# Statistical analysis of sizes and shapes of virus capsids and their resulting elastic properties

@article{LodorferBoi2013StatisticalAO, title={Statistical analysis of sizes and shapes of virus capsids and their resulting elastic properties}, author={An{\vz}e Lo{\vs}dorfer Bo{\vz}i{\vc} and Antonio {\vS}iber and R. Podgornik}, journal={Journal of Biological Physics}, year={2013}, volume={39}, pages={215-228} }

From the analysis of sizes of approximately 130 small icosahedral viruses we find that there is a typical structural capsid protein, having a mean diameter of 5 nm and a mean thickness of 3 nm, with more than two thirds of the analyzed capsid proteins having thicknesses between 2 nm and 4 nm. To investigate whether, in addition to the fairly conserved geometry, capsid proteins show similarities in the way they interact with one another, we examined the shapes of the capsids in detail. We…

## 27 Citations

### Minimal Design Principles for Icosahedral Virus Capsids

- ChemistryACS nano
- 2021

The geometrical structures of single- and multiple-shell icosahedral virus capsids are reproduced as the targets that minimize the cost corresponding to relatively simple design functions, which are inspired by the packings favored for the Thomson problem.

### Icosadeltahedral Geometry of Geodesic Domes, Fullerenes and Viruses: A Tutorial on the T-Number

- ChemistrySymmetry
- 2020

The Caspar–Klug (CK) classification of viruses is discussed by parallel examination of geometry of icosahedral geodesic domes, fullerenes, and viruses, and the T-number, the characteristic for the CK classification, is defined and discussed.

### Buckling transitions and soft-phase invasion of two-component icosahedral shells.

- Materials SciencePhysical review. E
- 2020

The shapes of spherical viruses can be understood from the perspective of elasticity theory of thin two-component shells and a theory of shape transformations of an icosahedral shell upon addition of a softer, but still crystalline, material onto its surface is developed.

### Unveiling the Hidden Rules of Spherical Viruses Using Point Arrays

- BiologyViruses
- 2020

This work presents a modified fitness measure which classifies viruses in an unambiguous and rigorous manner, irrespective of local surface chemistry, steric hinderance, solvent accessibility or Triangulation number, and uses these point arrays to explain the immutable surface loops of bacteriophage MS2, the relative reactivity of surface lysine residues in CPMV and the non-quasi-equivalent flexibility of the HBV dimers.

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

- Biology, EngineeringJournal of physics. Condensed matter : an Institute of Physics journal
- 2018

It is shown that an increase in effective chain stiffness because of base-pairing could be the reason why under certain conditions linear chains have an advantage over branched chains when it comes to encapsidation efficiency.

### Scaling relation between genome length and particle size of viruses provides insights into viral life history

- BiologyiScience
- 2021

### From discrete to continuous description of spherical surface charge distributions.

- PhysicsSoft matter
- 2018

This work develops a novel way of representing spherical surface charge distributions based on the von Mises-Fisher distribution, and clearly demonstrates how neglecting the effect of charge size leads to an overestimation of high-order multipoles.

### Minimalistic coarse-grained modeling of viral capsid assembly.

- BiologyProgress in molecular biology and translational science
- 2020

### From discrete to continuous description of spherical surface charge distributions

- Physics
- 2017

The importance of electrostatic interactions in soft matter and biological systems can often be traced to non-uniform charge effects, which are commonly described using a multipole expansion of the…

### Electrostatics-Driven Inflation of Elastic Icosahedral Shells as a Model for Swelling of Viruses.

- Materials ScienceBiophysical journal
- 2018

## References

SHOWING 1-10 OF 51 REFERENCES

### Relevance of capsid structure in the buckling and maturation of spherical viruses

- EngineeringPhysical biology
- 2012

This work studies how the capsid shape and the buckling transition depend on the triangulation number T and the icosahedral class P of the virus structure, and finds that, for small shells, capsids with P = 1 are most likely to produce polyhedral shapes that minimize their energy and accumulated stress, whereas viruses withP = 3 prefer to remain spherical.

### Virus shapes and buckling transitions in spherical shells.

- EngineeringPhysical review. E, Statistical, nonlinear, and soft matter physics
- 2003

We show that the icosahedral packings of protein capsomeres proposed by Caspar and Klug for spherical viruses become unstable to faceting for sufficiently large virus size, in analogy with the…

### On the morphology of viral capsids: elastic properties and buckling transitions.

- BiologyThe journal of physical chemistry. B
- 2012

A change in γ consistent with the buckling transition theory is observed and also a significant reduction in κ, which facilitates formation of the faceted state, which is observed for the T = 7 capsids; however, there is no such correlation for the smaller T = 3 viruses.

### Origin of icosahedral symmetry in viruses.

- ChemistryProceedings of the National Academy of Sciences of the United States of America
- 2004

This work presents a minimal model for equilibrium capsid structure, introducing an explicit interaction between protein multimers (capsomers) and shows that the model reproduces the main structures of viruses in vivo and important nonicosahedral structures observed in vitro.

### Periodic Table of Virus Capsids: Implications for Natural Selection and Design

- BiologyPloS one
- 2010

This report uncovers an unprecedented and species-independent evolutionary pressure on virus capsids, based on the the notion that the simplest capsid designs (or those capsids with the lowest “hexamer complexity”, ) are the fittest, which was shown to be true for all available virus Capsids.

### Buckling transition in icosahedral shells subjected to volume conservation constraint and pressure: relations to virus maturation.

- EngineeringPhysical review. E, Statistical, nonlinear, and soft matter physics
- 2006

Several scenarios that may explain the experimentally observed feature of mature viruses being more aspherical (facetted) from their immature precursors are discussed, and predictions for the elastic properties of viral coatings are obtained on the basis of the presented studies.

### How simple can a model of an empty viral capsid be? Charge distributions in viral capsids

- PhysicsJournal of biological physics
- 2012

This analysis combines the experimentally determined capsid geometry with simple models for ionization of amino acids, thus yielding a detailed description of spatial distribution for positive and negative charges across the capsid wall.

### Thermodynamic basis for the genome to capsid charge relationship in viral encapsidation

- BiologyProceedings of the National Academy of Sciences
- 2011

An appropriate thermodynamic framework is established for determining the optimal genome length in electrostatically driven viral encapsidation that includes the electrostatic potential due to the Donnan equilibrium, which arises from the semipermeable nature of the viral capsid.

### Energies and pressures in viruses: contribution of nonspecific electrostatic interactions.

- BiologyPhysical chemistry chemical physics : PCCP
- 2012

A simplified but, within well defined limitations, reliable approach is used to derive expressions for electrostatic energies and the corresponding osmotic pressures in single-stranded RNA viruses and double-stranding DNA bacteriophages.

### The Evolution and Emergence of RNA Viruses

- BiologyEmerging Infectious Diseases
- 2010

It is argued persuasively that research in this area is limited by the size and detail of genome databases, combined with relevant epidemiologic and clinical information, such as precise geographic location, exact date of sampling, and transmission dynamics of the disease.