mechanism. Vaseva AV, Blake DR, Gilbert TSK, Ng S, Hostetter G, Azam SH, Ozkan-Dagliyan I, Gautam P, Bryant KL, Pearce KH, Herring LE, Han H, Graves LM, Witkiewicz AK, Knudsen ES, Pecot CV, Rashid N, Houghton PJ, Wennerberg K, Cox AD, Der CJ. Cancer Cell 34 807-822.e7 (2018)
  6. An Integrated Model of RAF Inhibitor Action Predicts Inhibitor Activity against Oncogenic BRAF Signaling. Karoulia Z, Wu Y, Ahmed TA, Xin Q, Bollard J, Krepler C, Wu X, Zhang C, Bollag G, Herlyn M, Fagin JA, Lujambio A, Gavathiotis E, Poulikakos PI. Cancer Cell 30 485-498 (2016)
  7. Alternative genetic mechanisms of BRAF activation in Langerhans cell histiocytosis. Chakraborty R, Burke TM, Hampton OA, Zinn DJ, Lim KP, Abhyankar H, Scull B, Kumar V, Kakkar N, Wheeler DA, Roy A, Poulikakos PI, Merad M, McClain KL, Parsons DW, Allen CE. Blood 128 2533-2537 (2016)
  8. Allele-Specific Mechanisms of Activation of MEK1 Mutants Determine Their Properties. Gao Y, Chang MT, McKay D, Na N, Zhou B, Yaeger R, Torres NM, Muniz K, Drosten M, Barbacid M, Caponigro G, Stuart D, Moebitz H, Solit DB, Abdel-Wahab O, Taylor BS, Yao Z, Rosen N. Cancer Discov 8 648-661 (2018)
  9. Increased autophagy blocks HER2-mediated breast tumorigenesis. Vega-Rubín-de-Celis S, Zou Z, Fernández ÁF, Ci B, Kim M, Xiao G, Xie Y, Levine B. Proc Natl Acad Sci U S A 115 4176-4181 (2018)
  10. A Landscape of Therapeutic Cooperativity in KRAS Mutant Cancers Reveals Principles for Controlling Tumor Evolution. Anderson GR, Winter PS, Lin KH, Nussbaum DP, Cakir M, Stein EM, Soderquist RS, Crawford L, Leeds JC, Newcomb R, Stepp P, Yip C, Wardell SE, Tingley JP, Ali M, Xu M, Ryan M, McCall SJ, McRee AJ, Counter CM, Der CJ, Wood KC. Cell Rep 20 999-1015 (2017)
  11. Discovery of a selective inhibitor of doublecortin like kinase 1. Ferguson FM, Nabet B, Raghavan S, Liu Y, Leggett AL, Kuljanin M, Kalekar RL, Yang A, He S, Wang J, Ng RWS, Sulahian R, Li L, Poulin EJ, Huang L, Koren J, Dieguez-Martinez N, Espinosa S, Zeng Z, Corona CR, Vasta JD, Ohi R, Sim T, Kim ND, Harshbarger W, Lizcano JM, Robers MB, Muthaswamy S, Lin CY, Look AT, Haigis KM, Mancias JD, Wolpin BM, Aguirre AJ, Hahn WC, Westover KD, Gray NS. Nat Chem Biol 16 635-643 (2020)
  12. Response to Anti-EGFR Therapy in Patients with BRAF non-V600-Mutant Metastatic Colorectal Cancer. Yaeger R, Kotani D, Mondaca S, Parikh AR, Bando H, Van Seventer EE, Taniguchi H, Zhao H, Thant CN, de Stanchina E, Rosen N, Corcoran RB, Yoshino T, Yao Z, Ebi H. Clin Cancer Res 25 7089-7097 (2019)
  13. Real-time genomic profiling of histiocytoses identifies early-kinase domain BRAF alterations while improving treatment outcomes. Lee LH, Gasilina A, Roychoudhury J, Clark J, McCormack FX, Pressey J, Grimley MS, Lorsbach R, Ali S, Bailey M, Stephens P, Ross JS, Miller VA, Nassar NN, Kumar AR. JCI Insight 2 e89473 (2017)
  14. Altered conformational landscape and dimerization dependency underpins the activation of EGFR by αC-β4 loop insertion mutations. Ruan Z, Kannan N. Proc Natl Acad Sci U S A 115 E8162-E8171 (2018)
  15. High frequency of H3 K27M mutations in adult midline gliomas. Ebrahimi A, Skardelly M, Schuhmann MU, Ebinger M, Reuss D, Neumann M, Tabatabai G, Kohlhof-Meinecke P, Schittenhelm J. J Cancer Res Clin Oncol 145 839-850 (2019)
