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Proc Natl Acad Sci U S A. 2002 Aug 20;99(17):11157-62. Epub 2002 Aug 12.

Toward predicting protein topology: an approach to identifying beta hairpins.

Author information

1
Institut Català per la Recerca i Estudis Avançats (ICREA), Passeig Lluis Companys, 23, 08018 Barcelona, Spain. xavier@husky.bq.ub.es

Abstract

Although secondary structure prediction methods have recently improved, progress from secondary to tertiary structure prediction has been limited. A promising but largely unexplored route to this goal is to predict structure motifs from secondary structure knowledge. Here we present a novel method for the recognition of beta hairpins that combines secondary structure predictions and threading methods by using a database search and a neural network approach. The method successfully predicts 48 and 77%, respectively, of all of hairpin and nonhairpin beta-coil-beta motifs in a protein database. We find that the main contributors to motif recognition are predicted accessibility and turn propensities.

PMID:
12177429
PMCID:
PMC123226
DOI:
10.1073/pnas.162376199
[Indexed for MEDLINE]
Free PMC Article

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