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Bioinformatics Advance Access originally published online on January 28, 2008
Bioinformatics 2008 24(6):872-873; 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.


  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: Anna Tramontano

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

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