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Bioinformatics Advance Access published online on January 28, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn040
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© The Author (2008). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

On Distance and Similarity in Fold Space

Manfred J. Sippl

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

To whom correspondence should be addressed. Prof. Manfred J. Sippl, E-mail: sippl{at}sbg.ac.at


  Abstract

Summary: Metric information on similarities and distances in fold space is essential for quantitative work in structural bioinformatics and structural biology. Here we derive a suitable metric for protein structures from the fundamental axioms of similarity. Derivation of the metric also clarifies the relationship between the interrelated concepts of distance and similarity.

Contact: sippl{at}came.sbg.ac.at

Associate Editor: Prof. Annn Tramontano

Received on December 24, 2007; revised on January 14, 2008; accepted on January 24, 2008

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