Figure 6.

Correlation between the affinity (dG) of artificial poly-codons and the propensity for the coded amino acid pairs. The affinities of artificial poly-codons for each other (64 × 64 = 4096 dG) were determined. Synonymous codons were combined and added to 20 × 20 = 400 subgroups corresponding to the possible pairs formed by the respective coded amino acids. Frequency of calculated amino acid (AA)-pairs= sqrt [(# of synonymous codon of amino acid A)x(# of synonymous codon of amino acid B)]. Frequencies of real AA-pairs were calculated from the real propensity towards amino acids in the proteins examined using the equation = sqrt [(propensity of amino acid A)x(propensity of amino acid B)]. Frequencies of co-locating AA-pairs were measured from crystallographic structures using the SeqX tool. Two linear correlation coefficients were calculated, one excluding and the other () including dG = 0 values.