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Projections for fast protein structure retrieval

Bhattacharya, Sourangshu and Bhattacharyya, Chiranjib and Chandra, Nagasuma R (2006) Projections for fast protein structure retrieval. In: BMC Bioinformatics, 7 . S5.

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Abstract

Background: In recent times, there has been an exponential rise in the number of protein structures in databases e. g. PDB. So, design of fast algorithms capable of querying such databases is becoming an increasingly important research issue. This paper reports an algorithm, motivated from spectral graph matching techniques, for retrieving protein structures similar to a query structure from a large protein structure database. Each protein structure is specified by the 3D coordinates of residues of the protein. The algorithm is based on a novel characterization of the residues, called projections, leading to a similarity measure between the residues of the two proteins. This measure is exploited to efficiently compute the optimal equivalences.

Item Type: Journal Article
Additional Information: Copyright of This article belongs to Biomed Central Ltd.
Keywords: Circular Permutations;Structure Alignment;Secquences
Department/Centre: Division of Information Sciences > BioInformatics Centre
Division of Electrical Sciences > Computer Science & Automation (Formerly, School of Automation)
Date Deposited: 16 Jan 2008
Last Modified: 19 Sep 2010 04:38
URI: http://eprints.iisc.ernet.in/id/eprint/11157

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