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Proceedings Paper

Surprising features of particle dynamics in channel-facilitated transport
Author(s): Alexander M. Berezhkovskii; Sergey M. Bezrukov
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Paper Abstract

We analyze the consequences of interactions between the pore and the translocating molecule within the framework of a continuous diffusion model using the Smoluchowski equation with the radiation boundary conditions. We describe the solute-pore interaction in terms of the potential of mean force. Several of our analytical findings are quite counterintuitive. Three of the examples to be discussed here are: (i) "Sticking" to the channel slows down translocation (a particle spends more time in the channel) but increases the flux; (ii) If the potential well modeling the particle-channel interaction occupies only a part of the channel length, the average translocation time is non-monotonic in the width of the potential well, first increasing and then decreasing; (iii) At a finite potential bias applied to the channel, the mean "up-hill" and "downhill" particle translocation times (and their distributions) are identical.

Paper Details

Date Published: 8 June 2007
PDF: 9 pages
Proc. SPIE 6602, Noise and Fluctuations in Biological, Biophysical, and Biomedical Systems, 66020F (8 June 2007); doi: 10.1117/12.724711
Show Author Affiliations
Alexander M. Berezhkovskii, National Institutes of Health (United States)
Sergey M. Bezrukov, National Institutes of Health (United States)

Published in SPIE Proceedings Vol. 6602:
Noise and Fluctuations in Biological, Biophysical, and Biomedical Systems
Sergey M. Bezrukov, Editor(s)

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