Literature DB >> 32724265

'KMC-TDGL'-a coarse-grained methodology for simulating interfacial dynamics in complex fluids: application to protein-mediated membrane processes.

J Weinstein1, R Radhakrishnan1.   

Abstract

In this article, we describe a new multiscale simulation algorithm (which we term the 'KMC-TDGL' method) applicable for the description of equilibrium and dynamic processes associated with a particular class of complex fluids with nanoscale inclusions, namely, biological membranes mediated by membrane-associating and membrane-bound proteins. We adopt a novel strategy of integrating two different phenomenological approaches, namely, a field theoretic (continuum) description for the membrane dynamics given by the time-dependent Ginzburg-Landau equation and a random walk on a discretized lattice description for protein diffusion dynamics. We illustrate that this integrated approach results in a unified description of protein-mediated membrane dynamics.

Year:  2006        PMID: 32724265      PMCID: PMC7386820          DOI: 10.1080/00268970600997580

Source DB:  PubMed          Journal:  Mol Phys        ISSN: 0026-8976            Impact factor:   1.962


  37 in total

1.  Unbinding transitions and phase separation of multicomponent membranes.

Authors:  T R Weikl; R R Netz; R Lipowsky
Journal:  Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics       Date:  2000-07

2.  Membrane transport: the making of a vesicle.

Authors:  Anne A Schmidt
Journal:  Nature       Date:  2002-09-26       Impact factor: 49.962

3.  Molecular view of hexagonal phase formation in phospholipid membranes.

Authors:  Siewert-Jan Marrink; Alan E Mark
Journal:  Biophys J       Date:  2004-09-17       Impact factor: 4.033

4.  Impedance analysis of lipid domains in phosphatidylcholine bilayer membranes containing ergosterol.

Authors:  Monika Naumowicz; Zbigniew A Figaszewski
Journal:  Biophys J       Date:  2005-08-26       Impact factor: 4.033

5.  Membrane elasticity in giant vesicles with fluid phase coexistence.

Authors:  T Baumgart; S Das; W W Webb; J T Jenkins
Journal:  Biophys J       Date:  2005-05-13       Impact factor: 4.033

Review 6.  The synapse assembly model.

Authors:  Sung-Joo E Lee; Yuko Hori; Jay T Groves; Michael L Dustin; Arup K Chakraborty
Journal:  Trends Immunol       Date:  2002-10       Impact factor: 16.687

Review 7.  Correlation of a dynamic model for immunological synapse formation with effector functions: two pathways to synapse formation.

Authors:  Sung-Joo E Lee; Yuko Hori; Jay T Groves; Michael L Dustin; Arup K Chakraborty
Journal:  Trends Immunol       Date:  2002-10       Impact factor: 16.687

8.  Bending a membrane: how clathrin affects budding.

Authors:  Lars Hinrichsen; Anika Meyerholz; Stephanie Groos; Ernst J Ungewickell
Journal:  Proc Natl Acad Sci U S A       Date:  2006-05-30       Impact factor: 11.205

9.  Contrasting membrane interaction mechanisms of AP180 N-terminal homology (ANTH) and epsin N-terminal homology (ENTH) domains.

Authors:  Robert V Stahelin; Fei Long; Brian J Peter; Diana Murray; Pietro De Camilli; Harvey T McMahon; Wonhwa Cho
Journal:  J Biol Chem       Date:  2003-05-08       Impact factor: 5.157

10.  Mixed bilayer containing dipalmitoylphosphatidylcholine and dipalmitoylphosphatidylserine: lipid complexation, ion binding, and electrostatics.

Authors:  Sagar A Pandit; David Bostick; Max L Berkowitz
Journal:  Biophys J       Date:  2003-11       Impact factor: 4.033

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  3 in total

1.  Nonaxisymmetric Shapes of Biological Membranes from Locally Induced Curvature.

Authors:  Yannick A D Omar; Amaresh Sahu; Roger A Sauer; Kranthi K Mandadapu
Journal:  Biophys J       Date:  2020-07-31       Impact factor: 4.033

2.  Multiscale computational models in physical systems biology of intracellular trafficking.

Authors:  Richard W Tourdot; Ryan P Bradley; Natesan Ramakrishnan; Ravi Radhakrishnan
Journal:  IET Syst Biol       Date:  2014-10       Impact factor: 1.615

3.  Quantification of Curvature Sensing Behavior of Curvature-Inducing Proteins on Model Wavy Substrates.

Authors:  Richard W Tourdot; N Ramakrishnan; Kshitiz Parihar; Ravi Radhakrishnan
Journal:  J Membr Biol       Date:  2022-03-25       Impact factor: 1.843

  3 in total

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