  16. Activating mutations in MEK1 enhance homodimerization and promote tumorigenesis. Yuan J, Ng WH, Tian Z, Yap J, Baccarini M, Chen Z, Hu J. Sci Signal 11 eaar6795 (2018)
  17. Creation of Novel Protein Variants with CRISPR/Cas9-Mediated Mutagenesis: Turning a Screening By-Product into a Discovery Tool. Donovan KF, Hegde M, Sullender M, Vaimberg EW, Johannessen CM, Root DE, Doench JG. PLoS One 12 e0170445 (2017)
  18. The dimer-dependent catalytic activity of RAF family kinases is revealed through characterizing their oncogenic mutants. Yuan J, Ng WH, Lam PYP, Wang Y, Xia H, Yap J, Guan SP, Lee ASG, Wang M, Baccarini M, Hu J. Oncogene 37 5719-5734 (2018)
  19. Alantolactone sensitizes human pancreatic cancer cells to EGFR inhibitors through the inhibition of STAT3 signaling. Zheng H, Yang L, Kang Y, Chen M, Lin S, Xiang Y, Li C, Dai X, Huang X, Liang G, Zhao C. Mol Carcinog 58 565-576 (2019)
  20. Structure-function analysis of oncogenic EGFR Kinase Domain Duplication reveals insights into activation and a potential approach for therapeutic targeting. Du Z, Brown BP, Kim S, Ferguson D, Pavlick DC, Jayakumaran G, Benayed R, Gallant JN, Zhang YK, Yan Y, Red-Brewer M, Ali SM, Schrock AB, Zehir A, Ladanyi M, Smith AW, Meiler J, Lovly CM. Nat Commun 12 1382 (2021)
  21. Exploiting Allosteric Properties of RAF and MEK Inhibitors to Target Therapy-Resistant Tumors Driven by Oncogenic BRAF Signaling. Adamopoulos C, Ahmed TA, Tucker MR, Ung PMU, Xiao M, Karoulia Z, Amabile A, Wu X, Aaronson SA, Ang C, Rebecca VW, Brown BD, Schlessinger A, Herlyn M, Wang Q, Shaw DE, Poulikakos PI. Cancer Discov 11 1716-1735 (2021)
  22. Letter New somatic BRAF splicing mutation in Langerhans cell histiocytosis. Héritier S, Hélias-Rodzewicz Z, Chakraborty R, Sengal AG, Bellanné-Chantelot C, Thomas C, Moreau A, Fraitag S, Allen CE, Donadieu J, Emile JF. Mol Cancer 16 115 (2017)
  23. Overcoming resistance to HER2 inhibitors through state-specific kinase binding. Novotny CJ, Pollari S, Park JH, Lemmon MA, Shen W, Shokat KM. Nat Chem Biol 12 923-930 (2016)
  24. The EGFR Exon 19 Mutant L747-A750>P Exhibits Distinct Sensitivity to Tyrosine Kinase Inhibitors in Lung Adenocarcinoma. Truini A, Starrett JH, Stewart T, Ashtekar K, Walther Z, Wurtz A, Lu D, Park JH, DeVeaux M, Song X, Gettinger S, Zelterman D, Lemmon MA, Goldberg SB, Politi K. Clin Cancer Res 25 6382-6391 (2019)
  25. Rapid generation of drug-resistance alleles at endogenous loci using CRISPR-Cas9 indel mutagenesis. Ipsaro JJ, Shen C, Arai E, Xu Y, Kinney JB, Joshua-Tor L, Vakoc CR, Shi J. PLoS One 12 e0172177 (2017)
  26. BRAF in Lung Cancers: Analysis of Patient Cases Reveals Recurrent BRAF Mutations, Fusions, Kinase Duplications, and Concurrent Alterations. Sheikine Y, Pavlick D, Klempner SJ, Trabucco SE, Chung JH, Rosenzweig M, Wang K, Velcheti V, Frampton GM, Peled N, Murray M, Chae YK, Albacker LA, Gay L, Husain H, Suh JH, Millis SZ, Reddy VP, Elvin JA, Hartmaier RJ, Dowlati A, Stephens P, Ross JS, Bivona TG, Miller VA, Ganesan S, Schrock AB, Ou SI, Ali SM. JCO Precis Oncol 2 PO.17.00172 (2018)
