Preprint Review Version 1 This version is not peer-reviewed

Mechanisms of Protein Search for Targets on DNA: Theoretical Insights

Version 1 : Received: 30 July 2018 / Approved: 31 July 2018 / Online: 31 July 2018 (05:39:04 CEST)

A peer-reviewed article of this Preprint also exists.

Shvets, A.A.; Kochugaeva, M.P.; Kolomeisky, A.B. Mechanisms of Protein Search for Targets on DNA: Theoretical Insights. Molecules 2018, 23, 2106. Shvets, A.A.; Kochugaeva, M.P.; Kolomeisky, A.B. Mechanisms of Protein Search for Targets on DNA: Theoretical Insights. Molecules 2018, 23, 2106.

Journal reference: Molecules 2018, 23, 2106
DOI: 10.3390/molecules23092106

Abstract

Protein-DNA interactions are critical for the successful functioning of all natural systems. The key role in these interactions is played by processes of protein search for specific sites on DNA. Although it has been studied for many years, only recently microscopic aspects of these processes became more clear. In this work, we present a review on current theoretical understanding of the molecular mechanisms of the protein target search. A comprehensive discrete-state stochastic method to explain the dynamics of the protein search phenomena is introduced and explained. Our theoretical approach utilizes a first-passage analysis and it takes into account the most relevant physical-chemical processes. It is able to describe many fascinating features of the protein search, including unusually high effective association rates, high selectivity and specificity, and the robustness in the presence of crowders and sequence heterogeneity.

Subject Areas

protein-DNA interactions; facilitated diffusion; protein target search; discrete-state stochastic models

Comments (0)

We encourage comments and feedback from a broad range of readers. See criteria for comments and our diversity statement.

Leave a public comment
Send a private comment to the author(s)
Views 0
Downloads 0
Comments 0
Metrics 0


×
Alerts
Notify me about updates to this article or when a peer-reviewed version is published.