DNA mechanics as a tool to probe helicase and translocase activity

Timothée Lionnet (1) , Alexandre Dawid (2) , Sarah Bigot (3) , François-Xavier Barre (3) , Omar A Saleh (1) , François Heslot (4) , Jean-François Allemand (1) , David Bensimon (1) , Vincent Croquette (1)

1 LPS - Laboratoire de Physique Statistique de l'ENS
2 LPA - Laboratoire Pierre Aigrain
3 LMGM - Laboratoire de microbiologie et génétique moléculaires - UMR5100
4 QUANTIC - QUANTum Information Circuits

Helicases and translocases are proteins that use the energy derived from ATP hydrolysis to move along or pump nucleic acid substrates. Single molecule manip-ulation has proved to be a powerful tool to investigate the mechanochemistry of these motors. Here we first describe the basic mechanical properties of DNA unraveled by single molecule manipulation techniques. Then we demonstrate how the knowledge of these properties has been used to design single molecule assays to address the enzymatic mechanisms of different translocases. We report on four single molecule manipulation systems addressing the mechanism of different helicases using specifically designed DNA substrates: UvrD enzyme activity detection on a stretched nicked DNA molecule, HCV NS3 helicase unwinding of a RNA hairpin under tension, the observation of RecBCD helicase/nuclease forward and backward motion, and T7 gp4 helicase mediated opening of asynthetic DNA replication fork. We then discuss experiments on two dsDNA translocases: the RuvAB motorstudied on its natural substrate, the Holliday junction, and the chromosome-segregation motor FtsK, showing its unusual coupling to DNA supercoiling.

Domains: Microbiology and Parasitology

Timothée Lionnet, Alexandre Dawid, Sarah Bigot, François-Xavier Barre, Omar A Saleh, et al.. DNA mechanics as a tool to probe helicase and translocase activity. Nucleic Acids Research, 2006, 34 (15), pp.4232-4244. ⟨10.1093/nar/gkl451⟩. ⟨hal-03012799⟩