Fluidic switching in nanochannels for the control of Inchworm: a synthetic biomolecular motor with a power stroke.

Cassandra Niman, Martin J Zuckermann, Martina Balaz, Jonas Tegenfeldt, Paul M G Curmi, Nancy R Forde, Heiner Linke

Research output: Contribution to journalArticlepeer-review

11 Citations (SciVal)

Abstract

Synthetic molecular motors typically take nanometer-scale steps through rectification of thermal motion. Here we propose Inchworm, a DNA-based motor that employs a pronounced power stroke to take micrometer-scale steps on a time scale of seconds, and we design, fabricate, and analyze the nanofluidic device needed to operate the motor. Inchworm is a kbp-long, double-stranded DNA confined inside a nanochannel in a stretched configuration. Motor stepping is achieved through externally controlled changes in salt concentration (changing the DNA's extension), coordinated with ligand-gated binding of the DNA's ends to the functionalized nanochannel surface. Brownian dynamics simulations predict that Inchworm's stall force is determined by its entropic spring constant and is ∼0.1 pN. Operation of the motor requires periodic cycling of four different buffers surrounding the DNA inside a nanochannel, while keeping constant the hydrodynamic load force on the DNA. We present a two-layer fluidic device incorporating 100 nm-radius nanochannels that are connected through a few-nm-wide slit to a microfluidic system used for in situ buffer exchanges, either diffusionally (zero flow) or with controlled hydrodynamic flow. Combining experiment with finite-element modeling, we demonstrate the device's key performance features and experimentally establish achievable Inchworm stepping times of the order of seconds or faster.
Original languageEnglish
Pages (from-to)15008-15019
JournalNanoscale
Volume6
Issue number24
DOIs
Publication statusPublished - 2014

Subject classification (UKÄ)

  • Nano Technology

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