Title :
Predicting protein secondary structure using continuous wavelet transform and Chou-Fasman method
Author :
Chen, Hang ; Gu, Fei ; Liu, Feng
Author_Institution :
Dept. of Biotechnol., Zhejiang Univ., Hangzhou
Abstract :
Secondary structure of a protein can be predicted efficiently by combining continuous wavelet transform (CWT) and Chou-Fasman method. We selected a protein with ID 1gca from PDB database, and substitute every amino acid of the protein with corresponding hydrophobic value. Then CWT was used to get the nucleated residues of certain type of secondary structure. The regions were extended along the protein sequence in each direction based on Chou-Fasman rules. The prediction accuracy for alpha-helix, beta-sheet (regular secondary structures), loop (irregular secondary structure) is 80.57%, 75.41%, and 92.31%, respectively
Keywords :
molecular biophysics; molecular configurations; proteins; wavelet transforms; Chou-Fasman method; alpha-helix; amino acid; beta-sheet; continuous wavelet transform; irregular secondary structure; loop; nucleated residues; protein secondary structure; protein sequence; regular secondary structures; Accuracy; Amino acids; Continuous wavelet transforms; Frequency; Hidden Markov models; Predictive models; Proteins; Sequences; Signal processing algorithms; Wavelet transforms;
Conference_Titel :
Engineering in Medicine and Biology Society, 2005. IEEE-EMBS 2005. 27th Annual International Conference of the
Conference_Location :
Shanghai
Print_ISBN :
0-7803-8741-4
DOI :
10.1109/IEMBS.2005.1617002
