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ALMOB
2008

Protein sequence and structure alignments within one framework

13 years 3 months ago
Protein sequence and structure alignments within one framework
Background: Protein structure alignments are usually based on very different techniques to sequence alignments. We propose a method which treats sequence, structure and even combined sequence + structure in a single framework. Using a probabilistic approach, we calculate a similarity measure which can be applied to fragments containing only protein sequence, structure or both simultaneously. Results: Proof-of-concept results are given for the different problems. For sequence alignments, the methodology is no better than conventional methods. For structure alignments, the techniques are very fast, reliable and tolerant of a range of alignment parameters. Combined sequence and structure alignments may provide a more reliable alignment for pairs of proteins where pure structural alignments can be misled by repetitive elements or apparent symmetries. Conclusion: The probabilistic framework has an elegance in principle, merging sequence and structure descriptors into a single framework. It...
Gundolf Schenk, Thomas Margraf, Andrew E. Torda
Added 08 Dec 2010
Updated 08 Dec 2010
Type Journal
Year 2008
Where ALMOB
Authors Gundolf Schenk, Thomas Margraf, Andrew E. Torda
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