Frequency-control of protein translocation across an oscillating nanopore. Issue 18 (18th April 2017)

• Record Type: Journal Article
• Authors: Cecconi, Fabio; Shahzad, Muhammad Adnan; Marini Bettolo Marconi, Umberto; Vulpiani, Angelo
• Is Part Of: Physical chemistry chemical physics. Volume 19:Issue 18(2017)
• Page Start: 11260
• Page End: 11272
• Publication Date: 2017-04-18
• Subjects: Chemistry, Physical and theoretical -- Periodicals; 541.3
• DOI: 10.1039/c6cp08156h
• Languages: English
• ISSNs: 1463-9076

Abstract

Abstract : The translocation of a lipid binding protein (LBP) is studied using a phenomenological coarse-grained computational model that simplifies both chain and pore geometry. Abstract : The translocation of a lipid binding protein (LBP) is studied using a phenomenological coarse-grained computational model that simplifies both chain and pore geometry. We investigated via molecular dynamics the interplay between transport and unfolding in the presence of a nanopore whose section oscillates periodically in time with a frequency ω, a motion often referred to as the radial breathing mode (RBM). We found that the LPB when mechanically pulled into the vibrating nanopore exhibits a translocation dynamics that in some frequency range is accelerated and shows a frequency locking to the pore dynamics. The main effect of pore vibrations is the suppression of stalling events of the translocation dynamics, hence, proper frequency tuning allows both regularization and control of the overall transport process. Finally, the interpretation of the simulation results is easily achieved by resorting to a first passage theory of elementary driven-diffusion processes.