Literature DB >> 18774821

Dual function of the hydration layer around an antifreeze protein revealed by atomistic molecular dynamics simulations.

David R Nutt1, Jeremy C Smith.   

Abstract

Atomistic molecular dynamics simulations are used to investigate the mechanism by which the antifreeze protein from the spruce budworm, Choristoneura fumiferana, binds to ice. Comparison of structural and dynamic properties of the water around the three faces of the triangular prism-shaped protein in aqueous solution reveals that at low temperature the water structure is ordered and the dynamics slowed down around the ice-binding face of the protein, with a disordering effect observed around the other two faces. These results suggest a dual role for the solvation water around the protein. The preconfigured solvation shell around the ice-binding face is involved in the initial recognition and binding of the antifreeze protein to ice by lowering the barrier for binding and consolidation of the protein:ice interaction surface. Thus, the antifreeze protein can bind to the molecularly rough ice surface by becoming actively involved in the formation of its own binding site. Also, the disruption of water structure around the rest of the protein helps prevent the adsorbed protein becoming covered by further ice growth.

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Year:  2008        PMID: 18774821     DOI: 10.1021/ja8034027

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  37 in total

1.  Ice-binding site of snow mold fungus antifreeze protein deviates from structural regularity and high conservation.

Authors:  Hidemasa Kondo; Yuichi Hanada; Hiroshi Sugimoto; Tamotsu Hoshino; Christopher P Garnham; Peter L Davies; Sakae Tsuda
Journal:  Proc Natl Acad Sci U S A       Date:  2012-05-29       Impact factor: 11.205

2.  Structural Basis for the Inhibition of Gas Hydrates by α-Helical Antifreeze Proteins.

Authors:  Tianjun Sun; Peter L Davies; Virginia K Walker
Journal:  Biophys J       Date:  2015-10-20       Impact factor: 4.033

3.  Anchored clathrate waters bind antifreeze proteins to ice.

Authors:  Christopher P Garnham; Robert L Campbell; Peter L Davies
Journal:  Proc Natl Acad Sci U S A       Date:  2011-04-11       Impact factor: 11.205

4.  Superheating of ice crystals in antifreeze protein solutions.

Authors:  Yeliz Celik; Laurie A Graham; Yee-Foong Mok; Maya Bar; Peter L Davies; Ido Braslavsky
Journal:  Proc Natl Acad Sci U S A       Date:  2010-03-09       Impact factor: 11.205

5.  Observation of ice-like water layers at an aqueous protein surface.

Authors:  Konrad Meister; Simona Strazdaite; Arthur L DeVries; Stephan Lotze; Luuk L C Olijve; Ilja K Voets; Huib J Bakker
Journal:  Proc Natl Acad Sci U S A       Date:  2014-12-02       Impact factor: 11.205

6.  Combined molecular dynamics and neural network method for predicting protein antifreeze activity.

Authors:  Daniel J Kozuch; Frank H Stillinger; Pablo G Debenedetti
Journal:  Proc Natl Acad Sci U S A       Date:  2018-12-07       Impact factor: 11.205

7.  Preordering of water is not needed for ice recognition by hyperactive antifreeze proteins.

Authors:  Arpa Hudait; Daniel R Moberg; Yuqing Qiu; Nathan Odendahl; Francesco Paesani; Valeria Molinero
Journal:  Proc Natl Acad Sci U S A       Date:  2018-07-09       Impact factor: 11.205

8.  Antifreeze protein hydration waters: Unstructured unless bound to ice.

Authors:  Sean M Marks; Amish J Patel
Journal:  Proc Natl Acad Sci U S A       Date:  2018-08-06       Impact factor: 11.205

9.  Flies expand the repertoire of protein structures that bind ice.

Authors:  Koli Basu; Laurie A Graham; Robert L Campbell; Peter L Davies
Journal:  Proc Natl Acad Sci U S A       Date:  2015-01-05       Impact factor: 11.205

10.  Long-range protein-water dynamics in hyperactive insect antifreeze proteins.

Authors:  Konrad Meister; Simon Ebbinghaus; Yao Xu; John G Duman; Arthur DeVries; Martin Gruebele; David M Leitner; Martina Havenith
Journal:  Proc Natl Acad Sci U S A       Date:  2012-12-31       Impact factor: 11.205

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