Water under the BAR.

Many cellular processes require the generation of highly curved regions of cell membranes by interfacial membrane proteins. A number of such proteins are now known, and several mechanisms of curvature generation have been suggested, but so far a quantitative understanding of the importance of the various potential mechanisms remains elusive. Following previous theoretical work, we consider the electrostatic attraction that underlies the scaffold mechanism of membrane bending in the context of the N-BAR domain of amphiphysin. Analysis of atomistic molecular dynamics simulations reveals considerable water between the membrane and the positively charged concave face of the BAR, even when it is tightly bound to highly curved membranes. This results in significant screening of electrostatic interactions, suggesting that electrostatic attraction is not the main driving force behind curvature sensing, supporting recent experimental work. These results also emphasize the need for care when building coarse-grained models of protein-membrane interactions. These results are emphasized by simulations of oligomerized amphiphysin N-BARs at the atomistic and coarse-grained level. In the coarse-grained simulations, we find a strong dependence of the induced curvature on the dielectric screening.

[1]  M. Kozlov,et al.  How Synaptotagmin Promotes Membrane Fusion , 2007, Science.

[2]  Alexander D. MacKerell,et al.  An Improved Empirical Potential Energy Function for Molecular Simulations of Phospholipids , 2000 .

[3]  K Schulten,et al.  VMD: visual molecular dynamics. , 1996, Journal of molecular graphics.

[4]  M. Kozlov,et al.  The hydrophobic insertion mechanism of membrane curvature generation by proteins. , 2008, Biophysical journal.

[5]  Michael M. Kozlov,et al.  How proteins produce cellular membrane curvature , 2006, Nature Reviews Molecular Cell Biology.

[6]  G. Voth,et al.  Hierarchical coarse-graining strategy for protein-membrane systems to access mesoscopic scales. , 2010, Faraday discussions.

[7]  Klaus Schulten,et al.  Four-scale description of membrane sculpting by BAR domains. , 2008, Biophysical journal.

[8]  Harvey T. McMahon,et al.  Membrane curvature and mechanisms of dynamic cell membrane remodelling , 2005, Nature.

[9]  N. Hatzakis,et al.  How curved membranes recruit amphipathic helices and protein anchoring motifs. , 2009, Nature chemical biology.

[10]  Laxmikant V. Kalé,et al.  Scalable molecular dynamics with NAMD , 2005, J. Comput. Chem..

[11]  Gregory A Voth,et al.  Membrane remodeling from N-BAR domain interactions: insights from multi-scale simulation. , 2007, Biophysical journal.

[12]  P. De Camilli,et al.  Generation of high curvature membranes mediated by direct endophilin bilayer interactions , 2001, The Journal of cell biology.

[13]  Adam Frost,et al.  Structural Basis of Membrane Invagination by F-BAR Domains , 2008, Cell.

[14]  Klaus Schulten,et al.  Membrane-bending mechanism of amphiphysin N-BAR domains. , 2009, Biophysical journal.

[15]  Kremer,et al.  Molecular dynamics simulation for polymers in the presence of a heat bath. , 1986, Physical review. A, General physics.

[16]  P. Camilli,et al.  Accessory factors in clathrin-dependent synaptic vesicle endocytosis , 2000, Nature Reviews Neuroscience.

[17]  Klaus Schulten,et al.  Simulations of membrane tubulation by lattices of amphiphysin N-BAR domains. , 2009, Structure.

[18]  U. Gether,et al.  Amphipathic motifs in BAR domains are essential for membrane curvature sensing , 2009, The EMBO journal.

[19]  Gregory A Voth,et al.  New insights into BAR domain-induced membrane remodeling. , 2009, Biophysical journal.

[20]  Manuel Prieto,et al.  Role of helix 0 of the N-BAR domain in membrane curvature generation. , 2008, Biophysical journal.

[21]  Gregory A. Voth,et al.  Direct observation of Bin/amphiphysin/Rvs (BAR) domain-induced membrane curvature by means of molecular dynamics simulations , 2006, Proceedings of the National Academy of Sciences.

[22]  B. Peter,et al.  BAR Domains as Sensors of Membrane Curvature: The Amphiphysin BAR Structure , 2004, Science.

[23]  Alexander D. MacKerell,et al.  All-atom empirical potential for molecular modeling and dynamics studies of proteins. , 1998, The journal of physical chemistry. B.

[24]  G. Drin,et al.  A general amphipathic α-helical motif for sensing membrane curvature , 2007, Nature Structural &Molecular Biology.

[25]  D. Tieleman,et al.  The MARTINI force field: coarse grained model for biomolecular simulations. , 2007, The journal of physical chemistry. B.

[26]  Berk Hess,et al.  Osmotic coefficients of atomistic NaCl (aq) force fields. , 2006, The Journal of chemical physics.

[27]  Dirk Reith,et al.  Deriving effective mesoscale potentials from atomistic simulations , 2002, J. Comput. Chem..

[28]  George Khelashvili,et al.  Modeling membrane deformations and lipid demixing upon protein-membrane interaction: the BAR dimer adsorption. , 2009, Biophysical journal.

[29]  Ian G. Mills,et al.  Curvature of clathrin-coated pits driven by epsin , 2002, Nature.

[30]  Gregory A Voth,et al.  Factors influencing local membrane curvature induction by N-BAR domains as revealed by molecular dynamics simulations. , 2008, Biophysical journal.

[31]  G. Ciccotti,et al.  Numerical Integration of the Cartesian Equations of Motion of a System with Constraints: Molecular Dynamics of n-Alkanes , 1977 .

[32]  B. Brooks,et al.  Constant pressure molecular dynamics simulation: The Langevin piston method , 1995 .

[33]  H. McMahon,et al.  Bar Domains and Membrane Curvature: Bringing Your Curves to the Bar , 2022 .

[34]  J. Zimmerberg,et al.  Membrane Curvature: How BAR Domains Bend Bilayers , 2004, Current Biology.

[35]  Soichi Takeda,et al.  Endophilin BAR domain drives membrane curvature by two newly identified structure‐based mechanisms , 2006, The EMBO journal.