  27. BRAF mutation leading to central nervous system rosai-dorfman disease. Richardson TE, Wachsmann M, Oliver D, Abedin Z, Ye D, Burns DK, Raisanen JM, Greenberg BM, Hatanpaa KJ. Ann Neurol 84 147-152 (2018)
  28. Development of Allosteric BRAF Peptide Inhibitors Targeting the Dimer Interface of BRAF. Gunderwala AY, Nimbvikar AA, Cope NJ, Li Z, Wang Z. ACS Chem Biol 14 1471-1480 (2019)
  29. Recurrent mutations in topoisomerase IIα cause a previously undescribed mutator phenotype in human cancers. Boot A, Liu M, Stantial N, Shah V, Yu W, Nitiss KC, Nitiss JL, Jinks-Robertson S, Rozen SG. Proc Natl Acad Sci U S A 119 e2114024119 (2022)
  30. Components of the phosphatidylserine endoplasmic reticulum to plasma membrane transport mechanism as targets for KRAS inhibition in pancreatic cancer. Kattan WE, Liu J, Montufar-Solis D, Liang H, Brahmendra Barathi B, van der Hoeven R, Zhou Y, Hancock JF. Proc Natl Acad Sci U S A 118 e2114126118 (2021)
  31. Defining the landscape of ATP-competitive inhibitor resistance residues in protein kinases. Persky NS, Hernandez D, Do Carmo M, Brenan L, Cohen O, Kitajima S, Nayar U, Walker A, Pantel S, Lee Y, Cordova J, Sathappa M, Zhu C, Hayes TK, Ram P, Pancholi P, Mikkelsen TS, Barbie DA, Yang X, Haq R, Piccioni F, Root DE, Johannessen CM. Nat Struct Mol Biol 27 92-104 (2020)
  32. Exploring Molecular Mechanisms of Paradoxical Activation in the BRAF Kinase Dimers: Atomistic Simulations of Conformational Dynamics and Modeling of Allosteric Communication Networks and Signaling Pathways. Tse A, Verkhivker GM. PLoS One 11 e0166583 (2016)
  33. Identification of targetable BRAF ΔN486_P490 variant by whole-genome sequencing leading to dabrafenib-induced remission of a BRAF-mutant pancreatic adenocarcinoma. Wrzeszczynski KO, Rahman S, Frank MO, Arora K, Shah M, Geiger H, Felice V, Manaa D, Dikoglu E, Khaira D, Chimpiri AR, Michelini VV, Jobanputra V, Darnell RB, Powers S, Choi M. Cold Spring Harb Mol Case Stud 5 a004424 (2019)
  34. Molecular dynamics simulations and modelling of the residue interaction networks in the BRAF kinase complexes with small molecule inhibitors: probing the allosteric effects of ligand-induced kinase dimerization and paradoxical activation. Verkhivker GM. Mol Biosyst 12 3146-3165 (2016)
  35. Ancestral reconstruction reveals mechanisms of ERK regulatory evolution. Sang D, Pinglay S, Wiewiora RP, Selvan ME, Lou HJ, Chodera JD, Turk BE, Gümüş ZH, Holt LJ. Elife 8 e38805 (2019)
  36. Letter BRAF activating mutations involving the β3-αC loop in V600E-negative anaplastic pleomorphic xanthoastrocytoma. Pratt D, Camelo-Piragua S, McFadden K, Leung D, Mody R, Chinnaiyan A, Koschmann C, Venneti S. Acta Neuropathol Commun 6 24 (2018)
  37. Retrospective Case Series Analysis of RAF Family Alterations in Pancreatic Cancer: Real-World Outcomes From Targeted and Standard Therapies. Hendifar A, Blais EM, Wolpin B, Subbiah V, Collisson E, Singh I, Cannon T, Shaw K, Petricoin EF, Klempner S, Lyons E, Wang-Gillam A, Pishvaian MJ, O'Reilly EM. JCO Precis Oncol 5 PO.20.00494 (2021)
  38. Structural basis of the effect of activating mutations on the EGF receptor. Galdadas I, Carlino L, Ward RA, Hughes SJ, Haider S, Gervasio FL. Elife 10 e65824 (2021)
