GPS 5.0:An Update on the Prediction of Kinase-specific Phosphorylation Sites in Proteins
- Author:
Wang CHENWEI
1
;
Xu HAODONG
;
Lin SHAOFENG
;
Deng WANKUN
;
Zhou JIAQI
;
Zhang YING
;
Shi YING
;
Peng DI
;
Xue YU
Author Information
1. Key Laboratory of Molecular Biophysics of Ministry of Education
- Keywords:
Protein phosphorylation;
Protein kinase;
Group-based PredictionSystem;
Kinase-specificphosphorylation site;
Dual-specificity kinase
- From:
Genomics, Proteomics & Bioinformatics
2020;18(1):72-80
- CountryChina
- Language:Chinese
-
Abstract:
In eukaryotes, protein phosphorylation is specifically catalyzed by numerous protein kinases (PKs), faithfully orchestrates various biological processes, and reversibly determines cellular dynamics and plasticity. Here we report an updated algorithm of Group-based Prediction System (GPS) 5.0 to improve the performance for predicting kinase-specific phosphorylation sites (p-sites). Two novel methods, position weight determination (PWD) and scoring matrix optimiza-tion (SMO), were developed. Compared with other existing tools, GPS 5.0 exhibits a highly com-petitive accuracy. Besides serine/threonine or tyrosine kinases, GPS 5.0 also supports the prediction of dual-specificity kinase-specific p-sites. In the classical module of GPS 5.0, 617 individual predic-tors were constructed for predicting p-sites of 479 human PKs. To extend the application of GPS 5.0, a species-specific module was implemented to predict kinase-specific p-sites for 44,795 PKs in 161 eukaryotes. The online service and local packages of GPS 5.0 are freely available for academic research at http://gps.biocuckoo.cn.
