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  Topology of internally constrained polymer chains

Heidari, M., Satarifard, V., Tans, S. J., Ejtehadi, M. R., Mashaghi, S., & Mashaghi, A. (2017). Topology of internally constrained polymer chains. Physical Chemistry Chemical Physics, 19(28), 18389-18393. doi:10.1039/C7CP02145C.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-002D-AA6A-2 Version Permalink: http://hdl.handle.net/21.11116/0000-0000-50CF-D
Genre: Journal Article

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 Creators:
Heidari, Maziar, Author
Satarifard, Vahid1, Author              
Tans, Sander J., Author
Ejtehadi, Mohammad Reza, Author
Mashaghi, Samaneh, Author
Mashaghi, Alireza, Author
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1Andrea Grafmüller, Theorie & Bio-Systeme, Max Planck Institute of Colloids and Interfaces, Max Planck Society, ou_1863323              

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Free keywords: Open Access
 Abstract: Linear chains with intra-chain contacts can adopt different topologies and allow transitions between them, but it remains unclear how this process can be controlled. This question is important to systems ranging from proteins to chromosomes, which can adopt different conformations that are key to their function and toxicity. Here, we investigate how the topological dynamics of a simple linear chain is affected by interactions with a binding partner, using Monte Carlo and Molecular Dynamics simulations. We show that two point contacts with a binding partner are sufficient to accelerate or decelerate the formation of particular topologies within linear chains. Computed ''folding-time landscapes" that detail the folding time within the topology space show that such contacts deform these landscapes and hence alter the occupation probability of topological states. The results provide a mechanism by which chain topologies can be controlled externally, which opens up the possibility of regulating topological dynamics and the formation of more complex topologies. The findings may have important implications for understanding the mechanism of chaperone action as well as genome architecture and evolution.

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 Dates: 2017-07-052017
 Publication Status: Published in print
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 Identifiers: DOI: 10.1039/C7CP02145C
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Title: Physical Chemistry Chemical Physics
  Abbreviation : Phys. Chem. Chem. Phys.
Source Genre: Journal
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Publ. Info: Cambridge, England : Royal Society of Chemistry
Pages: - Volume / Issue: 19 (28) Sequence Number: - Start / End Page: 18389 - 18393 Identifier: ISSN: 1463-9076