Journal
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
Volume 55, Issue 2, Pages 464-473Publisher
WILEY
DOI: 10.1002/prot.20044
Keywords
threading; genome-scale protein structure; prediction; fold distribution; protein function prediction
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The genome scale threading of five complete microbial genomes is revisited using our state-of-the-art threading algorithm, PROSPEC-TOR_Q. Considering that structure assignment to an ORF could be useful for predicting biochemical function as well as for analyzing pathways, it is important to assess the current status of genome scale threading. The fraction of ORFs to which we could assign protein structures with a reasonably good confidence level to each genome sequences is over 72%, which is significantly higher than earlier studies. Using the assigned structures, we have predicted the function of several ORFs through single-function template structures, obtained from an analysis of the relationship between protein fold and function. The fold distribution of the genomes and the effect of the number of homologous sequences on structure assignment are also discussed. (C)2004WRey-Liss, Inc.
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