Abstract: Membrane protein is a sort of protein with important biological functions. ho predict if the protein belong to B-barrel transmembrane protein according to sequence is the important precursor step for predicting 3D structure of 208B-barrel transmembrane protein,also is a challenging job in computational protein field. This paper introduced the feature extraction of 208B-barrel transmembrane protein sequences and prediction by SVM. The features consist of the position information in sequence, the physical and chemical properties of amino acid residues. And the results show that the accuracy and MCC of the method are 88.36% and 0.7723 respectively.

Key words: Transmembrane protein, Support vector machine, B-barrels