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

@article{citeulike:2796492, 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. 10.1093/nar/gkn279}, author = {Saunders, Neil F. and Kobe, Bostjan }, citeulike-article-id = {2796492}, doi = {10.1093/nar/gkn279}, journal = {Nucl. Acids Res.}, keywords = {bioinformatics, kinase, peptide, prediction, predikin, specificity, webserver}, month = {May}, pages = {gkn279+}, posted-at = {2008-05-14 03:57:42}, priority = {2}, title = {The Predikin webserver: improved prediction of protein kinase peptide specificity using structural information}, url = {http://dx.doi.org/10.1093/nar/gkn279}, year = {2008} }

TY - JOUR ID - citeulike:2796492 L3 - citeulike-article-id:2796492 TI - The Predikin webserver: improved prediction of protein kinase peptide specificity using structural information JF - Nucl. Acids Res. SP - gkn279 N2 - 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. 10.1093/nar/gkn279 KW - bioinformatics KW - kinase KW - peptide KW - prediction KW - predikin KW - specificity KW - webserver AU - Saunders, Neil AU - Kobe, Bostjan PY - 2008/05/13/ UR - http://dx.doi.org/10.1093/nar/gkn279 ER -