Chaos game representation of protein sequences based on the detailed HP model and their multifractal and correlation analyses.
Similar to the chaos game representation (CGR) of DNA sequences proposed by Jeffrey (Nucleic Acid Res. 18 (1990) 2163), a new CGR of protein sequences based on the detailed HP model is proposed. Multifractal and correlation analyses of the measures based on the CGR of protein sequences from complete genomes are performed. The Dq spectra of all organisms studied are multifractal-like and sufficiently smooth for the Cq curves to be meaningful. The Cq curves of bacteria resemble a classical phase transition at a critical point. The correlation distance of the difference between the measure based on the CGR of protein sequences and its fractal background is also proposed to construct a more precise phylogenetic tree of bacteria.
Yu
Zu-Guo
ZG
Program in Statistics and Operations Research, Queensland University of Technology, G.P.O. Box 2434, QLD 4001, Brisbane, Australia
Anh
Vo
V
Lau
Ka-Sing
KS
D001426:Bacterial Proteins / Q000737:chemistry*; D020635:Buchnera / Q000737:chemistry; D017709:Fractals; D008956:Models, Chemical; D017711:Nonlinear Dynamics; D010802:Phylogeny; D011487:Protein Conformation
D001426:Bacterial Proteins