PXD000979

PXD000979 is an original dataset announced via ProteomeXchange.

Title	K63 polyubiquitination is a new modulator of the oxidative stress response, SRM data
Description	Ubiquitination is a post-translational modification that signals multiple processes, including protein degradation, trafficking and DNA repair. Polyubiquitin accumulates globally during the oxidative stress response, and this has been mainly attributed to increased ubiquitin conjugation and perturbations in protein degradation. Here we show that the unconventional Lys 63 (K63)-linked polyubiquitin accumulates in the yeast Saccharomyces cerevisiae in a highly sensitive and regulated manner as a result of exposure to peroxides. We demonstrate that hydrogen peroxide inhibits the deubiquitinating enzyme Ubp2, leading to accumulation of K63 conjugates assembled by the Rad6 ubiquitin conjugase and the Bre1 ubiquitin ligase. Using linkage-specific isolation methods and stable isotope labeling by amino acids in cell culture (SILAC)–based quantitative proteomics, we identified >100 new K63-polyubiquitinated targets, which were substantially enriched in ribosomal proteins. Finally, we demonstrate that impairment of K63 ubiquitination during oxidative stress affects polysome stability and protein expression, rendering cells more sensitive to stress, and thereby reveal a new redox-regulatory role for this modification.
HostingRepository	PRIDE
AnnounceDate	2015-01-26
AnnouncementXML	Submission_2015-01-27_02:35:58.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Gustavo Silva
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	ubiquitination signature dipeptidyl lysine
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2014-05-15 08:44:45	ID requested
1	2015-01-26 02:18:17	announced
⏵ 2	2015-01-27 02:35:59	announced	Updated publication reference for PubMed record(s): 25622294.

Silva GM, Finley D, Vogel C, K63 polyubiquitination is a new modulator of the oxidative stress response. Nat Struct Mol Biol, 22(2):116-23(2015) [pubmed]

curator keyword: Biological

submitter keyword: Yeast, LC-MS/MS, Q-Exactive, SILAC

Christine Vogel
contact affiliation	Department of Biology - New York University Center for Genomics and Systems Biology New York, NY , USA
contact email	cvogel@nyu.edu
lab head
Gustavo Silva
contact affiliation	New York University
contact email	gu_msilva@yahoo.com.br
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD000979
     1. Label: PRIDE project
     2. Name: K63 polyubiquitination is a new modulator of the oxidative stress response, SRM data