TMB-Hunt: a web server to screen sequence sets for transmembrane beta-barrel proteins.
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.
Garrow
Andrew G
AG
School of Biochemistry and Microbiology, University of Leeds, Leeds LS2 9JT, UK.
Agnew
Alison
A
Westhead
David R
DR
D000465:Algorithms; D019143:Evolution, Molecular; D020407:Internet; D008565:Membrane Proteins / Q000737:chemistry* / Q000145:classification; D017433:Protein Structure, Secondary; D020539:Sequence Analysis, Protein / Q000379:methods*; D012984:Software
D008565:Membrane Proteins