Title
Mechanochemical analysis of DNA gyrase using rotor bead tracking
Date Issued
05 January 2006
Access level
open access
Resource Type
journal article
Author(s)
Gore J.
Bryant Z.
Stone M.
Nöllmann M.
Cozzarelli N.
University of California
Publisher(s)
Nature Publishing Group
Abstract
DNA gyrase is a molecular machine that uses the energy of ATP hydrolysis to introduce essential negative supercoils into DNA1-3. The directionality of supercoiling is ensured by chiral wrapping of the DNA 4,5 around a specialized domain6-9 of the enzyme before strand passage. Here we observe the activity of gyrase in real time by tracking the rotation of a submicrometre bead attached to the side of a stretched DNA molecule10. In the presence of gyrase and ATP, we observe bursts of rotation corresponding to the processive, stepwise introduction of negative supercoils in strict multiples of two11. Changes in DNA tension have no detectable effect on supercoiling velocity, but the enzyme becomes markedly less processive as tension is increased over a range of only a few tenths of piconewtons. This behaviour is quantitatively explained by a simple mechanochemical model in which processivity depends on a kinetic competition between dissociation and rapid, tension-sensitive DNA wrapping. In a high-resolution variant of our assay, we directly detect rotational pauses corresponding to two kinetic substeps: an ATP-independent step at the end of the reaction cycle, and an ATP-binding step in the middle of the cycle, subsequent to DNA wrapping. © 2006 Nature Publishing Group.
Start page
100
End page
104
Volume
439
Issue
7072
Language
English
OCDE Knowledge area
Biología celular, Microbiología Bioquímica, Biología molecular Química física
Scopus EID
2-s2.0-30144434477
PubMed ID
Source
Nature
ISSN of the container
00280836
Sponsor(s)
Acknowledgements We thank N. Crisona, P. Arimondo, A. Vologodskii, A. Edelstein, S. Mitelheiser, A. Schoeffler, and F. Mueller-Planitz for discussions; A. Maxwell and J. Berger for enzymes; P. Higgins for plasmids; and C. Hodges, M. Le and D. Jennings for technical assistance. J.G. acknowledges funding from the Hertz Foundation. This work was supported by the NIH and the DOE.
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