Mechanism-based design of DNA-nanoparticle motor with high speed and processivity comparable to motor proteins

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Май 28, 2024

Abstract DNA-nanoparticle motor is a burnt-bridge Brownian ratchet moving on RNA-modified surface driven by Ribonuclease H (RNase H), and one of the fastest nanoscale artificial motors. However, its speed still much lower than those proteins. Here we resolve elementary processes motion reveal long pauses caused slow RNase binding are bottleneck. As concentration ([RNase H]) increases, pause lengths shorten from ∼100 s to ∼0.1 s, while step sizes constant (∼20 nm). At high [RNase H], reaches nm −1 , however, processivity, run-length, unidirectionality largely decrease. A geometry-based kinetic simulation reveals switching bottleneck DNA/RNA hybridization at trade-off mechanism between other performances. mechanism-based newly-designed with 3.8-times larger rate simultaneously achieves 30 speed, 200 3 μm run-length comparable

Язык: Английский

Nonequilibrium Dynamics at Cellular Interfaces: Insights From Simulation and Theory

Wiley Interdisciplinary Reviews Computational Molecular Science, Год журнала: 2024, Номер 14(6)

Опубликована: Ноя. 1, 2024

ABSTRACT Active matters, which consume energy to exert mechanical forces, include molecular motors, synthetic nanomachines, actively propelled bacteria, and viruses. A series of unique phenomena emerge when active matters interact with cellular interfaces. Activity changes the mechanism nanoparticle intracellular delivery, while processes generated in cytoskeleton play a major role membrane protein distribution transport. This review provides comprehensive overview theoretical simulation models used study these nonequilibrium phenomena, offering insights into how activity enhances uptake, influences deformation, governs surface transport dynamics. Furthermore, we explore impact properties, such as fluidity viscosity, on efficiency discuss slippage dynamics rotation behaviors surface. The interplay particles membranes highlights essential processes, potential applications drug delivery nanotechnology. Finally, provide an outlook highlighting significance deeper simulation‐based investigations optimize understand their behavior complex biological environments.

Язык: Английский