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Bioinformatics Advance Access originally published online on October 4, 2006
Bioinformatics 2006 22(23):2948-2949; doi:10.1093/bioinformatics/btl504
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

FoldUnfold: web server for the prediction of disordered regions in protein chain

Oxana V. Galzitskaya *, Sergiy O. Garbuzynskiy and Michail Yu. Lobanov

Institute of Protein Research, Russian Academy of Sciences 142290, Pushchino, Moscow Region, Russia

*To whom correspondence should be addressed.

Summary: Identification of disordered regions in polypeptide chains is very important because such regions are essential for protein function. A new parameter, namely mean packing density of residues has been introduced to detect disordered regions in a protein sequence. We have demonstrated that regions with weak expected packing density would be responsible for the appearance of disordered regions. Our method (FoldUnfold) has been tested on datasets of globular proteins (559 proteins) and long disordered protein segments (129 proteins) and showed improved performance over some other widely used methods, such as DISOPRED, PONDR VL3H, IUPred and GlobPlot.

Availability: The FoldUnfold server is available for users at http://skuld.protres.ru/~mlobanov/ogu/ogu.cgi. There is a link to our server through the web site of DisProt (http://www.disprot.org/predictors.php).

Contact: ogalzit{at}vega.protres.ru

Received on July 12, 2006; revised on August 29, 2006; accepted on September 22, 2006

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