Literature DB >> 16851183

Formation of spanning water networks on protein surfaces via 2D percolation transition.

Alla Oleinikova1, Nikolai Smolin, Ivan Brovchenko, Alfons Geiger, Roland Winter.   

Abstract

The formation of spanning hydrogen-bonded water networks on protein surfaces by a percolation transition is closely connected with the onset of their biological activity. To analyze the structure of the hydration water at this important threshold, we performed the first computer simulation study of the percolation transition of water in a model protein powder and on the surface of a single protein molecule. The formation of an infinite water network in the protein powder occurs as a 2D percolation transition at a critical hydration level, which is close to the values observed experimentally. The formation of a spanning 2D water network on a single rigid protein molecule can be described by adapting the cluster analysis of conventional percolation studies to the characterization of the connectivity of the hydration water on the surface of finite objects. Strong fluctuations of the surface water network are observed close to the percolation threshold. Our simulations also furnish a microscopic picture for understanding the specific values of the experimentally observed hydration levels, where different steps of increasing mobility in the hydrated powder are observed.

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Year:  2005        PMID: 16851183     DOI: 10.1021/jp045903j

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


  9 in total

1.  Influence of water clustering on the dynamics of hydration water at the surface of a lysozyme.

Authors:  Alla Oleinikova; Nikolai Smolin; Ivan Brovchenko
Journal:  Biophys J       Date:  2007-07-13       Impact factor: 4.033

2.  The effect of complex solvents on the structure and dynamics of protein solutions: The case of Lysozyme in trehalose/water mixtures.

Authors:  Pavan K GhattyVenkataKrishna; Gustavo A Carri
Journal:  Eur Phys J E Soft Matter       Date:  2013-02-14       Impact factor: 1.890

3.  Surface chemical heterogeneity modulates silica surface hydration.

Authors:  Alex M Schrader; Jacob I Monroe; Ryan Sheil; Howard A Dobbs; Timothy J Keller; Yuanxin Li; Sheetal Jain; M Scott Shell; Jacob N Israelachvili; Songi Han
Journal:  Proc Natl Acad Sci U S A       Date:  2018-03-05       Impact factor: 11.205

4.  Spatially Heterogeneous Surface Water Diffusivity around Structured Protein Surfaces at Equilibrium.

Authors:  Ryan Barnes; Sheng Sun; Yann Fichou; Frederick W Dahlquist; Matthias Heyden; Songi Han
Journal:  J Am Chem Soc       Date:  2017-11-27       Impact factor: 15.419

5.  Lysozyme in water-acetonitrile mixtures: Preferential solvation at the inner edge of excess hydration.

Authors:  Vladimir A Sirotkin; Alexandra A Kuchierskaya
Journal:  J Chem Phys       Date:  2017-06-07       Impact factor: 3.488

6.  Reconciling mediating and slaving roles of water in protein conformational dynamics.

Authors:  Li Zhao; Wenzhao Li; Pu Tian
Journal:  PLoS One       Date:  2013-04-11       Impact factor: 3.240

7.  Modeling structure and flexibility of Candida antarctica lipase B in organic solvents.

Authors:  Peter Trodler; Jürgen Pleiss
Journal:  BMC Struct Biol       Date:  2008-02-06

Review 8.  Insights into Protein-Ligand Interactions: Mechanisms, Models, and Methods.

Authors:  Xing Du; Yi Li; Yuan-Ling Xia; Shi-Meng Ai; Jing Liang; Peng Sang; Xing-Lai Ji; Shu-Qun Liu
Journal:  Int J Mol Sci       Date:  2016-01-26       Impact factor: 5.923

9.  Weighted persistent homology for osmolyte molecular aggregation and hydrogen-bonding network analysis.

Authors:  D Vijay Anand; Zhenyu Meng; Kelin Xia; Yuguang Mu
Journal:  Sci Rep       Date:  2020-06-16       Impact factor: 4.379

  9 in total

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