Departmental Papers (BE)

Document Type

Journal Article

Date of this Version

February 2008

Abstract

High fidelity polymerases are efficient catalysts of phosphodiester bond formation during DNA replication or repair. We interpret molecular dynamics simulations of a polymerase bound to its substrate DNA and incoming nucleotide using a quasiharmonic model to study the effect of external forces applied to the bound DNA on the kinetics of phosphoryl transfer. The origin of the force dependence is shown to be an intriguing coupling between slow, delocalized polymerase-DNA modes and fast catalytic site motions. Using noncognate DNA substrates we show that the force dependence is context specific.

Comments

Copyright 2008 American Physical Society. Reprinted from Physical Review Letters, Volume 1008, Article 088102, February 2008, 4 pages.

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Date Posted: 09 April 2008

This document has been peer reviewed.