  39. Atomistic simulations and network-based modeling of the Hsp90-Cdc37 chaperone binding with Cdk4 client protein: A mechanism of chaperoning kinase clients by exploiting weak spots of intrinsically dynamic kinase domains. Czemeres J, Buse K, Verkhivker GM. PLoS One 12 e0190267 (2017)
  40. Structural characterization of EGFR exon 19 deletion mutation using molecular dynamics simulation. Tamirat MZ, Koivu M, Elenius K, Johnson MS. PLoS One 14 e0222814 (2019)
  41. A novel three-dimensional high-throughput screening approach identifies inducers of a mutant KRAS selective lethal phenotype. Kota S, Hou S, Guerrant W, Madoux F, Troutman S, Fernandez-Vega V, Alekseeva N, Madala N, Scampavia L, Kissil J, Spicer TP. Oncogene 37 4372-4384 (2018)
  42. The genetic landscape of pancreatic head ductal adenocarcinoma in China and prognosis stratification. Yang Y, Ding Y, Gong Y, Zhao S, Li M, Li X, Song G, Zhai B, Liu J, Shao Y, Zhu L, Pang J, Ma Y, Ou Q, Wu X, Zhang Z. BMC Cancer 22 186 (2022)
  43. Clinical Activity of Mitogen-Activated Protein Kinase-Targeted Therapies in Patients With Non-V600 BRAF-Mutant Tumors. Dankner M, Wang Y, Fazelzad R, Johnson B, Nebhan CA, Dagogo-Jack I, Myall NJ, Richtig G, Bracht JWP, Gerlinger M, Shinozaki E, Yoshino T, Kotani D, Fangusaro JR, Gautschi O, Mazieres J, Sosman JA, Kopetz S, Subbiah V, Davies MA, Groover AL, Sullivan RJ, Flaherty KT, Johnson DB, Benedetti A, Cescon DW, Spreafico A, Zogopoulos G, Rose AAN. JCO Precis Oncol 6 e2200107 (2022)
  44. Hydration effects on the efficacy of the Epidermal growth factor receptor kinase inhibitor afatinib. Kannan S, Pradhan MR, Tiwari G, Tan WC, Chowbay B, Tan EH, Tan DS, Verma C. Sci Rep 7 1540 (2017)
  45. The stability of R-spine defines RAF inhibitor resistance: A comprehensive analysis of oncogenic BRAF mutants with in-frame insertion of αC-β4 loop. Yap J, Deepak RNVK, Tian Z, Ng WH, Goh KC, Foo A, Tee ZH, Mohanam MP, Sim YRM, Degirmenci U, Lam P, Chen Z, Fan H, Hu J. Sci Adv 7 eabg0390 (2021)
  46. Biochemical and structural basis for differential inhibitor sensitivity of EGFR with distinct exon 19 mutations. van Alderwerelt van Rosenburgh IK, Lu DM, Grant MJ, Stayrook SE, Phadke M, Walther Z, Goldberg SB, Politi K, Lemmon MA, Ashtekar KD, Tsutsui Y. Nat Commun 13 6791 (2022)
  47. Ensemble-based modeling and rigidity decomposition of allosteric interaction networks and communication pathways in cyclin-dependent kinases: Differentiating kinase clients of the Hsp90-Cdc37 chaperone. Stetz G, Tse A, Verkhivker GM. PLoS One 12 e0186089 (2017)
  48. Structural Basis for the Functional Changes by EGFR Exon 20 Insertion Mutations. Tamirat MZ, Kurppa KJ, Elenius K, Johnson MS. Cancers (Basel) 13 1120 (2021)
  49. A lymphatic-absorbed multi-targeted kinase inhibitor for myelofibrosis therapy. Ross BD, Jang Y, Welton A, Bonham CA, Palagama DSW, Heist K, Boppisetti J, Imaduwage KP, Robison T, King LR, Zhang EZ, Amirfazli C, Luker KE, Lee WY, Luker GD, Chenevert TL, Van Dort ME. Nat Commun 13 4730 (2022)
