Download Toward detection of DNA-bound proteins using solid-state

Toward detection of DNA-bound proteins using solid-state nanopores: insights from computer
simulations
Jeffrey Comer, Anthony Ho and Aleksei Aksimentiev*
Department of Physics and Beckman Institute
University of Illinois at Urbana-Champaign
Urbana, Illinois, USA
Supporting Information
Movie showing a MD simulation of the nanopore-induced rupture of a protein-DNA complex. First, a
cross section of the nanopore is shown. Next, ions moving in the electric field transverse to the membrane
are shown. Although ions and water are not shown during the whole video, they were always present in
the simulations. Finally, the dynamics of the complex under a 2 V transmembrane bias is shown,
representing 35.5 ns of simulated time. The DNA is pulled downward while the protein is unable to fit
through the pore. The specific bond between the DNA and protein ruptures; however, the protein remains
near the top of pore as the DNA threads through it.