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Structure and functional implications of WYL domain-containing bacterial DNA damage response regulator PafBC

Andreas U. Müller, Marc Leibundgut, Nenad Ban and Eilika Weber-Ban ()
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Andreas U. Müller: Institute of Molecular Biology and Biophysics
Marc Leibundgut: Institute of Molecular Biology and Biophysics
Nenad Ban: Institute of Molecular Biology and Biophysics
Eilika Weber-Ban: Institute of Molecular Biology and Biophysics

Nature Communications, 2019, vol. 10, issue 1, 1-14

Abstract: Abstract In mycobacteria, transcriptional activator PafBC is responsible for upregulating the majority of genes induced by DNA damage. Understanding the mechanism of PafBC activation is impeded by a lack of structural information on this transcription factor that contains a widespread, but poorly understood WYL domain frequently encountered in bacterial transcription factors. Here, we determine the crystal structure of Arthrobacter aurescens PafBC. The protein consists of two modules, each harboring an N-terminal helix-turn-helix DNA-binding domain followed by a central WYL and a C-terminal extension (WCX) domain. The WYL domains exhibit Sm-folds, while the WCX domains adopt ferredoxin-like folds, both characteristic for RNA-binding proteins. Our results suggest a mechanism of regulation in which WYL domain-containing transcription factors may be activated by binding RNA or other nucleic acid molecules. Using an in vivo mutational screen in Mycobacterium smegmatis, we identify potential co-activator binding sites on PafBC.

Date: 2019
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DOI: 10.1038/s41467-019-12567-x

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