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Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W286-90. doi: 10.1093/nar/gkn279. Epub 2008 May 13.

The Predikin webserver: improved prediction of protein kinase peptide specificity using structural information.

Author information

1
School of Molecular and Microbial Sciences, University of Queensland, Brisbane 4072, Australia. n.saunders@uq.edu.au

Abstract

The Predikin webserver allows users to predict substrates of protein kinases. The Predikin system is built from three components: a database of protein kinase substrates that links phosphorylation sites with specific protein kinase sequences; a perl module to analyse query protein kinases and a web interface through which users can submit protein kinases for analysis. The Predikin perl module provides methods to (i) locate protein kinase catalytic domains in a sequence, (ii) classify them by type or family, (iii) identify substrate-determining residues, (iv) generate weighted scoring matrices using three different methods, (v) extract putative phosphorylation sites in query substrate sequences and (vi) score phosphorylation sites for a given kinase, using optional filters. The web interface provides user-friendly access to each of these functions and allows users to obtain rapidly a set of predictions that they can export for further analysis. The server is available at http://predikin.biosci.uq.edu.au.

PMID:
18477637
PMCID:
PMC2447752
DOI:
10.1093/nar/gkn279
[Indexed for MEDLINE]
Free PMC Article

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