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Tlusty, Tsvi
Living and Soft Matter Theory Group
Research Interests
  • Systems biology, non-equilibrium physics, physical biology, molecular information, proteins

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Strain analysis of protein structures and low dimensionality of mechanical allosteric couplings

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Title
Strain analysis of protein structures and low dimensionality of mechanical allosteric couplings
Author
Mitchell, Michael R.Tlusty, TsviLeibler, Stanislas
Keywords
strain; protein mechanics; protein allostery; elasticity
Issue Date
201610
Publisher
NATL ACAD SCIENCES
Citation
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, v.113, no.40, pp.E5847 - E5855
Abstract
In many proteins, especially allosteric proteins that communicate regulatory states from allosteric to active sites, structural deformations are functionally important. To understand these deformations, dynamical experiments are ideal but challenging. Using static structural information, although more limited than dynamical analysis, is much more accessible. Underused for protein analysis, strain is the natural quantity for studying local deformations. We calculate strain tensor fields for proteins deformed by ligands or thermal fluctuations using crystal and NMR structure ensembles. Strains - primarily shears - show deformations around binding sites. These deformations can be induced solely by ligand binding at distant allosteric sites. Shears reveal quasi-2D paths of mechanical coupling between allosteric and active sites that may constitute a widespread mechanism of allostery. We argue that strain - particularly shear - is the most appropriate quantity for analysis of local protein deformations. This analysis can reveal mechanical and biological properties of many proteins. © 2016, National Academy of Sciences. All rights reserved
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DOI
http://dx.doi.org/10.1073/pnas.1609462113
ISSN
0027-8424
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