Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2010 Sep;136(3):363-5.
doi: 10.1085/jgp.201010504.

A mesoscopic approach to understanding the mechanisms underlying the ion permeation on the discrete-state diagram

Shigetoshi Oiki, Masayuki Iwamoto, Takashi Sumikama

A mesoscopic approach to understanding the mechanisms underlying the ion permeation on the discrete-state diagram

Shigetoshi Oiki et al. J Gen Physiol. 2010 Sep.
No abstract available

PubMed Disclaimer

Figures

Figure 1.
Figure 1.
From ion permeation through channel structure to cycle kinetics on DSMM. The ion permeation processes (A) are projected on a discrete-state diagram (B) on which a random walk completing cyclic paths generates net ion flux. Macroscopic observables, such as the single-channel current, can be deduced with a set of rate constants for the diagram. These rate constants have been transformed to the free energy profile of ion permeation (C), and they can be used for calculating the mesoscopic parameter of the cycle flux. There are several cyclic paths on the diagram, some of which generate nonzero net flux (a and b) and others (c) do not (D). From the original diagram, all the cyclic paths were decomposed into one-way cyclic paths (D; right). All the one-way cycle fluxes can be calculated. Given the cycle fluxes, trends of random kinetic processes, such as relative contributions of the cycles, are visualized, and macroscopic observables were calculated using stoichiometric numbers (E). Permeation processes in different levels and experimental observables were related in the hierarchy of ion permeation events (F).
See this image and copyright information in PMC

Similar articles

See all similar articles

Cited by

See all "Cited by" articles

References

    1. Andersen O.S. 1989. Kinetics of ion movement mediated by carriers and channels. Methods Enzymol. 171:62–112 10.1016/S0076-6879(89)71007-7 - DOI - PubMed
    1. Ando H., Kuno M., Shimizu H., Muramatsu I., Oiki S. 2005. Coupled K+–water flux through the HERG potassium channel measured by an osmotic pulse method. J. Gen. Physiol. 126:529–538 10.1085/jgp.200509377 - DOI - PMC - PubMed
    1. Bahar I. 2010. On the functional significance of soft modes predicted by coarse-grained models for membrane proteins. J. Gen. Physiol. 135:563–573 10.1085/jgp.200910368 - DOI - PMC - PubMed
    1. Bernèche S., Roux B. 2001. Energetics of ion conduction through the K+ channel. Nature. 414:73–77 10.1038/35102067 - DOI - PubMed
    1. Bowman G.R., Beauchamp K.A., Boxer G., Pande V.S. 2009. Progress and challenges in the automated construction of Markov state models for full protein systems. J. Chem. Phys. 131:124101 10.1063/1.3216567 - DOI - PMC - PubMed