Journal d'informatique et de biologie des systèmes

Secondary Structural Analysis of Families of Protein Sequences using Chaos Game Representation

Abstract

K. Manikandakumar, K. Gokul Raj, S. Muthukumaran and R. Srikumar

We describe a novel way of applying Chaos Game Representation (CGR) method to protein sequences of different families by considering the amino acids into three secondary structure groups of residues. The present study to identify the patterns of the secondary structure of family of protein sequences for different ratios and to analyze to apply CGR method to protein structures, so as to find out any intrinsic self-similar pattern exhibited in the CGR plot. Further, we find that the sequences of different protein families belonging to all the four major structural classes namely, all α, all β, α plus β and α by β produce a similar kind of self-similar fractal structure. In a broader sense, is there any way to obtain a single graphical representation depicting any intrinsic self-similar pattern exhibited by the different protein families?