Protein structural class prediction by combining conditional probability with information content

Protein structural class is the most basic and important classification of protein structures. The prediction technique of protein structural class has been developing for decades. Two popular methods, the amino acid frequency based methods and amino acid arrangement and long-term correlation based methods, were proposed in previous work. However, there are opposite advantages and disadvantages in these methods. The former concentrated on statistical analysis while the latter emphasized long-term and biologically significant research. In this paper, we proposed a new method combining probability and information theory with long-term correlation consideration. The results showed that advantages of both original methods were included in our method and the accuracy is much higher than in the traditional procedures.

[1]  K Nishikawa,et al.  Correlation of the amino acid composition of a protein to its structural and biological characters. , 1982, Journal of biochemistry.

[2]  K Nishikawa,et al.  The folding type of a protein is relevant to the amino acid composition. , 1986, Journal of biochemistry.

[3]  K. Chou,et al.  Prediction of protein secondary structure content. , 1999, Protein engineering.

[4]  G M Maggiora,et al.  Domain structural class prediction. , 1998, Protein engineering.

[5]  K C Chou,et al.  Prediction of protein structural classes and subcellular locations. , 2000, Current protein & peptide science.

[6]  C. Zhang,et al.  Prediction of protein (domain) structural classes based on amino-acid index. , 1999, European journal of biochemistry.

[7]  A G Murzin,et al.  SCOP: a structural classification of proteins database for the investigation of sequences and structures. , 1995, Journal of molecular biology.

[8]  C. Chothia,et al.  Structural patterns in globular proteins , 1976, Nature.

[9]  R. Doolittle,et al.  A simple method for displaying the hydropathic character of a protein. , 1982, Journal of molecular biology.

[10]  K. Chou,et al.  Prediction of protein structural classes. , 1995, Critical reviews in biochemistry and molecular biology.