Effective detection of remote homologues by searching in sequence dataset of a protein domain fold

Sandhya, S and Kishore, S and Sowdhamini, R and Srinivasan, N (2003) Effective detection of remote homologues by searching in sequence dataset of a protein domain fold. In: FEBS Letters, 552 (2-3). pp. 225-230.

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Abstract

Profile matching methods are commonly used in searches in protein sequence databases to detect evolutionary relationships. We describe here a sensitive protocol, which detects remote similarities by searching in a specialized database of sequences belonging to a fold. We have assessed this protocol by exploring the relationships we detect among sequences known to belong to specific folds. We find that searches within sequences adopting a fold are more effective in detecting remote similarities and evolutionary connections than searches in a database of all sequences. We also discuss the implications of using this strategy to link sequence and structure space.

Item Type:	Journal Article
Publication:	FEBS Letters
Publisher:	Elsevier
Additional Information:	The Copyright belongs to Elsevier.
Keywords:	Evolution;Profile-based method;Remote homology;Superfamily
Department/Centre:	Division of Biological Sciences > Molecular Biophysics Unit
Date Deposited:	09 May 2006
Last Modified:	19 Sep 2010 04:26
URI:	http://eprints.iisc.ac.in/id/eprint/6650

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