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Noncovalent inhibitors reveal BTK gatekeeper and auto-inhibitory residues that control its transforming activity
Shenqiu Wang, Sayan Mondal, Chunying Zhao, Marjan Berishaj, Phani Ghanakota, Connie Lee Batlevi, Ahmet Dogan, Venkatraman E. Seshan, Robert Abel, Michael R. Green, Anas Younes, Hans-Guido Wendel
Shenqiu Wang, Sayan Mondal, Chunying Zhao, Marjan Berishaj, Phani Ghanakota, Connie Lee Batlevi, Ahmet Dogan, Venkatraman E. Seshan, Robert Abel, Michael R. Green, Anas Younes, Hans-Guido Wendel
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Research Article Hematology Oncology

Noncovalent inhibitors reveal BTK gatekeeper and auto-inhibitory residues that control its transforming activity

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Abstract

Inhibition of Bruton tyrosine kinase (BTK) is a breakthrough therapy for certain B cell lymphomas and B cell chronic lymphatic leukemia. Covalent BTK inhibitors (e.g., ibrutinib) bind to cysteine C481, and mutations of this residue confer clinical resistance. This has led to the development of noncovalent BTK inhibitors that do not require binding to cysteine C481. These new compounds are now entering clinical trials. In a systematic BTK mutagenesis screen, we identify residues that are critical for the activity of noncovalent inhibitors. These include a gatekeeper residue (T474) and mutations in the kinase domain. Strikingly, co-occurrence of gatekeeper and kinase domain lesions (L512M, E513G, F517L, L547P) in cis results in a 10- to 15-fold gain of BTK kinase activity and de novo transforming potential in vitro and in vivo. Computational BTK structure analyses reveal how these lesions disrupt an intramolecular mechanism that attenuates BTK activation. Our findings anticipate clinical resistance mechanisms to a new class of noncovalent BTK inhibitors and reveal intramolecular mechanisms that constrain BTK’s transforming potential.

Authors

Shenqiu Wang, Sayan Mondal, Chunying Zhao, Marjan Berishaj, Phani Ghanakota, Connie Lee Batlevi, Ahmet Dogan, Venkatraman E. Seshan, Robert Abel, Michael R. Green, Anas Younes, Hans-Guido Wendel

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Figure 6

Modeling and testing the cooperative effects of the BTK double mutein.

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Modeling and testing the cooperative effects of the BTK double mutein.
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(A–C) All-atom MD simulations comparing T474M (A), E513G (B), and the double mutants (T474M and E513G) (C) with wild-type BTK. The residues computed to have differential frequency of contacts in the mutant compared with the wild-type BTK are highlighted in stick representation in the protein model. Mutated residues are highlighted in all-atom CPK representation. A structural pattern of residues with differential contacts emerges for the double mutant, connecting the mutations to distant residues implicated in activation, viz. D579 and H519. (D) H519A mutation reverts the increased BTK Y223 autophosphorylation of cells expressing BTK_T474M+E513G to wild-type BTK levels as measured by FACS in HEK393T cells. Data are represented as mean ± SD from 2 independent experiments. *P < 0.05 determined by Student’s t test. (E) H519A further abrogates IL-3–independent growth in Ba/F3 cells expressing BTK_T474M+E513G.

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