Literature DB >> 21806935

Membrane tension, lipid adaptation, conformational changes, and energetics in MscL gating.

Huan Rui1, Ritesh Kumar, Wonpil Im.   

Abstract

This study aims to explore gating mechanisms of mechanosensitive channels in terms of membrane tension, membrane adaptation, protein conformation, and energetics. The large conductance mechanosensitive channel from Mycobacterium tuberculosis (Tb-MscL) is used as a model system; Tb-MscL acts as a safety valve by releasing small osmolytes through the channel opening under extreme hypoosmotic conditions. Based on the assumption that the channel gating involves tilting of the transmembrane (TM) helices, we have performed free energy simulations of Tb-MscL as a function of TM helix tilt angle in a dimyristoylphosphatidylcholine bilayer. Based on the change in system dimensions, TM helix tilting is shown to be essentially equivalent to applying an excess surface tension to the membrane, causing channel expansion, lipid adaptation, and membrane thinning. Such equivalence is further corroborated by the observation that the free energy cost of Tb-MscL channel expansion is comparable to the work done by the excess surface tension. Tb-MscL TM helix tilting results in an expanded water-conducting channel of an outer dimension similar to the proposed fully open MscL structure. The free energy decomposition indicates a possible expansion mechanism in which tilting and expanding of TM2 facilitates the iris-like motion of TM1, producing an expanded Tb-MscL.
Copyright © 2011 Biophysical Society. Published by Elsevier Inc. All rights reserved.

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Year:  2011        PMID: 21806935      PMCID: PMC3145278          DOI: 10.1016/j.bpj.2011.06.029

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


  42 in total

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Journal:  Nature       Date:  2001-02-08       Impact factor: 49.962

2.  Open channel structure of MscL and the gating mechanism of mechanosensitive channels.

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Journal:  Nature       Date:  2002-08-29       Impact factor: 49.962

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Journal:  Phys Rev Lett       Date:  1990-04-23       Impact factor: 9.161

4.  CHARMM-GUI: a web-based graphical user interface for CHARMM.

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Journal:  J Comput Chem       Date:  2008-08       Impact factor: 3.376

Review 5.  CHARMM: the biomolecular simulation program.

Authors:  B R Brooks; C L Brooks; A D Mackerell; L Nilsson; R J Petrella; B Roux; Y Won; G Archontis; C Bartels; S Boresch; A Caflisch; L Caves; Q Cui; A R Dinner; M Feig; S Fischer; J Gao; M Hodoscek; W Im; K Kuczera; T Lazaridis; J Ma; V Ovchinnikov; E Paci; R W Pastor; C B Post; J Z Pu; M Schaefer; B Tidor; R M Venable; H L Woodcock; X Wu; W Yang; D M York; M Karplus
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Journal:  Biochemistry       Date:  2005-09-13       Impact factor: 3.162

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Journal:  Nat Struct Biol       Date:  2002-09

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Journal:  Biophys J       Date:  1993-07       Impact factor: 4.033

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  10 in total

1.  Solid-State NMR-Restrained Ensemble Dynamics of a Membrane Protein in Explicit Membranes.

Authors:  Xi Cheng; Sunhwan Jo; Yifei Qi; Francesca M Marassi; Wonpil Im
Journal:  Biophys J       Date:  2015-04-21       Impact factor: 4.033

2.  Characterization of Lipid-Protein Interactions and Lipid-Mediated Modulation of Membrane Protein Function through Molecular Simulation.

Authors:  Melanie P Muller; Tao Jiang; Chang Sun; Muyun Lihan; Shashank Pant; Paween Mahinthichaichan; Anda Trifan; Emad Tajkhorshid
Journal:  Chem Rev       Date:  2019-04-12       Impact factor: 60.622

3.  The gating mechanism of the bacterial mechanosensitive channel MscL revealed by molecular dynamics simulations: from tension sensing to channel opening.

Authors:  Yasuyuki Sawada; Masaki Murase; Masahiro Sokabe
Journal:  Channels (Austin)       Date:  2012 Jul-Aug       Impact factor: 2.581

4.  Elucidating the molecular basis of spontaneous activation in an engineered mechanosensitive channel.

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Journal:  Comput Struct Biotechnol J       Date:  2022-05-23       Impact factor: 6.155

5.  E. coli outer membrane and interactions with OmpLA.

Authors:  Emilia L Wu; Patrick J Fleming; Min Sun Yeom; Göran Widmalm; Jeffery B Klauda; Karen G Fleming; Wonpil Im
Journal:  Biophys J       Date:  2014-06-03       Impact factor: 4.033

6.  Structural investigation of MscL gating using experimental data and coarse grained MD simulations.

Authors:  Evelyne Deplazes; Martti Louhivuori; Dylan Jayatilaka; Siewert J Marrink; Ben Corry
Journal:  PLoS Comput Biol       Date:  2012-09-20       Impact factor: 4.475

7.  High-Throughput Simulations Reveal Membrane-Mediated Effects of Alcohols on MscL Gating.

Authors:  Manuel N Melo; Clément Arnarez; Hendrik Sikkema; Neeraj Kumar; Martin Walko; Herman J C Berendsen; Armagan Kocer; Siewert J Marrink; Helgi I Ingólfsson
Journal:  J Am Chem Soc       Date:  2017-02-10       Impact factor: 15.419

8.  Voltage vs. Ligand I: Structural basis of the intrinsic flexibility of S3 segment and its significance in ion channel activation.

Authors:  Daniel Balleza; Mario E Rosas; Sergio Romero-Romero
Journal:  Channels (Austin)       Date:  2019-12       Impact factor: 2.581

9.  How Tolerant are Membrane Simulations with Mismatch in Area per Lipid between Leaflets?

Authors:  Soohyung Park; Andrew H Beaven; Jeffery B Klauda; Wonpil Im
Journal:  J Chem Theory Comput       Date:  2015-07-14       Impact factor: 6.006

10.  The power of coarse graining in biomolecular simulations.

Authors:  Helgi I Ingólfsson; Cesar A Lopez; Jaakko J Uusitalo; Djurre H de Jong; Srinivasa M Gopal; Xavier Periole; Siewert J Marrink
Journal:  Wiley Interdiscip Rev Comput Mol Sci       Date:  2014-05
  10 in total

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