Local Interactions and Protein Folding: A Model Study on the Square and Triangular Lattices
Abstract
We study a simple heteropolymer model containing sequence-independent local interactions on both square and triangular lattices. Sticking to a two-letter code, we investigate the model for varying strength of the local interactions; corresponds to the well-known HP model [K.F. Lau and K.A. Dill, Macromolecules 22, 3986 (1989)]. By exhaustive enumerations for short chains, we obtain all structures which act as a unique and pronounced energy minimum for at least one sequence. We find that the number of such designable structures depends strongly on . Also, we find that the number of designable structures can differ widely for the two lattices at a given . This is the case, for example, at , which implies that the HP model exhibits different behavior on the two lattices. Our findings clearly show that sequence-independent local properties of the chains can play an important role in the formation of unique minimum energy structures.
Cite
@article{arxiv.cond-mat/9708049,
title = {Local Interactions and Protein Folding: A Model Study on the Square and Triangular Lattices},
author = {Anders Irbäck and Erik Sandelin},
journal= {arXiv preprint arXiv:cond-mat/9708049},
year = {2009}
}
Comments
10 pages LaTeX, 3 Postscript figures. Figure and references added