A minimalistic all-atom approach to protein folding

Anders Irb ck
2003 Journal of Physics: Condensed Matter  
Using simple sequence-based potentials, the folding properties of a designed threehelix-bundle protein, an α-helix and a β-hairpin are studied. The three-helix-bundle protein is modelled using 5-6 atoms per amino acid and is found to undergo a firstorder-like folding transition at which chain collapse and helix formation cannot be separated, which is in accord with experimental data. The other two sequences are studied using a model that contains all atoms and are indeed found to make an
more » ... d to make an α-helix and a β-hairpin, respectively, for exactly the same choice of parameters. Calculated melting curves are, moreover, in reasonable quantitative agreement with experimental data, for both peptides. The melting curves are found to be quite well described by a simple two-state model, although the energy distributions lack a clear bimodal shape.
doi:10.1088/0953-8984/15/18/313 fatcat:6ch2kjmy2zevpe55id3ssbo4y4