Nanoscale protein domain motion and long-range allostery in signaling proteins-a view from neutron spin echo spectroscopy

Biophysics Reviews
David J E Callaway, Zimei Bu

Abstract

Many cellular proteins are multi-domain proteins. Coupled domain-domain interactions in these multidomain proteins are important for the allosteric relay of signals in the cellular signaling networks. We have initiated the application of neutron spin echo spectroscopy to the study of nanoscale protein domain motions on submicrosecond time scales and on nanometer length scale. Our NSE experiments reveal the activation of protein domain motions over a long distance of over more than 100 Å in a multidomain scaffolding protein NHERF1 upon binding to another protein, Ezrin. Such activation of nanoscale protein domain motions is correlated with the allosteric assembly of multi-protein complexes by NHERF1 and Ezrin. Here, we summarize the theoretical framework that we have developed, which uses simple concepts from nonequilibrium statistical mechanics to interpret the NSE data, and employs a mobility tensor to describe nanoscale protein domain motion. Extracting nanoscale protein domain motion from the NSE does not require elaborate molecular dynamics simulations, nor complex fits to rotational motion, nor elastic network models. The approach is thus more robust than multiparameter techniques that require untestable assumptions. We al...Continue Reading

References

Dec 13, 1991·Science·H FrauenfelderP G Wolynes
Jan 1, 1984·European Biophysics Journal : EBJ·A Cooper, D T Dryden
Feb 3, 1999·Proceedings of the National Academy of Sciences of the United States of America·T HaS Weiss
May 8, 2001·Annual Review of Biophysics and Biomolecular Structure·A G Palmer
Dec 10, 2002·Annual Review of Biophysics and Biomolecular Structure·R M DanielJ C Smith
Jul 21, 2004·Journal of Computational Chemistry·Eric F PettersenThomas E Ferrin
Aug 12, 2004·Chemical Reviews·Arthur G Palmer
Nov 25, 2005·Proceedings of the National Academy of Sciences of the United States of America·Zimei BuDavid J E Callaway
Jan 18, 2006·Nature Chemical Biology·Brian P EnglishX Sunney Xie
Aug 15, 2006·Nature Structural & Molecular Biology·Nataliya PopovychCharalampos G Kalodimos
Feb 15, 2007·Proceedings of the National Academy of Sciences of the United States of America·Samrat MukhopadhyayAshok A Deniz
Mar 3, 2007·Annual Review of Biophysics and Biomolecular Structure·William J GreenleafSteven M Block
May 24, 2007·Journal of the Royal Society, Interface·Ashok A DenizEdward A Lemke
Jul 22, 2008·Nature Chemical Biology·Nina M Goodey, Stephen J Benkovic
May 22, 2009·The Journal of Biological Chemistry·Saumendra BajpaiDenis Wirtz
Jul 14, 2009·Journal of Molecular Biology·Jianquan LiZimei Bu
Oct 21, 2009·Nature Chemical Biology·David D BoehrPeter E Wright
Jan 1, 2010·The Journal of Biological Chemistry·Shibani BhattacharyaZimei Bu
May 17, 2011·Advances in Protein Chemistry and Structural Biology·Zimei Bu, David J E Callaway
Jul 12, 2011·Structure·Buyong MaRuth Nussinov
Jul 19, 2011·Molecular BioSystems·Ruth Nussinov
Mar 5, 2013·Annual Review of Biophysics·Ruth NussinovBuyong Ma
Mar 27, 2013·Biophysical Journal·John F BeausangYale E Goldman
Apr 16, 2013·Journal of Molecular Biology·Shibani BhattacharyaZimei Bu
Jul 26, 2013·The European Physical Journal. E, Soft Matter·David J E CallawayZimei Bu
Apr 25, 2014·Journal of the American Chemical Society·Andreas M StadlerDieter Richter
May 3, 2014·Physical Review Letters·Liang HongJeremy C Smith
Nov 25, 2014·Journal of Physics. Condensed Matter : an Institute of Physics Journal·R Biehl, D Richter

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Citations

Mar 13, 2017·Journal of Molecular Biology·David J E CallawayZimei Bu
Dec 6, 2021·Protein Science : a Publication of the Protein Society·Shibani Bhattacharya, Anthony Palillo

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