  50. Clinicogenomic associations in childhood Langerhans cell histiocytosis: an international cohort study. Kemps PG, Zondag TCE, Arnardóttir HB, Solleveld-Westerink N, Borst J, Steenwijk EC, van Egmond D, Swennenhuis JF, Stelloo E, Trambusti I, Verdijk RM, van Noesel CJM, Cleven AHG, Scheijde-Vermeulen MA, Koudijs MJ, Krsková L, Hawkins C, Egeler RM, Brok J, von Bahr Greenwood T, Svojgr K, Beishuizen A, van Laar JAM, Pötschger U, Hutter C, Sieni E, Minkov M, Abla O, van Wezel T, van den Bos C, van Halteren AGS. Blood Adv 7 664-679 (2023)
  51. Heterogeneous effects of M-CSF isoforms on the progression of MLL-AF9 leukemia. Wang R, Feng W, Yang F, Yang X, Wang L, Chen C, Hu Y, Ren Q, Zheng G. Immunol Cell Biol 96 190-203 (2018)
  52. Oncogenic mutations within the β3-αC loop of EGFR/ERBB2/BRAF/MAP2K1 predict response to therapies. Zhang B, Chen Y, Dai P, Yu H, Ma J, Chen C, Zhang Y, Guan Y, Chen R, Liu T, Wang J, Yang L, Yi X, Xia X, Ma H. Mol Genet Genomic Med 8 e1395 (2020)
  53. Phase I trial of Bermekimab with nanoliposomal irinotecan and 5-fluorouracil/folinic acid in advanced pancreatic ductal adenocarcinoma. Gong J, Thomassian S, Kim S, Gresham G, Moshayedi N, Ye JY, Yang JC, Jacobs JP, Lo S, Nissen N, Gaddam S, Tighiouart M, Osipov A, Hendifar A. Sci Rep 12 15013 (2022)
  54. Allosteric and ATP-Competitive MEK-Inhibition in a Novel Spitzoid Melanoma Model with a RAF- and Phosphorylation-Independent Mutation. Hegedüs L, Okumus Ö, Livingstone E, Baranyi M, Kovács I, Döme B, Tóvári J, Bánkfalvi Á, Schadendorf D, Aigner C, Hegedüs B. Cancers (Basel) 13 829 (2021)
  55. Analysis of somatic mutations across the kinome reveals loss-of-function mutations in multiple cancer types. Kumar RD, Bose R. Sci Rep 7 6418 (2017)
  56. Deletion Mutations Keep Kinase Inhibitors in the Loop. Freed DM, Park JH, Radhakrishnan R, Lemmon MA. Cancer Cell 29 423-425 (2016)
  57. Network-based modelling and percolation analysis of conformational dynamics and activation in the CDK2 and CDK4 proteins: dynamic and energetic polarization of the kinase lobes may determine divergence of the regulatory mechanisms. Verkhivker GM. Mol Biosyst 13 2235-2253 (2017)
  58. Novel treatment strategy for NRAS-mutated melanoma through a selective inhibitor of CD147/VEGFR-2 interaction. Landras A, Reger de Moura C, Villoutreix BO, Battistella M, Sadoux A, Dumaz N, Menashi S, Fernández-Recio J, Lebbé C, Mourah S. Oncogene 41 2254-2264 (2022)
  59. Whole exome sequencing analysis of canine urothelial carcinomas without BRAF V595E mutation: Short in-frame deletions in BRAF and MAP2K1 suggest alternative mechanisms for MAPK pathway disruption. Thomas R, Wiley CA, Droste EL, Robertson J, Inman BA, Breen M. PLoS Genet 19 e1010575 (2023)
  60. Architecture of the MKK6-p38α complex defines the basis of MAPK specificity and activation. Juyoux P, Galdadas I, Gobbo D, von Velsen J, Pelosse M, Tully M, Vadas O, Gervasio FL, Pellegrini E, Bowler MW. Science 381 1217-1225 (2023)
  61. EGFR T790M Mutation Detection in Patients With Non-Small Cell Lung Cancer After First Line EGFR TKI Therapy: Summary of Results in a Three-Year Period and a Comparison of Commercially Available Detection Kits. Bencze E, Bogos K, Kohánka A, Báthory-Fülöp L, Sárosi V, Csernák E, Bittner N, Melegh Z, Tóth E. Pathol Oncol Res 28 1610607 (2022)
