PXD016723

PXD016723 is an original dataset announced via ProteomeXchange.

Title	In situ identification of S-sulfenylation sites in Arabidopsis thaliana using the genetic YAP1 probe
Description	Hydrogen peroxide (H2O2) reacts, directly or indirectly, with cysteines to form cysteine sulfenic acid, also known as S-sulfenylation. This cysteine oxidation steers diverse cellular processes by altering protein interactions, trafficking, conformation, and function. We present a method to identify S-sulfenylated cysteines sites in proteins using a genetic probe based on the yeast AP-1–like (YAP1) transcription factor that specifically reacts with sulfenic acid sites to form mixed disulfides. After a tryptic digest and with the help of an antibody directed against a 7-amino-acid YAP1C-derived peptide that contains the redox-active cysteine, we enriched for disulfide-linked peptides. The mass spectral characteristics for fragment ions of the mixed disulfides made it possible to identify 1,747 S-sulfenylation protein sites in Arabidopsis under H2O2 stress. Furthermore, cross-study comparison shows that 55% of cross-linked sites match with previously reported S-sulfenylated, S-nitrosylated and reversibly oxidized cysteines in Arabidopsis. These include well-characterized redox-sensitive cysteines, such as Cys20 of DEHYDROASCORBATE REDUCTASE 2 (DHAR2) and Cys181 of MAP KINASE 4 (MAPK4). Altogether, we describe a novel approach to identify S-sulfenylated sites in situ using the YAP1C probe, thereby offering a non-invasive manner to study site-specific cysteine oxidation and which can be applied for identification of S-sulfenylated sites at the organellar level.
HostingRepository	PRIDE
AnnounceDate	2020-12-15
AnnouncementXML	Submission_2020-12-14_23:17:47.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Patrick Willems
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	disulfide crosslinked residues; acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2019-12-12 04:04:25	ID requested
⏵ 1	2020-12-14 23:17:48	announced

Wei B, Willems P, Huang J, Tian C, Yang J, Messens J, Van Breusegem F, Proteins Using a Disulfide-Linked Peptide Reporter. Front Plant Sci, 11():777(2020) [pubmed]

submitter keyword: YAP1C, S-sulfenylation, Arabidopsis thaliana, cysteine oxidation, post-translational modification, redox, disulfide, cross-link

Frank Van Breusegem
contact affiliation	Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium VIB-Center for Plant Systems Biology, Gent, Belgium
contact email	frbre@psb.ugent.be
lab head
Patrick Willems
contact affiliation	PSB-VIB
contact email	pawil@psb.ugent.be
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD016723
     1. Label: PRIDE project
     2. Name: In situ identification of S-sulfenylation sites in Arabidopsis thaliana using the genetic YAP1 probe