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Fold recognition via a tree.

Authors
  • Chen, Yu
  • Crippen, Gordon M
Type
Published Article
Journal
Journal of computational biology : a journal of computational molecular cell biology
Publication Date
Nov 01, 2006
Volume
13
Issue
9
Pages
1565–1573
Identifiers
PMID: 17147479
Source
Medline
License
Unknown

Abstract

Recently, we developed a pairwise structural alignment algorithm using realistic structural and environmental information (SAUCE). In this paper, we at first present an automatic fold hierarchical classification based on SAUCE alignments. This classification enables us to build a fold tree containing different levels of multiple structural profiles. Then a tree-based fold search algorithm is described. We applied this method to a group of structures with sequence identity less than 35% and did a series of leave one out tests. These tests are approximately comparable to fold recognition tests on superfamily level. Results show that fold recognition via a fold tree can be faster and better at detecting distant homologues than classic fold recognition methods.

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