Literature DB >> 22235927

Sitting at the edge: how biomolecules use hydrophobicity to tune their interactions and function.

Amish J Patel1, Patrick Varilly, Sumanth N Jamadagni, Michael F Hagan, David Chandler, Shekhar Garde.   

Abstract

Water near extended hydrophobic surfaces is like that at a liquid-vapor interface, where fluctuations in water density are substantially enhanced compared to those in bulk water. Here we use molecular simulations with specialized sampling techniques to show that water density fluctuations are similarly enhanced, even near hydrophobic surfaces of complex biomolecules, situating them at the edge of a dewetting transition. Consequently, water near these surfaces is sensitive to subtle changes in surface conformation, topology, and chemistry, any of which can tip the balance toward or away from the wet state and thus significantly alter biomolecular interactions and function. Our work also resolves the long-standing puzzle of why some biological surfaces dewet and other seemingly similar surfaces do not.

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Year:  2012        PMID: 22235927      PMCID: PMC3303187          DOI: 10.1021/jp2107523

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  38 in total

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Authors:  John D Weeks
Journal:  Annu Rev Phys Chem       Date:  2001-10-04       Impact factor: 12.703

2.  High-resolution in situ x-ray study of the hydrophobic gap at the water-octadecyl-trichlorosilane interface.

Authors:  Markus Mezger; Harald Reichert; Sebastian Schöder; John Okasinski; Heiko Schröder; Helmut Dosch; Dennis Palms; John Ralston; Veijo Honkimäki
Journal:  Proc Natl Acad Sci U S A       Date:  2006-11-20       Impact factor: 11.205

3.  Effect of pressure on the phase behavior and structure of water confined between nanoscale hydrophobic and hydrophilic plates.

Authors:  Nicolas Giovambattista; Peter J Rossky; Pablo G Debenedetti
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2006-04-13

4.  Quantifying water density fluctuations and compressibility of hydration shells of hydrophobic solutes and proteins.

Authors:  Sapna Sarupria; Shekhar Garde
Journal:  Phys Rev Lett       Date:  2009-07-17       Impact factor: 9.161

5.  Characterizing hydrophobicity of interfaces by using cavity formation, solute binding, and water correlations.

Authors:  Rahul Godawat; Sumanth N Jamadagni; Shekhar Garde
Journal:  Proc Natl Acad Sci U S A       Date:  2009-08-25       Impact factor: 11.205

6.  Tin-containing zeolites are highly active catalysts for the isomerization of glucose in water.

Authors:  Manuel Moliner; Yuriy Román-Leshkov; Mark E Davis
Journal:  Proc Natl Acad Sci U S A       Date:  2010-03-22       Impact factor: 11.205

7.  Hydration of protein-protein interfaces.

Authors:  Francis Rodier; Ranjit Prasad Bahadur; Pinak Chakrabarti; Joël Janin
Journal:  Proteins       Date:  2005-07-01

8.  Water dynamics and dewetting transitions in the small mechanosensitive channel MscS.

Authors:  Andriy Anishkin; Sergei Sukharev
Journal:  Biophys J       Date:  2004-05       Impact factor: 4.033

9.  Chemical denaturants inhibit the onset of dewetting.

Authors:  Jeremy L England; Vijay S Pande; Gilad Haran
Journal:  J Am Chem Soc       Date:  2008-08-16       Impact factor: 15.419

10.  Hydrophobic collapse in multidomain protein folding.

Authors:  Ruhong Zhou; Xuhui Huang; Claudio J Margulis; Bruce J Berne
Journal:  Science       Date:  2004-09-10       Impact factor: 47.728

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  53 in total

1.  Modeling Viral Capsid Assembly.

Authors:  Michael F Hagan
Journal:  Adv Chem Phys       Date:  2014       Impact factor: 1.000

2.  On the cooperative formation of non-hydrogen-bonded water at molecular hydrophobic interfaces.

Authors:  Joel G Davis; Blake M Rankin; Kamil P Gierszal; Dor Ben-Amotz
Journal:  Nat Chem       Date:  2013-07-21       Impact factor: 24.427

3.  Pathways to dewetting in hydrophobic confinement.

Authors:  Richard C Remsing; Erte Xi; Srivathsan Vembanur; Sumit Sharma; Pablo G Debenedetti; Shekhar Garde; Amish J Patel
Journal:  Proc Natl Acad Sci U S A       Date:  2015-06-22       Impact factor: 11.205

4.  Physical chemistry: Hydrophobic interactions in context.

Authors:  Shekhar Garde
Journal:  Nature       Date:  2015-01-15       Impact factor: 49.962

5.  Navigating the waters of membrane design.

Authors:  Henry S Ashbaugh
Journal:  Proc Natl Acad Sci U S A       Date:  2021-01-05       Impact factor: 11.205

6.  Affinity of small-molecule solutes to hydrophobic, hydrophilic, and chemically patterned interfaces in aqueous solution.

Authors:  Jacob I Monroe; Sally Jiao; R Justin Davis; Dennis Robinson Brown; Lynn E Katz; M Scott Shell
Journal:  Proc Natl Acad Sci U S A       Date:  2021-01-05       Impact factor: 11.205

7.  Identifying hydrophobic protein patches to inform protein interaction interfaces.

Authors:  Nicholas B Rego; Erte Xi; Amish J Patel
Journal:  Proc Natl Acad Sci U S A       Date:  2021-02-09       Impact factor: 11.205

8.  Simulations of HIV capsid protein dimerization reveal the effect of chemistry and topography on the mechanism of hydrophobic protein association.

Authors:  Naiyin Yu; Michael F Hagan
Journal:  Biophys J       Date:  2012-09-19       Impact factor: 4.033

9.  Material witness: cell physics.

Authors:  Philip Ball
Journal:  Nat Mater       Date:  2012-11       Impact factor: 43.841

10.  Anomalously Rapid Hydration Water Diffusion Dynamics Near DNA Surfaces.

Authors:  John M Franck; Yuan Ding; Katherine Stone; Peter Z Qin; Songi Han
Journal:  J Am Chem Soc       Date:  2015-09-10       Impact factor: 15.419

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