Software

PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites

Florian Gnad , Shubin Ren , Juergen Cox , Jesper V Olsen , Boris Macek , Mario Oroshi and Matthias Mann

Department for Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Am Klopferspitz, D-82152 Martinsried, Germany

author email corresponding author email

Genome Biology 2007, 8:R250doi:10.1186/gb-2007-8-11-r250

Published:	26 November 2007

Subject areas: Biochemistry and structural biology, Bioinformatics, Genome studies

Abstract

PHOSIDA http://www.phosida.com webcite, a phosphorylation site database, integrates thousands of high-confidence in vivo phosphosites identified by mass spectrometry-based proteomics in various species. For each phosphosite, PHOSIDA lists matching kinase motifs, predicted secondary structures, conservation patterns, and its dynamic regulation upon stimulus. Using support vector machines, PHOSIDA also predicts phosphosites.