Structure and dynamics of the 'protein folding code' inferred using Tlusty's topological rate distortion approach.
Tlusty's topological rate distortion analysis of the genetic code is applied to protein symmetries and protein folding rates. Unlike the genetic case, numerous thermodynamically accessible 'protein folding codes' can be identified from empirical classifications. Folding rates follow from a topologically driven rate distortion argument, a model that can, in principle, be extended to intrinsically disordered proteins. The elaborate cellular regulatory machinery of the endoplasmic reticulum and heat shock proteins is needed to prevent transition between the various thermodynamically 'natural' sets of hydrophobic-core protein conformations, and its corrosion by aging would account for the subsequent onset of many protein folding disorders. These results imply markedly different evolutionary trajectories for the genetic and protein folding codes, and suggest that the 'protein folding code' is really a complicated composite, distributed across protein production and a cellular, or higher, regulatory apparatus acting as a canalizing catalyst that drives the system to converge on particular transitive components within a significantly larger 'protein folding groupoid'.
Wallace
Rodrick
R
Division of Epidemiology, The New York State Psychiatric Institute, 1051 Riverside Dr., New York, NY 10032, USA. wallace@pi.cpmc.columbia.edu
D000818:Animals; D019143:Evolution, Molecular; D006801:Humans; D007257:Information Theory; D008954:Models, Biological; D008958:Models, Molecular; D011487:Protein Conformation; D017510:Protein Folding