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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.
Alexander M. Berezhkovskii andSergey M. Bezrukov
"Surprising features of particle dynamics in channel-facilitated
transport", Proc. SPIE 6602, Noise and Fluctuations in Biological, Biophysical, and Biomedical Systems, 66020F (8 June 2007); https://doi.org/10.1117/12.724711
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Alexander M. Berezhkovskii, Sergey M. Bezrukov, "Surprising features of particle dynamics in channel-facilitated transport," Proc. SPIE 6602, Noise and Fluctuations in Biological, Biophysical, and Biomedical Systems, 66020F (8 June 2007); https://doi.org/10.1117/12.724711