PMID: 9552161Apr 29, 1998Paper

Prediction and classification of domain structural classes

Proteins
K C ChouC T Zhang

Abstract

Can the coupling effect among different amino acid components be used to improve the prediction of protein structural classes? The answer is yes according to the study by Chou and Zhang (Crit. Rev. Biochem. Mol. Biol. 30:275-349, 1995), but a completely opposite conclusion was drawn by Eisenhaber et al. when using a different dataset constructed by themselves (Proteins 25:169-179, 1996). To resolve such a perplexing problem, predictions were performed by various approaches for the datasets from an objective database, the SCOP database (Murzin, Brenner, Hubbard, and Chothia. J. Mol. Biol. 247:536-540, 1995). According to SCOP, the classification of structural classes for protein domains is based on the evolutionary relationship and on the principles that govern the 3D structure of proteins, and hence is more natural and reliable. The results from both resubstitution tests and jackknife tests indicate that the overall rates of correct prediction by the algorithm incorporated with the coupling effect among different amino acid components are significantly higher than those by the algorithms without using such an effect. It is elucidated through an analysis that the main reasons for Eisenhaber et al. to have reached an opposite con...Continue Reading

Citations

Jun 23, 2012·PloS One·Xia-Yu XiaXian-Ming Pan
Jan 11, 2013·Nucleic Acids Research·Wei ChenKuo-Chen Chou
Apr 28, 2006·Journal of Cellular Biochemistry·Kuo-Chen Chou, Hong-Bin Shen
Aug 12, 1999·Journal of Chemical Information and Computer Sciences·G A Arteca, O Tapia
Nov 14, 1998·Biochemical and Biophysical Research Communications·K C Chou, D W Elrod
May 17, 2001·Proteins·G P Zhou, N Assa-Munt

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