  62. Oncogenic Drivers and Therapeutic Vulnerabilities in KRAS Wild-Type Pancreatic Cancer. Singh H, Keller RB, Kapner KS, Dilly J, Raghavan S, Yuan C, Cohen EF, Tolstorukov M, Andrews E, Brais LK, da Silva A, Perez K, Rubinson DA, Surana R, Giannakis M, Ng K, Clancy TE, Yurgelun MB, Schlechter BL, Clark JW, Shapiro GI, Rosenthal MH, Hornick JL, Nardi V, Li YY, Gupta H, Cherniack AD, Meyerson M, Cleary JM, Nowak JA, Wolpin BM, Aguirre AJ. Clin Cancer Res 29 4627-4643 (2023)
  63. Resistance mechanism of the oncogenic β3-αC deletion mutation in BRAF kinase to dabrafenib and vemurafenib revealed by molecular dynamics simulations and binding free energy calculations. Niu Y, Zhang Y, Yao X. Chem Biol Drug Des 93 177-187 (2019)
  64. Structural analysis of receptor-like kinase SOBIR1 reveals mechanisms that regulate its phosphorylation-dependent activation. Wei X, Wang Y, Zhang S, Gu T, Steinmetz G, Yu H, Guo G, Liu X, Fan S, Wang F, Gu Y, Xin F. Plant Commun 3 100301 (2022)
  65. Structure Based Design of Potent Selective Inhibitors of Protein Kinase D1 (PKD1). Feng JA, Lee P, Alaoui MH, Barrett K, Castanedo G, Godemann R, McEwan P, Wang X, Wu P, Zhang Y, Harris SF, Staben ST. ACS Med Chem Lett 10 1260-1265 (2019)
  66. Case Reports BRAF L485-P490 deletion mutant metastatic melanoma sensitive to BRAF and MEK inhibition: A case report and literature review. Zhang S, Yang Z, Cheng Y, Guo X, Liu C, Wang S, Zhang L. Front Pharmacol 13 1019217 (2022)
  67. Conformational Properties and Putative Bioactive Targets for Novel Thiosemicarbazone Derivatives. Georgiou N, Cheilari A, Karta D, Chontzopoulou E, Plavec J, Tzeli D, Vassiliou S, Mavromoustakos T. Molecules 27 4548 (2022)
  68. Design, Synthesis and Anticancer Activity of a New Series of N-aryl-N'-[4-(pyridin-2-ylmethoxy)benzyl]urea Derivatives. Hou S, Liang S, Zhang C, Han Y, Liang J, Hu H, Zhang X, Hu C, Liu X, Zhang H. Molecules 26 3496 (2021)
  69. Case Reports Efficacy of dabrafenib/trametinib in pancreatic ductal adenocarcinoma with BRAF NVTAP deletion: A case report. Shin JE, An HJ, Park HS, Kim H, Shim BY. Front Oncol 12 976450 (2022)
  70. Knockdown of 15-bp Deletion-Type v-raf Murine Sarcoma Viral Oncogene Homolog B1 mRNA in Pancreatic Ductal Adenocarcinoma Cells Repressed Cell Growth In Vitro and Tumor Volume In Vivo. Song J, Kobayashi Y, Asano Y, Sato A, Taniguchi H, Ui-Tei K. Cancers (Basel) 14 3162 (2022)
  71. RAS-independent ERK activation by constitutively active KSR3 in non-chordate metazoa. Chessel A, De Crozé N, Molina MD, Taberner L, Dru P, Martin L, Lepage T. Nat Commun 14 3970 (2023)
  72. Synthesis, In Vitro and In Silico Anticancer Activity of New 4-Methylbenzamide Derivatives Containing 2,6-Substituted Purines as Potential Protein Kinases Inhibitors. Kalinichenko E, Faryna A, Bozhok T, Panibrat A. Int J Mol Sci 22 12738 (2021)
  73. Learning from ancestors. Hong SH, Shah NH. Elife 8 e49976 (2019)
  74. Non-small cell lung cancer cells with uncommon EGFR exon 19delins variants respond poorly to third-generation EGFR inhibitors. Lu Z, Yi Y, Wang L, Luo Y, Luo D, Xiong L, Shu Y, Luo H, Li J, Zhu W, Zeng Z, Liu A. Transl Oncol 39 101834 (2024)
  75. Letter Rare Activating BRAF Alteration Involving the β3-αC Kinase Domain in Ganglioglioma. Lin CC, Lefferts JA, Chan AM, Zanazzi G. J Neuropathol Exp Neurol 80 887-889 (2021)