Cited by 173Melanoma and MAPK PathwaysProtein Kinase Regulation and GTPase SignalingProtein Tyrosine Phosphatases

Oncogenic BRAF Deletions That Function as Homodimers and Are Sensitive to Inhibition by RAF Dimer Inhibitor LY3009120

Chen, Shih-Hsun, Zhang, Youyan, Van Horn, Robert D., Yin, Tinggui, Buchanan, Sean, Yadav, Vipin, Mochalkin, Igor, Wong, Swee Seong +7 more·2016·Cancer Discovery

Published version of a preprint

Abstract

We have identified previously undiscovered BRAF in-frame deletions near the αC-helix region of the kinase domain in pancreatic, lung, ovarian, and thyroid cancers. These deletions are mutually exclusive with KRAS mutations and occur in 4.21% of KRAS wild-type pancreatic cancer. siRNA knockdown in cells harboring BRAF deletions showed that the MAPK activity and cell growth are BRAF dependent. Structurally, the BRAF deletions are predicted to shorten the β3/αC-helix loop and hinder its flexibility by locking the helix in the active αC-helix-in conformation that favors dimer formation. Expression of L485-P490–deleted BRAF is able to transform NIH/3T3 cells in a BRAF dimer–dependent manner. BRAF homodimer is confirmed to be the dominant RAF dimer by proximity ligation assays in BRAF deletion cells, which are resistant to the BRAF inhibitor vemurafenib and sensitive to LY3009120, a RAF dimer inhibitor. In tumor models with BRAF deletions, LY3009120 has shown tumor growth regression, whereas vemurafenib is inactive. Significance: This study discovered oncogenic BRAF deletions with a distinct activation mechanism dependent on the BRAF dimer formation in tumor cells. LY3009120 is active against these cells and represents a potential treatment option for patients with cancer with these BRAF deletions, or other atypical BRAF mutations where BRAF functions as a dimer. Cancer Discov; 6(3); 300–15. ©2016 AACR. This article is highlighted in the In This Issue feature, p. 217

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Registry

Crossref · 10.1158/2159-8290.cd-15-0896

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47 of 47 references verified0 citation errors · 0 not checkable

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  • KRAS wild type PDAC, including BxPC3, acquire in-frame deletions of BRAF that result in constitutive activation of the kinase domain.

    “It is known that in contrast to melanoma, cases of KRAS wild type PDAC, including the BxPC3 cell line itself, acquire in-frame deletions of BRAF that result in constitutive activation of the kinase domain (Chen 2016)15.”

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Authors
Chen, S.-H., Zhang, Y., Van Horn, R. D., Yin, T., Buchanan, S., Yadav, V., Mochalkin, I., Wong, S. S., Yue, Y. G., Huber, L., Conti, I., Henry, J. R., Starling, J. J., Plowman, G. D., & Peng, S.-B.
Affiliations
  • Eli Lilly (United States) (US)
  • 1Oncology Research, Eli Lilly and Company, Indianapolis, Indiana.
Corresponding author
Peng, Sheng-Bin
Venue
Cancer Discovery
Published
2016-03-01
Volume
6
Issue
3
Pages
300-315
ISSN
  • 2159-8274 (ISSN-L)
  • 2159-8290
OpenAlex
W2309935793
Cited by
171
References
47
Citations by year
2026: 8 · 2025: 9 · 2024: 24 · 2023: 22 · 2022: 23 · 2021: 15 · 2020: 13 · 2019: 16 · 2018: 17 · 2017: 19 · 2016: 5
FWCI
9.87
Type
journal article
Language
en
Open access
closed
Locations
  • Cancer Discovery (publishedVersion)
  • PubMed (publishedVersion)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Melanoma and MAPK Pathways
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Kinase Regulation and GTPase Signaling
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Tyrosine Phosphatases
Keywords
LY3009120, vemurafenib resistance, αC-helix, MAPK signaling, KRAS wild-type pancreatic cancer, proximity ligation assay
MeSH terms
Ectopic Gene Expression, Animals, Antineoplastic Agents, Cell Transformation, Neoplastic, Disease Models, Animal, Humans, Models, Molecular, Phenylurea Compounds, Protein Conformation, Pyrimidines, Gene Expression, Gene Deletion, Drug Resistance, Neoplasm, MAP Kinase Signaling System, Xenograft Model Antitumor Assays, Cell Line, Tumor, Protein Kinase Inhibitors, Proto-Oncogene Proteins B-raf, Mice, Protein Interaction Domains and Motifs, Protein Multimerization

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