Topological thermal instability and the length of proteins

Details Topological thermal instability and the length of proteins Topological thermal instability and the length of proteins

2003-06-19

arxiv.org/abs/cond-mat/0306494v1

Physics

Condensed Matter

6 pages, 3 eps figures

Scientific paper

We present an analysis of the role of global topology on the structural stability of folded proteins in thermal equilibrium with a heat bath. For a large class of single domain proteins, we compute the harmonic spectrum within the Gaussian Network Model (GNM) and we determine the spectral dimension, a parameter describing the low frequency behaviour of the density of modes. We find a surprisingly strong correlation between the spectral dimension and the number of aminoacids of the protein. Considering that the larger the spectral dimension, the more topologically compact is the folded state, our results indicate that for a given temperature and length of the protein, the folded structure corresponds to the less compact folding compatible with thermodynamic stability.

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