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Human proteins that interact with RNA/DNA hybrids.

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.

SUBMITTER: Wang IX

PROVIDER: S-EPMC6120628 | biostudies-literature | 2018 Sep

REPOSITORIES: biostudies-literature

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Human proteins that interact with RNA/DNA hybrids.

Wang Isabel X IX Grunseich Christopher C Fox Jennifer J Burdick Joshua J Zhu Zhengwei Z Ravazian Niema N Hafner Markus M Cheung Vivian G VG

Genome research 20180814 9

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, ...[more]

PMID: 30108179

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