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      Mechanisms of KCNQ1 channel dysfunction in long QT syndrome involving voltage sensor domain mutations

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          Abstract

          Long QT syndrome–associated mutations in KCNQ1 most often destabilize the protein, leading to mistrafficking and degradation.

          Abstract

          Mutations that induce loss of function (LOF) or dysfunction of the human KCNQ1 channel are responsible for susceptibility to a life-threatening heart rhythm disorder, the congenital long QT syndrome (LQTS). Hundreds of KCNQ1 mutations have been identified, but the molecular mechanisms responsible for impaired function are poorly understood. We investigated the impact of 51 KCNQ1 variants with mutations located within the voltage sensor domain (VSD), with an emphasis on elucidating effects on cell surface expression, protein folding, and structure. For each variant, the efficiency of trafficking to the plasma membrane, the impact of proteasome inhibition, and protein stability were assayed. The results of these experiments combined with channel functional data provided the basis for classifying each mutation into one of six mechanistic categories, highlighting heterogeneity in the mechanisms resulting in channel dysfunction or LOF. More than half of the KCNQ1 LOF mutations examined were seen to destabilize the structure of the VSD, generally accompanied by mistrafficking and degradation by the proteasome, an observation that underscores the growing appreciation that mutation-induced destabilization of membrane proteins may be a common human disease mechanism. Finally, we observed that five of the folding-defective LQTS mutant sites are located in the VSD S0 helix, where they interact with a number of other LOF mutation sites in other segments of the VSD. These observations reveal a critical role for the S0 helix as a central scaffold to help organize and stabilize the KCNQ1 VSD and, most likely, the corresponding domain of many other ion channels.

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          Most cited references48

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          ROSETTA3: an object-oriented software suite for the simulation and design of macromolecules.

          We have recently completed a full re-architecturing of the ROSETTA molecular modeling program, generalizing and expanding its existing functionality. The new architecture enables the rapid prototyping of novel protocols by providing easy-to-use interfaces to powerful tools for molecular modeling. The source code of this rearchitecturing has been released as ROSETTA3 and is freely available for academic use. At the time of its release, it contained 470,000 lines of code. Counting currently unpublished protocols at the time of this writing, the source includes 1,285,000 lines. Its rapid growth is a testament to its ease of use. This chapter describes the requirements for our new architecture, justifies the design decisions, sketches out central classes, and highlights a few of the common tasks that the new software can perform. © 2011 Elsevier Inc. All rights reserved.
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            Structure of the TRPV1 ion channel determined by electron cryo-microscopy

            Transient receptor potential (TRP) channels are sensors for a wide range of cellular and environmental signals, but elucidating how these channels respond to physical and chemical stimuli has been hampered by a lack of detailed structural information. Here, we exploit advances in electron cryo-microscopy to determine the structure of a mammalian TRP channel, TRPV1, at 3.4Å resolution, breaking the side-chain resolution barrier for membrane proteins without crystallization. Like voltage-gated channels, TRPV1 exhibits four-fold symmetry around a central ion pathway formed by transmembrane helices S5–S6 and the intervening pore loop, which is flanked by S1–S4 voltage sensor-like domains. TRPV1 has a wide extracellular ‘mouth’ with short selectivity filter. The conserved ‘TRP domain’ interacts with the S4–S5 linker, consistent with its contribution to allosteric modulation. Subunit organization is facilitated by interactions among cytoplasmic domains, including N-terminal ankyrin repeats. These observations provide a structural blueprint for understanding unique aspects of TRP channel function.
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              Lipid14: The Amber Lipid Force Field

              The AMBER lipid force field has been updated to create Lipid14, allowing tensionless simulation of a number of lipid types with the AMBER MD package. The modular nature of this force field allows numerous combinations of head and tail groups to create different lipid types, enabling the easy insertion of new lipid species. The Lennard-Jones and torsion parameters of both the head and tail groups have been revised and updated partial charges calculated. The force field has been validated by simulating bilayers of six different lipid types for a total of 0.5 μs each without applying a surface tension; with favorable comparison to experiment for properties such as area per lipid, volume per lipid, bilayer thickness, NMR order parameters, scattering data, and lipid lateral diffusion. As the derivation of this force field is consistent with the AMBER development philosophy, Lipid14 is compatible with the AMBER protein, nucleic acid, carbohydrate, and small molecule force fields.
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                Author and article information

                Journal
                Sci Adv
                Sci Adv
                SciAdv
                advances
                Science Advances
                American Association for the Advancement of Science
                2375-2548
                March 2018
                07 March 2018
                : 4
                : 3
                : eaar2631
                Affiliations
                [1 ]Department of Biochemistry, Vanderbilt University, Nashville, TN 37240, USA.
                [2 ]Center for Structural Biology, Vanderbilt University, Nashville, TN 37240, USA.
                [3 ]Department of Chemistry, Vanderbilt University, Nashville, TN 37235, USA.
                [4 ]Department of Pharmacology, Vanderbilt University, Nashville, TN 37240, USA.
                [5 ]Department of Bioinformatics, Vanderbilt University Medical Center, Nashville, TN 37232, USA.
                [6 ]Department of Pharmacology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA.
                [7 ]Department of Medicine, Vanderbilt University Medical Center, Nashville, TN 37232, USA.
                Author notes
                [* ]Corresponding author. Email: chuck.sanders@ 123456vanderbilt.edu
                Author information
                http://orcid.org/0000-0003-2958-257X
                http://orcid.org/0000-0003-1799-346X
                http://orcid.org/0000-0003-0895-2922
                http://orcid.org/0000-0002-2885-2964
                http://orcid.org/0000-0003-2305-1049
                http://orcid.org/0000-0001-5758-9328
                http://orcid.org/0000-0003-2046-2862
                Article
                aar2631
                10.1126/sciadv.aar2631
                5842040
                29532034
                53efd9ba-bcdf-4195-94ec-b5e37c37de97
                Copyright © 2018 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works. Distributed under a Creative Commons Attribution NonCommercial License 4.0 (CC BY-NC).

                This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial license, which permits use, distribution, and reproduction in any medium, so long as the resultant use is not for commercial advantage and provided the original work is properly cited.

                History
                : 19 October 2017
                : 02 February 2018
                Funding
                Funded by: doi http://dx.doi.org/10.13039/100000001, National Science Foundation;
                Award ID: DBI-0922862
                Funded by: doi http://dx.doi.org/10.13039/100000002, National Institutes of Health;
                Award ID: RO1 HL122010
                Funded by: doi http://dx.doi.org/10.13039/100000002, National Institutes of Health;
                Award ID: F32 GM117770
                Funded by: doi http://dx.doi.org/10.13039/100000002, National Institutes of Health;
                Award ID: T32 NS00749
                Funded by: doi http://dx.doi.org/10.13039/100000002, National Institutes of Health;
                Award ID: NIH S10 RR026677
                Funded by: doi http://dx.doi.org/10.13039/100000002, National Institutes of Health;
                Award ID: S10 OD020154
                Funded by: doi http://dx.doi.org/10.13039/100000002, National Institutes of Health;
                Award ID: S10 RR031634
                Funded by: German Research Foundation;
                Award ID: KU 3510/1-1
                Categories
                Research Article
                Research Articles
                SciAdv r-articles
                Biochemistry
                Biophysics
                Biochemistry
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