Folding thermodynamics of peptides

Summary, in English

A simplified interaction potential for protein folding studies at the atomic level is discussed and tested on a set of peptides with; 20 residues each. The test set contains both alpha-helical ( Trp cage, F-s) and beta-sheet ( GB1p, GB1m2, GB1m3, Betanova, LLM) peptides. The model, which is entirely sequence-based, is able to fold these different peptides for one and the same choice of model parameters. Furthermore, the melting behavior of the peptides is in good quantitative agreement with experimental data. Apparent folded populations obtained using different observables are compared, and are found to be very different for some of the peptides ( e. g., Betanova). In other cases ( in particular, GB1m2 and GB1m3), the different estimates agree reasonably well, indicating a more two-state-like melting behavior.

• Author: Anders Irbäck; Sandipan Mohanty
• Department/s: Computational Biology and Biological Physics - Undergoing reorganization; Department of Astronomy and Theoretical Physics - Undergoing reorganization
• Publishing year: 2005
• Language: English
• Pages: 1560-1569
• Publication/Series: Biophysical Journal
• Volume: 88
• Issue: 3
• Links: http://dx.doi.org/10.1529/biophysj.104.050427
• Document type: Journal article
• Publisher: Cell Press
• Topic: Biophysics
• Status: Published
• ISBN/ISSN/Other: ISSN: 1542-0086