Hydrodynamics of Diffusion in Lipid Membrane Simulations

Physical Review Letters
Martin VögeleGerhard Hummer

Abstract

By performing molecular dynamics simulations with up to 132 million coarse-grained particles in half-micron sized boxes, we show that hydrodynamics quantitatively explains the finite-size effects on diffusion of lipids, proteins, and carbon nanotubes in membranes. The resulting Oseen correction allows us to extract infinite-system diffusion coefficients and membrane surface viscosities from membrane simulations despite the logarithmic divergence of apparent diffusivities with increasing box width. The hydrodynamic theory of diffusion applies also to membranes with asymmetric leaflets and embedded proteins, and to a complex plasma-membrane mimetic.

References

Aug 1, 1975·Proceedings of the National Academy of Sciences of the United States of America·P G Saffman, M Delbrück
Aug 11, 2005·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Ira R CookeMarkus Deserno
Jul 21, 2006·The Journal of Physical Chemistry. B·Sergei Izvekov, Gregory A Voth
Jan 11, 2007·The Journal of Chemical Physics·Giovanni BussiMichele Parrinello
May 1, 2007·Biophysical Journal·W K den Otter, S A Shkulipa
Jun 16, 2007·The Journal of Physical Chemistry. B·Siewert J MarrinkAlex H de Vries
Jan 15, 2008·Biophysical Journal·Eugene P Petrov, Petra Schwille
Aug 19, 2014·Journal of Computational Chemistry·Emilia L WuWonpil Im
Sep 18, 2014·Journal of the American Chemical Society·Helgi I IngólfssonSiewert J Marrink
Jul 22, 2015·Journal of Physics. Condensed Matter : an Institute of Physics Journal·Kristyna Pluhackova, Rainer A Böckmann
Nov 18, 2015·Journal of Chemical Theory and Computation·Tsjerk A WassenaarSiewert J Marrink
Mar 1, 2008·Journal of Chemical Theory and Computation·Berk HessErik Lindahl
Jan 3, 2016·The Journal of Chemical Physics·Brian A CamleyFrank L H Brown
Jan 9, 2016·Journal of Cell Science·Helgi I IngólfssonSiewert J Marrink
Jul 8, 2016·The Journal of Physical Chemistry. B·Martin Vögele, Gerhard Hummer
Aug 3, 2016·The Journal of Physical Chemistry. B·Heidi KoldsøMark S P Sansom
Dec 15, 2016·The Journal of Physical Chemistry. B·Richard M VenableRichard W Pastor
May 24, 2017·Journal of Chemical Theory and Computation·Pauline SimonninBenjamin Rotenberg
Aug 22, 2017·The Journal of Physical Chemistry Letters·Matti JavanainenIlpo Vattulainen

❮ Previous
Next ❯

Citations

Oct 3, 2019·The Journal of Chemical Physics·Brian A Camley, Frank L H Brown
Jul 17, 2020·The Journal of Chemical Physics·Jakob Tómas BullerjahnGerhard Hummer
Mar 31, 2021·Nature Methods·Paulo C T SouzaSiewert J Marrink
Dec 15, 2020·Journal of Chemical Theory and Computation·Zakarya BenayadGerhard Hummer
Aug 23, 2019·Journal of Chemical Theory and Computation·Irene MarzuoliFranca Fraternali
Sep 3, 2019·Journal of Chemical Theory and Computation·Cesar A LöpezBoian S Alexandrov
Sep 3, 2019·Journal of Chemical Theory and Computation·Andrew ZgorskiEdward Lyman
Jan 10, 2019·Chemical Reviews·Siewert J MarrinkMark S P Sansom
Feb 13, 2019·Chemical Reviews·Richard M VenableRichard W Pastor
Feb 16, 2019·The Journal of Physical Chemistry Letters·Andrey A GurtovenkoIlpo Vattulainen

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

The Journal of Physical Chemistry. B
Martin Vögele, Gerhard Hummer
Physical Review. E, Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics
S M Bhattacharjee, S Mukherji
The Journal of Physical Chemistry Letters
Max LinkeGerhard Hummer
© 2022 Meta ULC. All rights reserved