Improved Chou-Fasman method for protein secondary structure prediction

Background: Protein secondary structure prediction is a fundamental and important component in the analytical study of protein structure and functions. The prediction technique has been developed for several decades. The Chou-Fasman algorithm, one of the earliest methods, has been successfully applied to the prediction. However, this method has its limitations due to low accuracy, unreliable parameters, and over prediction. Thanks to the recent development in protein folding type-specific structure propensities and wavelet transformation, the shortcomings in Chou-Fasman method are able to be overcome. Results: We improved Chou-Fasman method in three aspects. (a) Replace the nucleation regions with extreme values of coefficients calculated by the continuous wavelet transform. (b) Substitute the original secondary structure conformational parameters with folding type-specific secondary structure propensities. (c) Modify Chou-Fasman rules. The CB396 data set was tested by using improved ...

• Type: Journal
• Year: 2006
• Where: BMCBI
• Authors: Hang Chen, Fei Gu, Zhengge Huang
• Keywords: BMCBI 2006, Chou-Fasman Method, Protein Secondary Structure, Secondary Structure