Literature DB >> 25418297

Free energy landscape of rim-pore expansion in membrane fusion.

Herre Jelger Risselada1, Yuliya Smirnova2, Helmut Grubmüller3.   

Abstract

The productive fusion pore in membrane fusion is generally thought to be toroidally shaped. Theoretical studies and recent experiments suggest that its formation, in some scenarios, may be preceded by an initial pore formed near the rim of the extended hemifusion diaphragm (HD), a rim-pore. This rim-pore is characterized by a nontoroidal shape that changes with size. To determine this shape as well as the free energy along the pathway of rim-pore expansion, we derived a simple analytical free energy model. We argue that dilation of HD material via expansion of a rim-pore is favored over a regular, circular pore. Further, the expanding rim-pore faces a free energy barrier that linearly increases with HD size. In contrast, the tension required to expand the rim-pore decreases with HD size. Pore flickering, followed by sudden opening, occurs when the tension in the HD competes with the line energy of the rim-pore, and the rim-pore reaches its equilibrium size before reaching the critical pore size. The experimental observation of flickering and closing fusion pores (kiss-and-run) is very well explained by the observed behavior of rim-pores. Finally, the free energy landscape of rim-pore expansion/HD dilation may very well explain why some cellular fusion reactions, in their attempt to minimize energetic costs, progress via alternative formation and dilation of microscopic hemifusion intermediates.

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Year:  2014        PMID: 25418297      PMCID: PMC4241460          DOI: 10.1016/j.bpj.2014.08.022

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


  33 in total

1.  Vacuole fusion at a ring of vertex docking sites leaves membrane fragments within the organelle.

Authors:  Li Wang; E Scott Seeley; William Wickner; Alexey J Merz
Journal:  Cell       Date:  2002-02-08       Impact factor: 41.582

2.  The hemifused state on the pathway to membrane fusion.

Authors:  Jason M Warner; Ben O'Shaughnessy
Journal:  Phys Rev Lett       Date:  2012-04-23       Impact factor: 9.161

3.  Nucleation free energy of pore formation in an amphiphilic bilayer studied by molecular dynamics simulations.

Authors:  T V Tolpekina; W K den Otter; W J Briels
Journal:  J Chem Phys       Date:  2004-12-15       Impact factor: 3.488

4.  Field theoretic study of bilayer membrane fusion: II. Mechanism of a stalk-hole complex.

Authors:  K Katsov; M Müller; M Schick
Journal:  Biophys J       Date:  2005-11-04       Impact factor: 4.033

5.  The MARTINI force field: coarse grained model for biomolecular simulations.

Authors:  Siewert J Marrink; H Jelger Risselada; Serge Yefimov; D Peter Tieleman; Alex H de Vries
Journal:  J Phys Chem B       Date:  2007-06-15       Impact factor: 2.991

6.  Vesicle deformation by draining: geometrical and topological shape changes.

Authors:  A J Markvoort; P Spijker; A F Smeijers; K Pieterse; R A van Santen; P A J Hilbers
Journal:  J Phys Chem B       Date:  2009-06-25       Impact factor: 2.991

7.  Caught in the act: visualization of SNARE-mediated fusion events in molecular detail.

Authors:  Herre Jelger Risselada; Carsten Kutzner; Helmut Grubmüller
Journal:  Chembiochem       Date:  2011-03-23       Impact factor: 3.164

Review 8.  Membrane fusion: five lipids, four SNAREs, three chaperones, two nucleotides, and a Rab, all dancing in a ring on yeast vacuoles.

Authors:  William Wickner
Journal:  Annu Rev Cell Dev Biol       Date:  2010       Impact factor: 13.827

9.  Teardrop shapes minimize bending energy of fusion pores connecting planar bilayers.

Authors:  Rolf J Ryham; Mark A Ward; Fredric S Cohen
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2013-12-02

Review 10.  Perspectives on kiss-and-run: role in exocytosis, endocytosis, and neurotransmission.

Authors:  AbdulRasheed A Alabi; Richard W Tsien
Journal:  Annu Rev Physiol       Date:  2013       Impact factor: 19.318

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  10 in total

1.  The Interaction between Influenza HA Fusion Peptide and Transmembrane Domain Affects Membrane Structure.

Authors:  Alex L Lai; Jack H Freed
Journal:  Biophys J       Date:  2015-12-15       Impact factor: 4.033

2.  Multiscale Simulations of Biological Membranes: The Challenge To Understand Biological Phenomena in a Living Substance.

Authors:  Giray Enkavi; Matti Javanainen; Waldemar Kulig; Tomasz Róg; Ilpo Vattulainen
Journal:  Chem Rev       Date:  2019-03-12       Impact factor: 60.622

3.  SNARE-mediated membrane fusion arrests at pore expansion to regulate the volume of an organelle.

Authors:  Massimo D'Agostino; Herre Jelger Risselada; Laura J Endter; Véronique Comte-Miserez; Andreas Mayer
Journal:  EMBO J       Date:  2018-08-17       Impact factor: 11.598

Review 4.  Protein-lipid interactions critical to replication of the influenza A virus.

Authors:  Petr Chlanda; Joshua Zimmerberg
Journal:  FEBS Lett       Date:  2016-03-30       Impact factor: 4.124

5.  Calculating Transition Energy Barriers and Characterizing Activation States for Steps of Fusion.

Authors:  Rolf J Ryham; Thomas S Klotz; Lihan Yao; Fredric S Cohen
Journal:  Biophys J       Date:  2016-03-08       Impact factor: 4.033

Review 6.  Computational Modeling of Realistic Cell Membranes.

Authors:  Siewert J Marrink; Valentina Corradi; Paulo C T Souza; Helgi I Ingólfsson; D Peter Tieleman; Mark S P Sansom
Journal:  Chem Rev       Date:  2019-01-09       Impact factor: 72.087

7.  Sequential Water and Headgroup Merger: Membrane Poration Paths and Energetics from MD Simulations.

Authors:  Greg Bubnis; Helmut Grubmüller
Journal:  Biophys J       Date:  2020-11-13       Impact factor: 4.033

Review 8.  How proteins open fusion pores: insights from molecular simulations.

Authors:  H Jelger Risselada; Helmut Grubmüller
Journal:  Eur Biophys J       Date:  2020-12-19       Impact factor: 1.733

Review 9.  SNARE-Mediated Exocytosis in Neuronal Development.

Authors:  Fabio L Urbina; Stephanie L Gupton
Journal:  Front Mol Neurosci       Date:  2020-08-07       Impact factor: 5.639

Review 10.  Molecular dynamics simulations of membrane proteins and their interactions: from nanoscale to mesoscale.

Authors:  Matthieu Chavent; Anna L Duncan; Mark Sp Sansom
Journal:  Curr Opin Struct Biol       Date:  2016-06-21       Impact factor: 7.786

  10 in total

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