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Nucleic Acids Research, 2003, Vol. 31, No. 13 3359-3363
© 2003 Oxford University Press

Servers for sequence–structure relationship analysis and prediction

Zsuzsanna Dosztányi, Csaba Magyar, Gábor E. Tusnády, Miklós Cserzo1, András Fiser2 and István Simon*

Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, H-1518 Budapest, PO Box 7, Hungary 1 Bioinformatics Group, Agricultural Biotechnology Center, Gödöllo, Szent-Györgyi A. út 4., H-2100 Hungary 2 Department of Biochemistry and Seaver Foundation Center for Bioinformatics, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, NY 10461, USA

*To whom correspondence should be addressed. Tel: +36 14669276; Fax: +36 14665465; Email: simon{at}enzim.hu

We describe several algorithms and public servers that were developed to analyze and predict various features of protein structures. These servers provide information about the covalent state of cysteine (CYSREDOX), as well as about residues involved in non-covalent cross links that play an important role in the structural stability of proteins (SCIDE and SCPRED). We also discuss methods and servers developed to identify helical transmembrane proteins from large databases and rough genomic data, including two of the most popular transmembrane prediction methods, DAS and HMMTOP. Several biologically interesting applications of these servers are also presented. The servers are available through http://www.enzim.hu/servers.html.


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