Literature DB >> 26723618

Modeling competitive substitution in a polyelectrolyte complex.

B Peng1, M Muthukumar1.   

Abstract

We have simulated the invasion of a polyelectrolyte complex made of a polycation chain and a polyanion chain, by another longer polyanion chain, using the coarse-grained united atom model for the chains and the Langevin dynamics methodology. Our simulations reveal many intricate details of the substitution reaction in terms of conformational changes of the chains and competition between the invading chain and the chain being displaced for the common complementary chain. We show that the invading chain is required to be sufficiently longer than the chain being displaced for effecting the substitution. Yet, having the invading chain to be longer than a certain threshold value does not reduce the substitution time much further. While most of the simulations were carried out in salt-free conditions, we show that presence of salt facilitates the substitution reaction and reduces the substitution time. Analysis of our data shows that the dominant driving force for the substitution process involving polyelectrolytes lies in the release of counterions during the substitution.

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Year:  2015        PMID: 26723618      PMCID: PMC4662678          DOI: 10.1063/1.4936256

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  9 in total

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Journal:  Phys Rev Lett       Date:  2001-12-14       Impact factor: 9.161

2.  Soft effective interactions between weakly charged polyelectrolyte chains.

Authors:  M Konieczny; C N Likos; H Löwen
Journal:  J Chem Phys       Date:  2004-09-08       Impact factor: 3.488

3.  Molecular dynamics simulations of electrostatic layer-by-layer self-assembly.

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Journal:  Phys Rev Lett       Date:  2004-07-12       Impact factor: 9.161

4.  Langevin dynamics of semiflexible polyelectrolytes: rod-toroid-globule-coil structures and counterion distribution.

Authors:  Zhaoyang Ou; M Muthukumar
Journal:  J Chem Phys       Date:  2005-08-15       Impact factor: 3.488

5.  Molecular dynamics simulations of multilayer films of polyelectrolytes and nanoparticles.

Authors:  Junhwan Jeon; Venkateswarlu Panchagnula; Jessica Pan; Andrey V Dobrynin
Journal:  Langmuir       Date:  2006-05-09       Impact factor: 3.882

6.  Entropy and enthalpy of polyelectrolyte complexation: Langevin dynamics simulations.

Authors:  Zhaoyang Ou; M Muthukumar
Journal:  J Chem Phys       Date:  2006-04-21       Impact factor: 3.488

7.  Molecular dynamics simulations of polyelectrolyte brushes: from single chains to bundles of chains.

Authors:  Daniel J Sandberg; Jan-Michael Y Carrillo; Andrey V Dobrynin
Journal:  Langmuir       Date:  2007-10-31       Impact factor: 3.882

8.  Protein--DNA interactions: reaching and recognizing the targets.

Authors:  A G Cherstvy; A B Kolomeisky; A A Kornyshev
Journal:  J Phys Chem B       Date:  2008-03-22       Impact factor: 2.991

9.  Positively charged residues in DNA-binding domains of structural proteins follow sequence-specific positions of DNA phosphate groups.

Authors:  A G Cherstvy
Journal:  J Phys Chem B       Date:  2009-04-02       Impact factor: 2.991

  9 in total
  10 in total

1.  Structural Comparisons of PEI/DNA and PEI/siRNA Complexes Revealed with Molecular Dynamics Simulations.

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Journal:  J Phys Chem B       Date:  2017-02-14       Impact factor: 2.991

Review 2.  50th Anniversary Perspective: A Perspective on Polyelectrolyte Solutions.

Authors:  M Muthukumar
Journal:  Macromolecules       Date:  2017-12-14       Impact factor: 5.985

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4.  Extreme disorder in an ultrahigh-affinity protein complex.

Authors:  Alessandro Borgia; Madeleine B Borgia; Katrine Bugge; Vera M Kissling; Pétur O Heidarsson; Catarina B Fernandes; Andrea Sottini; Andrea Soranno; Karin J Buholzer; Daniel Nettels; Birthe B Kragelund; Robert B Best; Benjamin Schuler
Journal:  Nature       Date:  2018-02-21       Impact factor: 49.962

5.  Release of linker histone from the nucleosome driven by polyelectrolyte competition with a disordered protein.

Authors:  Pétur O Heidarsson; Davide Mercadante; Andrea Sottini; Daniel Nettels; Madeleine B Borgia; Alessandro Borgia; Sinan Kilic; Beat Fierz; Robert B Best; Benjamin Schuler
Journal:  Nat Chem       Date:  2022-01-06       Impact factor: 24.274

6.  On the specificity of protein-protein interactions in the context of disorder.

Authors:  Kaare Teilum; Johan G Olsen; Birthe B Kragelund
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Review 7.  Rules of Physical Mathematics Govern Intrinsically Disordered Proteins.

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Journal:  Annu Rev Biophys       Date:  2022-02-04       Impact factor: 19.763

8.  Compartmentalised RNA catalysis in membrane-free coacervate protocells.

Authors:  Björn Drobot; Juan M Iglesias-Artola; Kristian Le Vay; Viktoria Mayr; Mrityunjoy Kar; Moritz Kreysing; Hannes Mutschler; T-Y Dora Tang
Journal:  Nat Commun       Date:  2018-09-07       Impact factor: 14.919

9.  Polyelectrolyte interactions enable rapid association and dissociation in high-affinity disordered protein complexes.

Authors:  Andrea Sottini; Alessandro Borgia; Madeleine B Borgia; Katrine Bugge; Daniel Nettels; Aritra Chowdhury; Pétur O Heidarsson; Franziska Zosel; Robert B Best; Birthe B Kragelund; Benjamin Schuler
Journal:  Nat Commun       Date:  2020-11-12       Impact factor: 14.919

Review 10.  Intrinsically disordered proteins: modes of binding with emphasis on disordered domains.

Authors:  Owen Michael Morris; James Hilary Torpey; Rivka Leah Isaacson
Journal:  Open Biol       Date:  2021-10-06       Impact factor: 6.411

  10 in total

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