Molecular dynamics simulations of membrane channels and transporters

Fatemeh Khalili-Araghi, James Gumbart, Po Chao Wen, Marcos Sotomayor, Emad Tajkhorshid, Klaus Schulten

Research output: Contribution to journalReview article

Abstract

Membrane transport constitutes one of the most fundamental processes in all living cells with proteins as major players. Proteins as channels provide highly selective diffusive pathways gated by environmental factors, and as transporters furnish directed, energetically uphill transport consuming energy. X-ray crystallography of channels and transporters furnishes a rapidly growing number of atomic resolution structures, permitting molecular dynamics (MD) simulations to reveal the physical mechanisms underlying channel and transporter function. Ever increasing computational power today permits simulations stretching up to 1μ s, that is, to physiologically relevant time scales. Membrane protein simulations presently focus on ion channels, on aquaporins, on protein-conducting channels, as well as on various transporters. In this review we summarize recent developments in this rapidly evolving field.

Original languageEnglish (US)
Pages (from-to)128-137
Number of pages10
JournalCurrent Opinion in Structural Biology
Volume19
Issue number2
DOIs
StatePublished - Apr 1 2009

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Membrane Transport Proteins
Molecular Dynamics Simulation
Ion Channels
Aquaporins
Proteins
Active Biological Transport
X Ray Crystallography
Membrane Proteins
Membranes

ASJC Scopus subject areas

  • Structural Biology
  • Molecular Biology

Cite this

Molecular dynamics simulations of membrane channels and transporters. / Khalili-Araghi, Fatemeh; Gumbart, James; Wen, Po Chao; Sotomayor, Marcos; Tajkhorshid, Emad; Schulten, Klaus.

In: Current Opinion in Structural Biology, Vol. 19, No. 2, 01.04.2009, p. 128-137.

Research output: Contribution to journalReview article

Khalili-Araghi, F, Gumbart, J, Wen, PC, Sotomayor, M, Tajkhorshid, E & Schulten, K 2009, 'Molecular dynamics simulations of membrane channels and transporters', Current Opinion in Structural Biology, vol. 19, no. 2, pp. 128-137. https://doi.org/10.1016/j.sbi.2009.02.011
Khalili-Araghi, Fatemeh ; Gumbart, James ; Wen, Po Chao ; Sotomayor, Marcos ; Tajkhorshid, Emad ; Schulten, Klaus. / Molecular dynamics simulations of membrane channels and transporters. In: Current Opinion in Structural Biology. 2009 ; Vol. 19, No. 2. pp. 128-137.
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