Literature DB >> 27263532

Energetically favoured defects in dense packings of particles on spherical surfaces.

Stefan Paquay1, Halim Kusumaatmaja2, David J Wales3, Roya Zandi4, Paul van der Schoot5.   

Abstract

The dense packing of interacting particles on spheres has proved to be a useful model for virus capsids and colloidosomes. Indeed, icosahedral symmetry observed in virus capsids corresponds to potential energy minima that occur for magic numbers of, e.g., 12, 32 and 72 identical Lennard-Jones particles, for which the packing has exactly the minimum number of twelve five-fold defects. It is unclear, however, how stable these structures are against thermal agitation. We investigate this property by means of basin-hopping global optimisation and Langevin dynamics for particle numbers between ten and one hundred. An important measure is the number and type of point defects, that is, particles that do not have six nearest neighbours. We find that small icosahedral structures are the most robust against thermal fluctuations, exhibiting fewer excess defects and rearrangements for a wide temperature range. Furthermore, we provide evidence that excess defects appearing at low non-zero temperatures lower the potential energy at the expense of entropy. At higher temperatures defects are, as expected, thermally excited and thus entropically stabilised. If we replace the Lennard-Jones potential by a very short-ranged (Morse) potential, which is arguably more appropriate for colloids and virus capsid proteins, we find that the same particle numbers give a minimum in the potential energy, although for larger particle numbers these minima correspond to different packings. Furthermore, defects are more difficult to excite thermally for the short-ranged potential, suggesting that the short-ranged interaction further stabilises equilibrium structures.

Entities:  

Year:  2016        PMID: 27263532     DOI: 10.1039/c6sm00489j

Source DB:  PubMed          Journal:  Soft Matter        ISSN: 1744-683X            Impact factor:   3.679


  9 in total

1.  Self-assembly of convex particles on spherocylindrical surfaces.

Authors:  Guillermo R Lázaro; Bogdan Dragnea; Michael F Hagan
Journal:  Soft Matter       Date:  2018-07-18       Impact factor: 3.679

2.  Beyond icosahedral symmetry in packings of proteins in spherical shells.

Authors:  Majid Mosayebi; Deborah K Shoemark; Jordan M Fletcher; Richard B Sessions; Noah Linden; Derek N Woolfson; Tanniemola B Liverpool
Journal:  Proc Natl Acad Sci U S A       Date:  2017-08-08       Impact factor: 11.205

3.  How geometric frustration shapes twisted fibres, inside and out: competing morphologies of chiral filament assembly.

Authors:  Douglas M Hall; Gregory M Grason
Journal:  Interface Focus       Date:  2017-06-16       Impact factor: 3.906

4.  Defects and Chirality in the Nanoparticle-Directed Assembly of Spherocylindrical Shells of Virus Coat Proteins.

Authors:  Cheng Zeng; Guillermo Rodriguez Lázaro; Irina B Tsvetkova; Michael F Hagan; Bogdan Dragnea
Journal:  ACS Nano       Date:  2018-04-25       Impact factor: 15.881

Review 5.  Geometric Defects and Icosahedral Viruses.

Authors:  Joseph Che-Yen Wang; Suchetana Mukhopadhyay; Adam Zlotnick
Journal:  Viruses       Date:  2018-01-04       Impact factor: 5.048

6.  The effect of RNA stiffness on the self-assembly of virus particles.

Authors:  Siyu Li; Gonca Erdemci-Tandogan; Paul van der Schoot; Roya Zandi
Journal:  J Phys Condens Matter       Date:  2018-01-31       Impact factor: 2.333

7.  Systematic Comparison of Genetic Algorithm and Basin Hopping Approaches to the Global Optimization of Si(111) Surface Reconstructions.

Authors:  Maximilian N Bauer; Matt I J Probert; Chiara Panosetti
Journal:  J Phys Chem A       Date:  2022-05-06       Impact factor: 2.944

8.  Mechanisms of Scaffold-Mediated Microcompartment Assembly and Size Control.

Authors:  Farzaneh Mohajerani; Evan Sayer; Christopher Neil; Koe Inlow; Michael F Hagan
Journal:  ACS Nano       Date:  2021-03-08       Impact factor: 15.881

9.  Crystal-like order and defects in metazoan epithelia with spherical geometry.

Authors:  Daria S Roshal; Karim Azzag; Emilie Le Goff; Sergei B Rochal; Stephen Baghdiguian
Journal:  Sci Rep       Date:  2020-05-06       Impact factor: 4.379

  9 in total

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