Using pseudo amino acid composition to predict protein structural class: Approached by incorporating 400 dipeptide components

Journal of Computational Chemistry - Tập 28 Số 9 - Trang 1463-1466 - 2007
Hao Lin1, Qian‐Zhong Li1
1Laboratory of Theoretical Biophysics, Department of Physics, College of Sciences and Technology, Inner Mongolia University, Hohhot 010021, People’s Republic of China

Tóm tắt

AbstractThe proteins structure can be mainly classified into four classes: all‐α, all‐β, α/β, and α + β protein according to their chain fold topologies. For the purpose of predicting the protein structural class, a new predicting algorithm, in which the increment of diversity combines with Quadratic Discriminant analysis, is presented to study and predict protein structural class. On the basis of the concept of the pseudo amino acid composition (Chou, Proteins: Struct Funct Genet 2001, 43, 246; Erratum: Proteins Struct Funct Genet 2001, 44, 60), 400 dipeptide components and 20 amino acid composition are, respectively, selected as parameters of diversity source. Total of 204 nonhomologous proteins constructed by Chou (Chou, Biochem Biophys Res Commun 1999, 264, 216) are used for training and testing the predictive model. The predicted results by using the pseudo amino acids approach as proposed in this paper can remarkably improve the success rates, and hence the current method may play a complementary role to other existing methods for predicting protein structural classification. © 2007 Wiley Periodicals, Inc. J Comput Chem, 2007

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Thông tin xuất bản

Journal of Computational Chemistry

Tập 28 Số 9

1463-1466

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