PXD000417

PXD000417 is an original dataset announced via ProteomeXchange.

Title	Arabidopsis cell LC-MSMS - Proteomics analysis reveals a highly heterogeneous proteasome composition and the post-translational regulation of peptidase activity under pathogen signaling in plants
Description	26S proteasome was affinity-purified with anti-FLAG beads and separated by 2-DE method. Each spot was cut and digested by Trypsin enzyme, which finaly applied for LC-MS/MS nalysis using a LTQ-Orbitrap XL (Thermo Scientific). The obtained spectra were compared against 35,386 sequences in The Arabidopsis Information Resource 10 (TAIR10; http://www.arabidopsis.org/) using the MASCOT server (version 2.4; Matrix Science) with the following search parameters: threshold set-off at 0.05 in the ion-score cut-off; protein identification cut-off set to two assigned spectra per predicted protein; peptide tolerance at 10 ppm; MS/MS tolerance at +/- 0.5 Da; peptide charge of 2+ or 3+; trypsin as the enzyme and allowing up to one missed cleavage; carboxymethylation on cysteines as a fixed modification and oxidation on methionine as a variable modification.
HostingRepository	PRIDE
AnnounceDate	2024-10-07
AnnouncementXML	Submission_2024-10-07_09:03:38.310.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD000417
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Takeo Sato
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2013-08-15 02:36:30	ID requested
1	2013-09-06 04:09:14	announced
1	2014-07-28 00:44:40	announced
2	2013-09-06 05:34:49	announced	Add reference
2	2017-08-01 03:43:05	announced	Updated project metadata.
⏵ 3	2024-10-07 09:03:39	announced	2024-10-07: Updated project metadata.

Sun HH, Fukao Y, Ishida S, Yamamoto H, Maekawa S, Fujiwara M, Sato T, Yamaguchi J, Proteomics analysis reveals a highly heterogeneous proteasome composition and the post-translational regulation of peptidase activity under pathogen signaling in plants. J Proteome Res, 12(11):5084-95(2013) [pubmed]

10.6019/PXD000417;

10.1021/pr400630w;

submitter keyword: 26SP

Takeo Sato
contact affiliation	Faculty of Science
contact email	t-satou@sci.hokudai.ac.jp
lab head
Takeo Sato
contact affiliation	Faculty of Science
contact email	t-satou@sci.hokudai.ac.jp
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/2014/07/PXD000417

PRIDE project URI

• PRIDE
  1. PXD000417
     1. Label: PRIDE project
     2. Name: Arabidopsis cell LC-MSMS - Proteomics analysis reveals a highly heterogeneous proteasome composition and the post-translational regulation of peptidase activity under pathogen signaling in plants