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首页|Dynamic ensemble of HIV-1 RRE stem IIB reveals non-native conformations that disrupt the Rev binding site

Dynamic ensemble of HIV-1 RRE stem IIB reveals non-native conformations that disrupt the Rev binding site

Dynamic ensemble of HIV-1 RRE stem IIB reveals non-native conformations that disrupt the Rev binding site

来源:bioRxiv_logobioRxiv
英文摘要

ABSTRACT The HIV-1 Rev response element (RRE) RNA element mediates the nuclear export of intron containing viral RNAs by forming an oligomeric complex with the viral protein Rev. Stem IIB and nearby stem II three-way junction nucleate oligomerization through cooperative binding of two Rev molecules. Conformational flexibility at this RRE region has been shown to be important for Rev binding. However, the nature of the flexibility has remained elusive. Here, using NMR relaxation dispersion, including a new strategy for directly observing transient conformational states in large RNAs, we find that stem IIB alone or when part of the larger RREII three-way junction robustly exists in dynamic equilibrium with non-native ‘excited state’ (ES) conformations that have a combined population of ~20%. The ESs disrupt the Rev binding site by changing local secondary structure and their stabilization via point substitution mutations decreases the binding affinity to the Rev arginine-rich motif (ARM) by 15- to 80-fold. The ensemble clarifies the conformational flexibility observed in stem IIB, reveals long-range conformational coupling between stem IIB and the three-way junction that may play roles in cooperative Rev binding, and also identifies non-native RRE conformational states as new targets for the development of anti-HIV therapeutics.

Plangger Raphael、Al-Hashimi Hashim M.、Chu Chia-Chieh、Kreutz Christoph

Institute of Organic Chemistry and Center for Molecular Biosciences CMBI, Universit?t InnsbruckDepartment of Biochemistry, Duke University School of Medicine||Department of Chemistry, Duke UniversityDepartment of Biochemistry, Duke University School of MedicineInstitute of Organic Chemistry and Center for Molecular Biosciences CMBI, Universit?t Innsbruck

10.1101/498907

基础医学分子生物学生物化学

Plangger Raphael,Al-Hashimi Hashim M.,Chu Chia-Chieh,Kreutz Christoph.Dynamic ensemble of HIV-1 RRE stem IIB reveals non-native conformations that disrupt the Rev binding site[EB/OL].(2025-03-28)[2025-05-25].https://www.biorxiv.org/content/10.1101/498907.点此复制

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