PXD000417 is an
original dataset announced via ProteomeXchange.
Dataset Summary
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 |
Dataset History
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. |
Publication List
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; |
Keyword List
Contact List
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 | |
Full Dataset Link List
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 |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD000417
- Label: PRIDE project
- 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