,Different potential of mean force of two-state protein GB1 and downhill protein gpW revealed by mol

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Two-state folding and down-hill folding are two kinds of protein folding dynamics for small single domain proteins.Here we apply molecular dynamics (MD) simulation to the two-state protein GB 1 and down-hill folding protein gpW to reveal the relationship of their free energy landscape and folding/unfolding dynamics.Results from the steered MD simulations show that gpW is much less mechanical resistant than GB 1,and the unfolding process of gpW has more variability than that of GB 1 according to their force-extension curves.The potential of mean force (PMF) of GB 1 and gpW obtained by the umbrella sampling simulations shows apparent difference: PMF of GB1 along the coordinate of extension exhibits a kink transition point where the slope of PMF drops suddenly,while PMF of gpW increases with extension smoothly,which are consistent with two-state folding dynamics of GB1 and downhill folding dynamics of gpW,respectively.Our results provide insight to understand the fundamental mechanism of different folding dynamics of two-state proteins and downhill folding proteins.
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