PMID: 18851091Oct 15, 2008Paper

Theory of DNA translocation through narrow ion channels and nanopores with charged walls

Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics
Tao Hu, B I Shklovskii


Translocation of a single-stranded DNA molecule through genetically engineered alpha -hemolysin channels with positively charged walls is studied. It is predicted that transport properties of such channels are dramatically different from neutral wild-type alpha -hemolysin channels. We assume that the wall charges compensate a fraction x of the bare charge q_{b} of the DNA piece residing in the channel. Our predictions are as follows. (i) At small concentration of salt the blocked ion current decreases with x . (ii) The effective charge q_{s} of the DNA piece, which is very small at x=0 (neutral channel) grows with x and at x=1 reaches q_{b} . (iii) The rate of DNA capture by the channel grows exponentially with x . Our theory is also applicable to translocation of a double-stranded DNA molecular in narrow solid state nanopores with positively charged walls.


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