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Bioinformatics. 2008 Feb 1;24(3):426-7. doi: 10.1093/bioinformatics/btm622. Epub 2008 Jan 2.

A note on difficult structure alignment problems.

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  • 1Center of Applied Molecular Engineering, Division of Bioinformatics, Department of Molecular Biology, University of Salzburg, Hellbrunnerstr. 34, 5020 Salzburg, Austria.


Progress in structural biology depends on several key technologies. In particular tools for alignment and superposition of protein structures are indispensable. Here we describe the use of the TopMatch web service, an effective computational tool for protein structure alignment, for the visualization of structural similarities, and for highlighting relationships found in protein classifications. We provide several instructive examples.


TopMatch is available as a public web service at

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