A novel method to compare protein structures using local descriptors.

ABSTRACT:

Background

Protein structure comparison is one of the most widely performed tasks in bioinformatics. However, currently used methods have problems with the so-called "difficult similarities", including considerable shifts and distortions of structure, sequential swaps and circular permutations. There is a demand for efficient and automated systems capable of overcoming these difficulties, which may lead to the discovery of previously unknown structural relationships.

Results

We present a novel method for protein structure comparison based on the formalism of local descriptors of protein structure - DEscriptor Defined Alignment (DEDAL). Local similarities identified by pairs of similar descriptors are extended into global structural alignments. We demonstrate the method's cap

SUBMITTER: Daniluk P 

PROVIDER: S-EPMC3179968 | biostudies-literature | 2011 Aug

REPOSITORIES: biostudies-literature