6XFP

Crystal Structure of BRAF kinase domain bound to Belvarafenib

Summary for 6XFP

• Entry DOI: 10.2210/pdb6xfp/pdb
• Descriptor: Serine/threonine-protein kinase B-raf, 4-amino-N-{1-[(3-chloro-2-fluorophenyl)amino]-6-methylisoquinolin-5-yl}thieno[3,2-d]pyrimidine-7-carboxamide, CHLORIDE ION, ... (4 entities in total)
• Functional Keywords: braf belvarafenib, signaling protein
• Biological source: Homo sapiens (Human)
• Total number of polymer chains: 1
• Total formula weight: 33524.27

Authors

Yin, J.,Sudhamsu, J. (deposition date: 2020-06-16, release date: 2021-03-10, Last modification date: 2023-10-18)

Primary citation

Yen, I.,Shanahan, F.,Lee, J.,Hong, Y.S.,Shin, S.J.,Moore, A.R.,Sudhamsu, J.,Chang, M.T.,Bae, I.,Dela Cruz, D.,Hunsaker, T.,Klijn, C.,Liau, N.P.D.,Lin, E.,Martin, S.E.,Modrusan, Z.,Piskol, R.,Segal, E.,Venkatanarayan, A.,Ye, X.,Yin, J.,Zhang, L.,Kim, J.S.,Lim, H.S.,Kim, K.P.,Kim, Y.J.,Han, H.S.,Lee, S.J.,Kim, S.T.,Jung, M.,Hong, Y.H.,Noh, Y.S.,Choi, M.,Han, O.,Nowicka, M.,Srinivasan, S.,Yan, Y.,Kim, T.W.,Malek, S.
ARAF mutations confer resistance to the RAF inhibitor belvarafenib in melanoma.
Nature, 594:418-423, 2021

PubMed Abstract: Although RAF monomer inhibitors (type I.5, BRAF(V600)) are clinically approved for the treatment of BRAF-mutant melanoma, they are ineffective in non-BRAF mutant cells. Belvarafenib is a potent and selective RAF dimer (type II) inhibitor that exhibits clinical activity in patients with BRAF- and NRAS-mutant melanomas. Here we report the first-in-human phase I study investigating the maximum tolerated dose, and assessing the safety and preliminary efficacy of belvarafenib in BRAF- and RAS-mutated advanced solid tumours (NCT02405065, NCT03118817). By generating belvarafenib-resistant NRAS-mutant melanoma cells and analysing circulating tumour DNA from patients treated with belvarafenib, we identified new recurrent mutations in ARAF within the kinase domain. ARAF mutants conferred resistance to belvarafenib in both a dimer- and a kinase activity-dependent manner. Belvarafenib induced ARAF mutant dimers, and dimers containing mutant ARAF were active in the presence of inhibitor. ARAF mutations may serve as a general resistance mechanism for RAF dimer inhibitors as the mutants exhibit reduced sensitivity to a panel of type II RAF inhibitors. The combination of RAF plus MEK inhibition may be used to delay ARAF-driven resistance and suggests a rational combination for clinical use. Together, our findings reveal specific and compensatory functions for the ARAF isoform and implicate ARAF mutations as a driver of resistance to RAF dimer inhibitors.

PubMed: 33953400
DOI: 10.1038/s41586-021-03515-1

Experimental method

X-RAY DIFFRACTION (2 Å)