Literature DB >> 25738615

Interactions between Hofmeister anions and the binding pocket of a protein.

Jerome M Fox1, Kyungtae Kang1, Woody Sherman2, Annie Héroux3, G Madhavi Sastry4, Mostafa Baghbanzadeh1, Matthew R Lockett1, George M Whitesides1,5,6.   

Abstract

This paper uses the binding pocket of human carbonic anhydrase II (HCAII, EC 4.2.1.1) as a tool to examine the properties of Hofmeister anions that determine (i) where, and how strongly, they associate with concavities on the surfaces of proteins and (ii) how, upon binding, they alter the structure of water within those concavities. Results from X-ray crystallography and isothermal titration calorimetry show that most anions associate with the binding pocket of HCAII by forming inner-sphere ion pairs with the Zn(2+) cofactor. In these ion pairs, the free energy of anion-Zn(2+) association is inversely proportional to the free energetic cost of anion dehydration; this relationship is consistent with the mechanism of ion pair formation suggested by the "law of matching water affinities". Iodide and bromide anions also associate with a hydrophobic declivity in the wall of the binding pocket. Molecular dynamics simulations suggest that anions, upon associating with Zn(2+), trigger rearrangements of water that extend up to 8 Å away from their surfaces. These findings expand the range of interactions previously thought to occur between ions and proteins by suggesting that (i) weakly hydrated anions can bind complementarily shaped hydrophobic declivities, and that (ii) ion-induced rearrangements of water within protein concavities can (in contrast with similar rearrangements in bulk water) extend well beyond the first hydration shells of the ions that trigger them. This study paints a picture of Hofmeister anions as a set of structurally varied ligands that differ in size, shape, and affinity for water and, thus, in their ability to bind to—and to alter the charge and hydration structure of—polar, nonpolar, and topographically complex concavities on the surfaces of proteins.

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Year:  2015        PMID: 25738615      PMCID: PMC6554743          DOI: 10.1021/jacs.5b00187

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


  25 in total

Review 1.  Thermodynamics of protein-ligand interactions as a reference for computational analysis: how to assess accuracy, reliability and relevance of experimental data.

Authors:  Stefan G Krimmer; Gerhard Klebe
Journal:  J Comput Aided Mol Des       Date:  2015-09-16       Impact factor: 3.686

2.  Structural Basis for Different Substrate Profiles of Two Closely Related Class D β-Lactamases and Their Inhibition by Halogens.

Authors:  Vlatko Stojanoski; Dar-Chone Chow; Bartlomiej Fryszczyn; Liya Hu; Patrice Nordmann; Laurent Poirel; Banumathi Sankaran; B V Venkataram Prasad; Timothy Palzkill
Journal:  Biochemistry       Date:  2015-05-14       Impact factor: 3.162

Review 3.  Relationship between Solvation Thermodynamics from IST and DFT Perspectives.

Authors:  Ronald M Levy; Di Cui; Bin W Zhang; Nobuyuki Matubayasi
Journal:  J Phys Chem B       Date:  2017-02-28       Impact factor: 2.991

Review 4.  Collaborative routes to clarifying the murky waters of aqueous supramolecular chemistry.

Authors:  Paul S Cremer; Amar H Flood; Bruce C Gibb; David L Mobley
Journal:  Nat Chem       Date:  2017-12-19       Impact factor: 24.427

5.  Ion-induced alterations of the local hydration environment elucidate Hofmeister effect in a simple classical model of Trp-cage miniprotein.

Authors:  Z Násztor; A Dér; F Bogár
Journal:  J Mol Model       Date:  2017-09-27       Impact factor: 1.810

6.  Modular Fabrication of Intelligent Material-Tissue Interfaces for Bioinspired and Biomimetic Devices.

Authors:  John R Clegg; Angela M Wagner; Su Ryon Shin; Shabir Hassan; Ali Khademhosseini; Nicholas A Peppas
Journal:  Prog Mater Sci       Date:  2019-07-17

7.  The Effect of Salts in Promoting Specific and Competitive Interactions between Zinc Finger Proteins and Metals.

Authors:  Gongyu Li; Siming Yuan; Shihui Zheng; Yuting Chen; Zhen Zheng; Yangzhong Liu; Guangming Huang
Journal:  J Am Soc Mass Spectrom       Date:  2017-09-08       Impact factor: 3.109

8.  Binding Hydrated Anions with Hydrophobic Pockets.

Authors:  Punidha Sokkalingam; Joshua Shraberg; Steven W Rick; Bruce C Gibb
Journal:  J Am Chem Soc       Date:  2015-12-24       Impact factor: 15.419

9.  Solvation thermodynamic mapping of molecular surfaces in AmberTools: GIST.

Authors:  Steven Ramsey; Crystal Nguyen; Romelia Salomon-Ferrer; Ross C Walker; Michael K Gilson; Tom Kurtzman
Journal:  J Comput Chem       Date:  2016-06-18       Impact factor: 3.376

Review 10.  Molecular Shape and the Hydrophobic Effect.

Authors:  Matthew B Hillyer; Bruce C Gibb
Journal:  Annu Rev Phys Chem       Date:  2016-05-27       Impact factor: 12.703

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