Gating energetics of a voltage-dependent K(+) channel pore domain

Starek, Greg and Freites, J. Alfredo and Bernèche, Simon and Tobias, Douglas J.. (2017) Gating energetics of a voltage-dependent K(+) channel pore domain. Journal of Computational Chemistry, 38 (16). pp. 1472-1478.

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Official URL: http://edoc.unibas.ch/54796/

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We used targeted molecular dynamics, informed by experimentally determined inter-atomic distances defining the pore region of open and closed states of the KvAP voltage-gated potassium channel, to generate a gating pathway of the pore domain in the absence of the voltage-sensing domains. We then performed umbrella sampling simulations along this pathway to calculate a potential of mean force that describes the free energy landscape connecting the closed and open conformations of the pore domain. The resulting energetic landscape displays three minima, corresponding to stable open, closed, and intermediate conformations with roughly similar stabilities. We found that the extent of hydration of the interior of the pore domain could influence the free energy landscape for pore opening/closing. © 2017 Wiley Periodicals, Inc.
Faculties and Departments:05 Faculty of Science > Departement Biozentrum > Computational & Systems Biology > Bioinformatics (Schwede)
05 Faculty of Science > Departement Biozentrum > Former Organization Units Biozentrum > Computational Biophysics (Bernèche)
UniBasel Contributors:Bernèche, Simon and Starek, Gregory
Item Type:Article, refereed
Article Subtype:Research Article
Note:Publication type according to Uni Basel Research Database: Journal article
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Last Modified:13 Oct 2017 09:58
Deposited On:13 Oct 2017 09:58

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