Development of New Computational Amino Acid Parameters for Protein Structure/function Analysis within the Resonant Recognition Model

The Resonant Recognition Model (RRM) is a physico-mathematical model developed for analysis of protein and DNA sequences. Biological function of proteins and their 3D structures are determined by the linear sequences of amino acids. Previously, the electronion interaction potentials (EIIP) of amino acids have been used to determine the characteristic patterns of different proteins independent of their biological activity. In this study, the effect of various other amino acid parameters on periodicity, obtained using the RRM, were assessed. Here, we are proposing new computational amino acid parameters that could be used successfully for protein analysis instead of EIIP within the RRM.