Literature DB >> 19486671

Statistical determinants of selective ionic complexation: ions in solvent, transport proteins, and other "hosts".

David L Bostick1, Charles L Brooks.   

Abstract

To provide utility in understanding the molecular evolution of ion-selective biomembrane channels/transporters, globular proteins, and ionophoric compounds, as well as in guiding their modification and design, we present a statistical mechanical basis for deconstructing the impact of the coordination structure and chemistry of selective multidentate ionic complexes. The deconstruction augments familiar ideas in liquid structure theory to realize the ionic complex as an open ion-ligated system acting under the influence of an "external field" provided by the host (or surrounding medium). Using considerations derived from this basis, we show that selective complexation arises from exploitation of a particular ion's coordination preferences. These preferences derive from a balance of interactions much like that which dictates the Hofmeister effect. By analyzing the coordination-state space of small family IA and VIIA ions in simulated fluid media, we derive domains of coordinated states that confer selectivity for a given ion upon isolating and constraining particular attributes (order parameters) of a complex comprised of a given type of ligand. We demonstrate that such domains may be used to rationalize the ion-coordinated environments provided by selective ionophores and biological ion channels/transporters of known structure, and that they can serve as a means toward deriving rational design principles for ion-selective hosts.

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Year:  2009        PMID: 19486671      PMCID: PMC2894556          DOI: 10.1016/j.bpj.2009.03.001

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  66 in total

1.  Energetic optimization of ion conduction rate by the K+ selectivity filter.

Authors:  J H Morais-Cabral; Y Zhou; R MacKinnon
Journal:  Nature       Date:  2001-11-01       Impact factor: 49.962

2.  Ion solvation thermodynamics from simulation with a polarizable force field.

Authors:  Alan Grossfield; Pengyu Ren; Jay W Ponder
Journal:  J Am Chem Soc       Date:  2003-12-17       Impact factor: 15.419

3.  The occupancy of ions in the K+ selectivity filter: charge balance and coupling of ion binding to a protein conformational change underlie high conduction rates.

Authors:  Yufeng Zhou; Roderick MacKinnon
Journal:  J Mol Biol       Date:  2003-11-07       Impact factor: 5.469

4.  The predominant role of coordination number in potassium channel selectivity.

Authors:  Michael Thomas; Dylan Jayatilaka; Ben Corry
Journal:  Biophys J       Date:  2007-06-15       Impact factor: 4.033

Review 5.  An introduction to molecular architecture and permeability of ion channels.

Authors:  G Eisenman; J A Dani
Journal:  Annu Rev Biophys Biophys Chem       Date:  1987

6.  Phospholipid vesicle aggregation: effect of monovalent and divalent ions.

Authors:  S Ohki; N Düzgüneş; K Leonards
Journal:  Biochemistry       Date:  1982-04-27       Impact factor: 3.162

7.  Simple allosteric model for membrane pumps.

Authors:  O Jardetzky
Journal:  Nature       Date:  1966-08-27       Impact factor: 49.962

8.  Charge density-dependent strength of hydration and biological structure.

Authors:  K D Collins
Journal:  Biophys J       Date:  1997-01       Impact factor: 4.033

9.  K+/Na+ selectivity in K channels and valinomycin: over-coordination versus cavity-size constraints.

Authors:  Sameer Varma; Dubravko Sabo; Susan B Rempe
Journal:  J Mol Biol       Date:  2007-11-28       Impact factor: 5.469

10.  Exterior site occupancy infers chloride-induced proton gating in a prokaryotic homolog of the ClC chloride channel.

Authors:  David L Bostick; Max L Berkowitz
Journal:  Biophys J       Date:  2004-09       Impact factor: 4.033

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  15 in total

1.  Exploring the ion selectivity properties of a large number of simplified binding site models.

Authors:  Benoît Roux
Journal:  Biophys J       Date:  2010-06-16       Impact factor: 4.033

2.  K+/Na+ selectivity in toy cation binding site models is determined by the 'host'.

Authors:  David L Bostick; Karunesh Arora; Charles L Brooks
Journal:  Biophys J       Date:  2009-05-20       Impact factor: 4.033

3.  Probing the thermodynamics of competitive ion binding using minimum energy structures.

Authors:  David M Rogers; Susan B Rempe
Journal:  J Phys Chem B       Date:  2011-07-01       Impact factor: 2.991

4.  Multiple Scales in the Simulation of Ion Channels and Proteins.

Authors:  Bob Eisenberg
Journal:  J Phys Chem C Nanomater Interfaces       Date:  2010-10-21       Impact factor: 4.126

5.  Dehydration and ionic conductance quantization in nanopores.

Authors:  Michael Zwolak; James Wilson; Massimiliano Di Ventra
Journal:  J Phys Condens Matter       Date:  2010-11-17       Impact factor: 2.333

6.  Ionizable side chains at catalytic active sites of enzymes.

Authors:  David Jimenez-Morales; Jie Liang; Bob Eisenberg
Journal:  Eur Biophys J       Date:  2012-04-07       Impact factor: 1.733

7.  Selective complexation of K+ and Na+ in simple polarizable ion-ligating systems.

Authors:  David L Bostick; Charles L Brooks
Journal:  J Am Chem Soc       Date:  2010-09-29       Impact factor: 15.419

8.  Ion binding sites and their representations by reduced models.

Authors:  Benoît Roux
Journal:  J Phys Chem B       Date:  2012-04-30       Impact factor: 2.991

9.  Ion selectivity from local configurations of ligands in solutions and ion channels.

Authors:  D Asthagiri; P D Dixit; S Merchant; M E Paulaitis; L R Pratt; S B Rempe; S Varma
Journal:  Chem Phys Lett       Date:  2010-01-18       Impact factor: 2.328

10.  An entropic mechanism of generating selective ion binding in macromolecules.

Authors:  Michael Thomas; Dylan Jayatilaka; Ben Corry
Journal:  PLoS Comput Biol       Date:  2013-02-28       Impact factor: 4.475

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