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Intrinsically Disordered Energy Landscapes

Authors: Yassmine Chebaro; Andrew J. Ballard; Debayan Chakraborty; David J. Wales;
APC: 1,658.29 EUR

Intrinsically Disordered Energy Landscapes

Abstract

Abstract Analysis of an intrinsically disordered protein (IDP) reveals an underlying multifunnel structure for the energy landscape. We suggest that such ‘intrinsically disordered’ landscapes, with a number of very different competing low-energy structures, are likely to characterise IDPs and provide a useful way to address their properties. In particular, IDPs are present in many cellular protein interaction networks and several questions arise regarding how they bind to partners. Are conformations resembling the bound structure selected for binding, or does further folding occur on binding the partner in a induced-fit fashion? We focus on the p53 upregulated modulator of apoptosis (PUMA) protein, which adopts an "Equation missing" -helical conformation when bound to its partner and is involved in the activation of apoptosis. Recent experimental evidence shows that folding is not necessary for binding and supports an induced-fit mechanism. Using a variety of computational approaches we deduce the molecular mechanism behind the instability of the PUMA peptide as a helix in isolation. We find significant barriers between partially folded states and the helix. Our results show that the favoured conformations are molten-globule like, stabilised by charged and hydrophobic contacts, with structures resembling the bound state relatively unpopulated in equilibrium.

Country
United Kingdom
Keywords

Protein Folding, Tumor Suppressor Proteins, Hydrogen Bonding, Molecular Dynamics Simulation, Article, Protein Structure, Secondary, Protein Structure, Tertiary, Mice, Solvents, Animals, Thermodynamics, Apoptosis Regulatory Proteins

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    This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    94
    popularity
    This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
    Top 1%
    influence
    This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    Top 10%
    impulse
    This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
94
Top 1%
Top 10%
Top 10%
Green
gold