Biology – Quantitative Biology – Biomolecules
Scientific paper
2005-12-12
Biology
Quantitative Biology
Biomolecules
Scientific paper
10.1103/PhysRevE.73.061905
The thermodynamics of the small SH3 protein domain is studied by means of a simplified model where each bead-like amino acid interacts with the others through a contact potential controlled by a 20x20 random matrix. Good folding sequences, characterized by a low native energy, display three main thermodynamical phases, namely a coil-like phase, an unfolded globule and a folded phase (plus other two phases, namely frozen and random coil, populated only at extremes temperatures). Interestingly, the unfolded globule has some regions already structured. Poorly designed sequences, on the other hand, display a wide transition from the random coil to a frozen state. The comparison with the analytic theory of heteropolymers is discussed.
Amatori A.
Broglia Ricardo A.
Ferkinghoff-Borg Jesper
Tiana Guido
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