Human proteins that interact with RNA/DNA hybrids

Author:

Wang Isabel X.,Grunseich Christopher,Fox Jennifer,Burdick Joshua,Zhu Zhengwei,Ravazian Niema,Hafner Markus,Cheung Vivian G.

Abstract

RNA/DNA hybrids form when RNA hybridizes with its template DNA generating a three-stranded structure known as the R-loop. Knowledge of how they form and resolve, as well as their functional roles, is limited. Here, by pull-down assays followed by mass spectrometry, we identified 803 proteins that bind to RNA/DNA hybrids. Because these proteins were identified using in vitro assays, we confirmed that they bind to R-loops in vivo. They include proteins that are involved in a variety of functions, including most steps of RNA processing. The proteins are enriched for K homology (KH) and helicase domains. Among them, more than 300 proteins preferred binding to hybrids than double-stranded DNA. These proteins serve as starting points for mechanistic studies to elucidate what RNA/DNA hybrids regulate and how they are regulated.

Funder

Howard Hughes Medical Institute

National Institute of Neurological Disorders and Stroke

Publisher

Cold Spring Harbor Laboratory

Subject

Genetics (clinical),Genetics

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