DNA in nanopore-counterion condensation and coion depletion

Details DNA in nanopore-counterion condensation and coion depletion DNA in nanopore-counterion condensation and coion depletion

2004-12-13

arxiv.org/abs/cond-mat/0412293v1

Physics

Condensed Matter

Soft Condensed Matter

8 pages, 2 figures

Scientific paper

10.1103/PhysRevLett.94.148103

Molecular dynamics simulations are used to study the equilibrium distribution of monovalent ions in a nanopore connecting two water reservoirs separated by a membrane, both for the empty pore and that with a single stranded DNA molecule inside. In the presence of DNA, the counterions condense on the stretched macromolecule effectively neutralizing it, and nearly complete depletion of coions from the pore is observed. The implications of our results for experiments on DNA translocation through alpha-hemolysin nanopores are discussed.

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