We present an analysis of the effects 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 computed the harmonic spectrum within the Gaussian Network Model (GNM) and determined their spectral dimension, a parameter describing the low frequency behavior of the density of modes. We found a surprisingly strong correlation between the spectral dimension and the number of amino acids in the protein. Considering that larger spectral dimension values relate to more topologically com- pact folded states, our results indicate that, for a given temperature and length of protein, the folded structure corresponds to a less compact folding, one compatible with thermodynamic stability.

Topological thermal instability and length of proteins / Burioni, Raffaella; Cassi, Davide; Cecconi, F.; Vulpiani, A.. - In: PROTEINS. - ISSN 0887-3585. - 55:(2004), pp. 529-535. [10.1002/prot.20072]

Topological thermal instability and length of proteins

BURIONI, Raffaella;CASSI, Davide;
2004-01-01

Abstract

We present an analysis of the effects 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 computed the harmonic spectrum within the Gaussian Network Model (GNM) and determined their spectral dimension, a parameter describing the low frequency behavior of the density of modes. We found a surprisingly strong correlation between the spectral dimension and the number of amino acids in the protein. Considering that larger spectral dimension values relate to more topologically com- pact folded states, our results indicate that, for a given temperature and length of protein, the folded structure corresponds to a less compact folding, one compatible with thermodynamic stability.
2004
Topological thermal instability and length of proteins / Burioni, Raffaella; Cassi, Davide; Cecconi, F.; Vulpiani, A.. - In: PROTEINS. - ISSN 0887-3585. - 55:(2004), pp. 529-535. [10.1002/prot.20072]
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11381/1440326
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