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Anders Irbäck. Photo.

Anders Irbäck

Professor

Anders Irbäck. Photo.

Local interactions and protein folding : A model study on the square and triangular lattices

Author

  • Anders Irbäck
  • Erik Sandelin

Summary, in English

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 κ of the local interactions; κ=0 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 κ. Also, we find that the number of designable structures can differ widely for the two lattices at a given κ. This is the case, for example, at κ=0, 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 rote in the formation of unique minimum energy structures.

Department/s

  • Computational Biology and Biological Physics

Publishing year

1998-02-01

Language

English

Pages

2245-2250

Publication/Series

Journal of Chemical Physics

Volume

108

Issue

5

Document type

Journal article

Publisher

American Institute of Physics (AIP)

Status

Published

ISBN/ISSN/Other

  • ISSN: 0021-9606