Journal: Elife / Year: 2017 Title: The RNF168 paralog RNF169 defines a new class of ubiquitylated histone reader involved in the response to DNA damage. Authors: Julianne Kitevski-LeBlanc / Amélie Fradet-Turcotte / Predrag Kukic / Marcus D Wilson / Guillem Portella / Tairan Yuwen / Stephanie Panier / Shili Duan / Marella D Canny / Hugo van Ingen / ...Authors: Julianne Kitevski-LeBlanc / Amélie Fradet-Turcotte / Predrag Kukic / Marcus D Wilson / Guillem Portella / Tairan Yuwen / Stephanie Panier / Shili Duan / Marella D Canny / Hugo van Ingen / Cheryl H Arrowsmith / John L Rubinstein / Michele Vendruscolo / Daniel Durocher / Lewis E Kay / Abstract: Site-specific histone ubiquitylation plays a central role in orchestrating the response to DNA double-strand breaks (DSBs). DSBs elicit a cascade of events controlled by the ubiquitin ligase RNF168, ...Site-specific histone ubiquitylation plays a central role in orchestrating the response to DNA double-strand breaks (DSBs). DSBs elicit a cascade of events controlled by the ubiquitin ligase RNF168, which promotes the accumulation of repair factors such as 53BP1 and BRCA1 on the chromatin flanking the break site. RNF168 also promotes its own accumulation, and that of its paralog RNF169, but how they recognize ubiquitylated chromatin is unknown. Using methyl-TROSY solution NMR spectroscopy and molecular dynamics simulations, we present an atomic resolution model of human RNF169 binding to a ubiquitylated nucleosome, and validate it by electron cryomicroscopy. We establish that RNF169 binds to ubiquitylated H2A-Lys13/Lys15 in a manner that involves its canonical ubiquitin-binding helix and a pair of arginine-rich motifs that interact with the nucleosome acidic patch. This three-pronged interaction mechanism is distinct from that by which 53BP1 binds to ubiquitylated H2A-Lys15 highlighting the diversity in site-specific recognition of ubiquitylated nucleosomes.
History
Deposition
Apr 17, 2017
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Header (metadata) release
May 3, 2017
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Map release
May 3, 2017
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Update
Jul 12, 2017
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Current status
Jul 12, 2017
Processing site: PDBe / Status: Released
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Structure visualization
Movie
Surface view with section colored by density value
Cryogen name: ETHANE-PROPANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK III
Details
NCP-ub
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Electron microscopy
Microscope
FEI TECNAI F20
Image recording
Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Number grids imaged: 1 / Number real images: 175 / Average exposure time: 15.0 sec. / Average electron dose: 36.0 e/Å2
Electron beam
Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN
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