Unraveling the molecular mechanism of novel leukemia mutations on NTRK2 (A203T & R458G) and NTRK3 (E176D & L449F) genes using molecular dynamics simulations approach [version 1; peer review: awaiting peer review]

• Published in: F1000 research Vol. 12; p. 345
• Main Authors: M Al-Subaie, Abeer, Kamaraj, Balu, Ahmad, Fazil, Alsamman, Khaldoon
• Format: Journal Article
• Language: English
• Published: England F1000 Research Ltd 2023
• Subjects: eng; Humans; Leukemia - genetics; Leukemia; Mutations; Stability; Structural loss; Molecular mechanism; Modeling; Molecular dynamic simulations; Membrane Glycoproteins - chemistry; Membrane Glycoproteins - genetics; Molecular Dynamics Simulation; Mutation; Receptor, trkB - chemistry; Receptor, trkB - genetics; Receptor, trkC - chemistry; Receptor, trkC - genetics; Leukemia; Mutations; Stability; Structural loss; Molecular mechanism; Modeling; Molecular dynamic simulations
• ISSN: 2046-1402; 2046-1402
• DOI: 10.12688/f1000research.131013.1

Background: NTRK1, NTRK2, and NTRK3 are members of the neurotrophic receptor tyrosine kinases (NTRK) family, which encode TrkA, TrkB, and TrkC receptors, respectively. Hematologic cancers are also linked to point mutations in the NTRK gene's kinase domain. Trk fusions are the most common genetic change associated with oncogenic activity in Trk-driven liquid tumors. Thus, point mutations in NTRK genes may also play a role in tumorigenesis. The structural and functional effect of mutations in Trk-B & Trk-C proteins remains unclear. Methods: In this research, Homology (threading-based approach) modeling and the all-atom molecular dynamics simulations approaches are applied to examine the structural and functional behavior of native and mutant Trk-B and Trk-C proteins at the molecular level. Results: The result of this study reveals how the mutations in Trk-B (A203T & R458G) and Trk-C (E176D & L449F) proteins lost their stability and native conformations. The Trk-B mutant A203T became more flexible than the native protein, whereas the R458G mutation became more rigid than the native conformation of the Trk-B protein. Also, the Trk-C mutations (E176D & L449F) become more rigid compared to the native structure. Conclusions: This structural transition may interrupt the function of Trk-B and Trk-C proteins. Observing the impact of NTRK-2/3 gene alterations at the atomic level could aid in discovering a viable treatment for Trk-related leukemias.