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

Content Provider	Springer Nature Link
Author	Lošdorfer Božič, Anže Šiber, Antonio Podgornik, Rudolf
Copyright Year	2013
Abstract	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 classified them numerically according to their similarity to sphere and icosahedron and an interpolating set of shapes in between, all of them obtained from the theory of elasticity of shells. In order to make a unique and straightforward connection between an idealized, numerically calculated shape of an elastic shell and a capsid, we devised a special shape fitting procedure, the outcome of which is the idealized elastic shape fitting the capsid best. Using such a procedure we performed statistical analysis of a series of virus shapes and we found similarities between the capsid elastic properties of even very different viruses. As we explain in the paper, there are both structural and functional reasons for the convergence of protein sizes and capsid elastic properties. Our work presents a specific quantitative scheme to estimate relatedness between different proteins based on the details of the (quaternary) shape they form (capsid). As such, it may provide an information complementary to the one obtained from the studies of other types of protein similarity, such as the overall composition of structural elements, topology of the folded protein backbone, and sequence similarity.
Starting Page	215
Ending Page	228
Page Count	14
File Format	PDF
ISSN	00920606
Journal	Journal of Biological Physics
Volume Number	39
Issue Number	2
e-ISSN	15730689
Language	English
Publisher	Springer Netherlands
Publisher Date	2013-03-01
Publisher Place	Dordrecht
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Capsid Virus Geometry Icosahedron Faceting Elasticity Biophysics and Biological Physics Biochemistry Statistical Physics, Dynamical Systems and Complexity Neurosciences Soft and Granular Matter, Complex Fluids and Microfluidics
Content Type	Text
Resource Type	Article
Subject	Cell Biology Atomic and Molecular Physics, and Optics Molecular Biology Biophysics

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