Literature DB >> 17513348

Tuning ion coordination architectures to enable selective partitioning.

Sameer Varma1, Susan B Rempe.   

Abstract

K+ ions seemingly permeate K-channels rapidly because channel binding sites mimic coordination of K+ ions in water. Highly selective ion discrimination should occur when binding sites form rigid cavities that match K+, but not the smaller Na+, ion size or when binding sites are composed of specific chemical groups. Although conceptually attractive, these views cannot account for critical observations: 1), K+ hydration structures differ markedly from channel binding sites; 2), channel thermal fluctuations can obscure sub-Angström differences in ion sizes; and 3), chemically identical binding sites can exhibit diverse ion selectivities. Our quantum mechanical studies lead to a novel paradigm that reconciles these observations. We find that K-channels utilize a "phase-activated" mechanism where the local environment around the binding sites is tuned to sustain high coordination numbers (>6) around K+ ions, which otherwise are rarely observed in liquid water. When combined with the field strength of carbonyl ligands, such high coordinations create the electrical scenario necessary for rapid and selective K+ partitioning. Specific perturbations to the local binding site environment with respect to strongly selective K-channels result in altered K+/Na+ selectivities.

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Year:  2007        PMID: 17513348      PMCID: PMC1929028          DOI: 10.1529/biophysj.107.107482

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


  16 in total

1.  Chemistry of ion coordination and hydration revealed by a K+ channel-Fab complex at 2.0 A resolution.

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

2.  See potassium run.

Authors:  C Miller
Journal:  Nature       Date:  2001-11-01       Impact factor: 49.962

3.  Crystal structure of the potassium channel KirBac1.1 in the closed state.

Authors:  Anling Kuo; Jacqueline M Gulbis; Jennifer F Antcliff; Tahmina Rahman; Edward D Lowe; Jochen Zimmer; Jonathan Cuthbertson; Frances M Ashcroft; Takayuki Ezaki; Declan A Doyle
Journal:  Science       Date:  2003-05-08       Impact factor: 47.728

4.  Density functional theory investigations on the chemical basis of the selectivity filter in the K+ channel protein.

Authors:  Fuqiang Ban; Peter Kusalik; Donald F Weaver
Journal:  J Am Chem Soc       Date:  2004-04-14       Impact factor: 15.419

5.  Evolving potassium channels by means of yeast selection reveals structural elements important for selectivity.

Authors:  Delphine Bichet; Yu-Fung Lin; Christian A Ibarra; Cindy Shen Huang; B Alexander Yi; Yuh Nung Jan; Lily Yeh Jan
Journal:  Proc Natl Acad Sci U S A       Date:  2004-03-22       Impact factor: 11.205

Review 6.  Coordination numbers of alkali metal ions in aqueous solutions.

Authors:  Sameer Varma; Susan B Rempe
Journal:  Biophys Chem       Date:  2006-07-27       Impact factor: 2.352

Review 7.  Importance of hydration and dynamics on the selectivity of the KcsA and NaK channels.

Authors:  Sergei Yu Noskov; Benoît Roux
Journal:  J Gen Physiol       Date:  2007-01-16       Impact factor: 4.086

8.  Atomic structure of a Na+- and K+-conducting channel.

Authors:  Ning Shi; Sheng Ye; Amer Alam; Liping Chen; Youxing Jiang
Journal:  Nature       Date:  2006-02-08       Impact factor: 49.962

9.  Electrostatic interactions in the channel cavity as an important determinant of potassium channel selectivity.

Authors:  Delphine Bichet; Michael Grabe; Yuh Nung Jan; Lily Yeh Jan
Journal:  Proc Natl Acad Sci U S A       Date:  2006-09-18       Impact factor: 11.205

10.  Negative conductance caused by entry of sodium and cesium ions into the potassium channels of squid axons.

Authors:  F Bezanilla; C M Armstrong
Journal:  J Gen Physiol       Date:  1972-11       Impact factor: 4.086

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  64 in total

1.  On the selective ion binding hypothesis for potassium channels.

Authors:  Ilsoo Kim; Toby W Allen
Journal:  Proc Natl Acad Sci U S A       Date:  2011-10-19       Impact factor: 11.205

2.  Coordination numbers of K(+) and Na(+) Ions inside the selectivity filter of the KcsA potassium channel: insights from first principles molecular dynamics.

Authors:  Denis Bucher; Leonardo Guidoni; Paolo Carloni; Ursula Rothlisberger
Journal:  Biophys J       Date:  2010-05-19       Impact factor: 4.033

3.  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

4.  Two mechanisms of ion selectivity in protein binding sites.

Authors:  Haibo Yu; Sergei Yu Noskov; Benoît Roux
Journal:  Proc Natl Acad Sci U S A       Date:  2010-11-05       Impact factor: 11.205

5.  Assessing the accuracy of approximate treatments of ion hydration based on primitive quasichemical theory.

Authors:  Benoît Roux; Haibo Yu
Journal:  J Chem Phys       Date:  2010-06-21       Impact factor: 3.488

6.  Multibody effects in ion binding and selectivity.

Authors:  Sameer Varma; Susan B Rempe
Journal:  Biophys J       Date:  2010-11-17       Impact factor: 4.033

7.  Mapping the importance of four factors in creating monovalent ion selectivity in biological molecules.

Authors:  Michael Thomas; Dylan Jayatilaka; Ben Corry
Journal:  Biophys J       Date:  2011-01-05       Impact factor: 4.033

8.  Tuning the ion selectivity of tetrameric cation channels by changing the number of ion binding sites.

Authors:  Mehabaw G Derebe; David B Sauer; Weizhong Zeng; Amer Alam; Ning Shi; Youxing Jiang
Journal:  Proc Natl Acad Sci U S A       Date:  2010-12-27       Impact factor: 11.205

Review 9.  Structural correlates of selectivity and inactivation in potassium channels.

Authors:  Jason G McCoy; Crina M Nimigean
Journal:  Biochim Biophys Acta       Date:  2011-09-16

10.  Structural transitions in ion coordination driven by changes in competition for ligand binding.

Authors:  Sameer Varma; Susan B Rempe
Journal:  J Am Chem Soc       Date:  2008-10-28       Impact factor: 15.419

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