# Protein sliding and hopping kinetics on DNA

Source: [Protein sliding and hopping kinetics on DNA](<https://www.sota2.com/research/paper/68fa2f7c1e209131ce86c73d>)

Collection index: [llms.txt](<https://www.sota2.com/research/llms.txt>)

Data updated: 2025-10-24T17:35:00.684Z

Authors: Michael C. DeSantis, Je-Luen Li, Y. M. Wang

Published: 2010-10-15T19:04:18.000Z

## Abstract

Using Monte-Carlo simulations, we deconvolved the sliding and hopping kinetics of GFP-LacI proteins on elongated DNA from their experimentally observed seconds-long diffusion trajectories. Our simulations suggest the following results: (1) in each diffusion trajectory, a protein makes on average hundreds of alternating slides and hops with a mean sliding time of several tens of ms; (2) sliding dominates the root mean square displacement of fast diffusion trajectories, whereas hopping dominates slow ones; (3) flow and variations in salt concentration have limited effects on hopping kinetics, while in vivo DNA configuration is not expected to influence sliding kinetics; furthermore, (4) the rate of occurrence for hops longer than 200 nm agrees with experimental data for EcoRV proteins.

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## Original sources and implementation

[Original paper](<https://arxiv.org/abs/1010.3247>)

[PDF](<https://arxiv.org/pdf/1010.3247.pdf>)