PXD002297-1

PXD002297 is an original dataset announced via ProteomeXchange.

Title	Large scale site-specific mapping of the Arabidopsis ubiquitinome
Description	Post-translational modification of amino acids changes the properties of a protein and increases the functional diversity of the proteome. For example, protein ubiquitination influences almost all cellular processes and can remodel the proteome in a matter of minutes. However, mostly due to technical limitations, global profiling of the plant ubiquitinome and proteome-wide identification of specific ubiquitinated residues remains challenging. Here, we made use of the COFRADIC technology to map ubiquitination sites in Arabidopsis thaliana. Across two biological replicates, we identified a total of 3,009 ubiquitination sites in 1,607 proteins. Our data increases the number of reported ubiquitin conjugation sites in Arabidopsis by a factor of 10. It contains well-known ubiquitination targets, including cell cycle proteins and key transcriptional regulators of phytohormone signaling as well as yet unreported targets, such as the Glutaredoxin S17 for which we provide here evidence of proteasomal degradation Finally, we could detect N-terminal ubiquitin conjugation on 19 proteins, a less commonly described type of protein modification.
HostingRepository	PRIDE
AnnounceDate	2016-08-08
AnnouncementXML	Submission_2016-08-08_08:43:13.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Alan Walton
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	ubiquitinylated lysine
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-06-03 01:43:50	ID requested
⏵ 1	2016-08-08 08:43:14	announced
2	2024-10-22 04:24:38	announced	2024-10-22: Updated project metadata.

Walton A, Stes E, Cybulski N, Van Bel M, I, ñ, igo S, Durand AN, Timmerman E, Heyman J, Pauwels L, De Veylder L, Goossens A, De Smet I, Coppens F, Goormachtig S, Gevaert K, It's Time for Some "Site"-Seeing: Novel Tools to Monitor the Ubiquitin Landscape in Arabidopsis thaliana. Plant Cell, 28(1):6-16(2016) [pubmed]

curator keyword: Biological

submitter keyword: Arabidopsis ubiquitin site

Kris Gevaert
contact affiliation	VIB-UGent
contact email	kris.gevaert@ugent.be
lab head
Alan Walton
contact affiliation	VIB
contact email	alwal@psb.vib-ugent.be
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2016/08/PXD002297

PRIDE project URI

• PRIDE
  1. PXD002297
     1. Label: PRIDE project
     2. Name: Large scale site-specific mapping of the Arabidopsis ubiquitinome