Now showing items 1-10 of 1977
Analyzing the effect of homogeneous frustration in protein folding
The energy landscape theory has been an invaluable theoretical framework in the understanding of biological processes such as protein folding, oligomerization, and functional transitions. According to the theory, the energy ...
Specific and nonspecific collapse in protein folding funnels
Experiments with fast folding proteins are beginning to address the relationship between collapse and folding. We investigate how different scenarios for folding can arise depending on whether the folding and collapse ...
Detailing Protein Landscapes under Pressure
(Cell Press, 2016-12)
Natural protein molecules are remarkablephysical objects. Despite the astronomicalnumber of competing structuralforms, these systems self-organize intobeautiful structural ensembles in biologicallyshort timescales, puzzlingout ...
The energy cost of polypeptide knot formation and its folding consequences
(Nature Research, 2017)
Knots are natural topologies of chains. Yet, little is known about spontaneous knot formation in a polypeptide chain-an event that can potentially impair its folding-and about the effect of a knot on the stability and ...
Effect of the thermostat in the molecular dynamics simulation on the folding of the model protein chignolin
(SPRINGERNEW YORK, 2012)
Molecular dynamics simulations of the model protein chignolin with explicit solvent were carried out, in order to analyze the influence of the Berendsen thermostat on the evolution and folding of the peptide. The dependence ...
Quantifying Nonnative Interactions in the Protein-Folding Free-Energy Landscape
(Cell Press, 2016-07-26)
Protein folding is a central problem in biological physics. Energetic roughness is an important aspect that controls protein-folding stability and kinetics. The roughness is associated with conflicting interactions in the ...