Journal
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
Volume 53, Issue -, Pages 480-485Publisher
WILEY
DOI: 10.1002/prot.10542
Keywords
protein structure prediction; folding; simulation; novel folds; fold recognition
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Funding
- Biotechnology and Biological Sciences Research Council [BEP17014] Funding Source: Medline
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The results of applying a fragment-based protein tertiary structure prediction method to the prediction of 14 CASP5 target domains are described. The method is based on the assembly of supersecondary structural fragments taken from highly resolved protein structures using a simulated annealing algorithm. A number of good predictions for proteins with novel folds were produced, although not always as the first model. For two fold recognition targets, FRAGFOLD produced the most accurate model in both cases, despite the fact that the predictions were not based on a template structure. Although clear progress has been made in improving FRAGFOLD since CASP4, the ranking of final models still seems to be the main problem that needs to be addressed before the next CASP experiment. (C) 2003 Wiley-Liss, Inc.
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