PXD001855

PXD001855 is an original dataset announced via ProteomeXchange.

Title	Arabidopsis thaliana N-terminal proteome,LC-MS
Description	An extended ChaFRADIC workflow was applied to analyze the N-terminal proteome of Arabidopsis thaliana seedlings. Using iTRAQ protein labeling, a multi-enzyme digestion approach including trypsin, GluC, and subtilisin, a total of 200 μg per enzyme were used, and only 1/3 of each ChaFRADIC-enriched fraction were analyzed by LC-MS. Furthermore, our goal was to gain insights of the Met-excision dogma where initiator Met residues are cleaved posstranslationally if the second residue is small, as well as the N-end rule degradation pathway (NERD) discriminating between stabilizing/destabilizing functions of N-terminal amino acid residues in Arabidopsis. We found bona fide NERD destabilizing residues underrepresented. The list of neo N-termini from wild type samples represents an extremely helpful resource for excluding pseudo-candidates of NERD.
HostingRepository	PRIDE
AnnounceDate	2015-07-21
AnnouncementXML	Submission_2015-07-20_22:38:53.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Fiorella Andrea Solari
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	monohydroxylated residue; iTRAQ8plex-116 reporter+balance reagent acylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-03-02 07:43:44	ID requested
⏵ 1	2015-07-20 22:38:55	announced

Venne AS, Solari FA, Faden F, Paretti T, Dissmeyer N, Zahedi RP, An improved workflow for quantitative N-terminal charge-based fractional diagonal chromatography (ChaFRADIC) to study proteolytic events in Arabidopsis thaliana. Proteomics, 15(14):2458-69(2015) [pubmed]

curator keyword: Biological

submitter keyword: Arabidopsis thaliana, ChaFRADIC, iTRAQ Reagent, enrichment of N-terminal peptide

René Peiman Zahedi
contact affiliation	Leibniz-Institut für Analytische Wissenschaften – ISAS – e.V. Head of the department of Systems Analysis
contact email	rene.zahedi@isas.de
lab head
Fiorella Andrea Solari
contact affiliation	Leibniz-Institut für Analytische Wissenschaften – ISAS – e.V.
contact email	fiorella.solari@isas.de
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/2015/07/PXD001855

PRIDE project URI

• PRIDE
  1. PXD001855
     1. Label: PRIDE project
     2. Name: Arabidopsis thaliana N-terminal proteome,LC-MS