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Potassium Channels pp 305–319Cite as

Building Atomic Models of the Ion Channels Based on Low Resolution Electron Microscopy Maps and Homology Modeling

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1684))

Abstract

Voltage-gated potassium channels play pivotal roles in excitable and non-excitable cells. For many decades, structural properties and molecular mechanisms of these channels were inferred from functional observations. At the turn of the twenty-first century, structural biology revealed major aspects in the structural basis of ion channel organization, permeation, and gating. Among the available tools, homology modeling associated with low resolution microscopy helps in delineating the different structural elements of voltage-gated channels. Here, we describe in detail the methodology of homology modeling, using the 3D structure of the Kv2.1ΔCTA ion channel as a reference.

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Acknowledgment

Olfat Malak wishes to personally thank Mrs. Line Pomaret for her generous support. The authors would like to thank Ms. Lisa Trifonova for proofreading the manuscript. This work was funded by the Kolmogorov program of the Partenariat Hubert Curien (35503SC) for Gildas Loussouarn and Olfat Malak. Olfat Malak is a laureate of the Line Pomaret-Delalande prize of the Fondation pour la Recherche Médicale (PLP20141031304; FRM). Molecular modeling experiments were supported by the Ministry of science and education of the Russian Federation (RFMEFI61615X0044).

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Authors and Affiliations

  1. Moscow M. V. Lomonosov State University, Leninskie gory, 1, Bldg. 12, Moscow, 119234, Russia

    Valery Novoseletsky & Olga S. Sokolova

  2. l’institut du thorax, Inserm, CNRS, Université de Nantes, Nantes, France

    Olfat A. Malak & Gildas Loussouarn

Authors
  1. Valery Novoseletsky
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  2. Olfat A. Malak
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  3. Gildas Loussouarn
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  4. Olga S. Sokolova
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Corresponding author

Correspondence to Olga S. Sokolova .

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Editors and Affiliations

  1. Department of Physiology and Pharmacology, Oregon Health and Science University, Portland, Oregon, USA

    Show-Ling Shyng

  2. Department of Physiology and Pharmacology, Oregon Health and Science University, Portland, Oregon, USA

    Francis I. Valiyaveetil

  3. The Vollum Institute, Oregon Health and Science University, Portland, Oregon, USA

    Matt Whorton

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Novoseletsky, V., Malak, O.A., Loussouarn, G., Sokolova, O.S. (2018). Building Atomic Models of the Ion Channels Based on Low Resolution Electron Microscopy Maps and Homology Modeling. In: Shyng, SL., Valiyaveetil, F., Whorton, M. (eds) Potassium Channels. Methods in Molecular Biology, vol 1684. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7362-0_23

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  • DOI: https://doi.org/10.1007/978-1-4939-7362-0_23

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  • Publisher Name: Humana Press, New York, NY

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