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. 2005 Jul 1;33(Web Server issue):W188-92.
doi: 10.1093/nar/gki384.

TMB-Hunt: a web server to screen sequence sets for transmembrane beta-barrel proteins

Andrew G Garrow  1 , Alison Agnew, David R Westhead
Affiliations

TMB-Hunt: a web server to screen sequence sets for transmembrane beta-barrel proteins

Andrew G Garrow et al. Nucleic Acids Res. .

Abstract

TMB-Hunt is a program that uses a modified k-nearest neighbour (k-NN) algorithm to classify protein sequences as transmembrane beta-barrel (TMB) or non-TMB on the basis of whole sequence amino acid composition. By including differentially weighted amino acids, evolutionary information and by calibrating the scoring, a discrimination accuracy of 92.5% was achieved, as tested using a rigorous cross-validation procedure. The TMB-Hunt web server, available at www.bioinformatics.leeds.ac.uk/betaBarrel, allows screening of up to 10,000 sequences in a single query and provides results and key statistics in a simple colour coded format.

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Figures

Figure 1
Figure 1
Images of the TMB-Hunt web server query form and output. Results provide key statistics in a simple-to-understand colour-coded format, with a more detailed output format available. Links are also provided to a number of prescreened genomes.
See this image and copyright information in PMC

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