Effect of ultrasound on DNA polymerase reactions: monitoring on a 27-MHz quartz crystal microbalance

Biomacromolecules. 2006 Mar;7(3):682-5. doi: 10.1021/bm050738e.

Abstract

Effects of ultrasound irradiation on DNA polymerase (Klenow fragment, KF) reactions were studied on the template/primer DNA-immobilized quartz crystal microbalance (QCM). Under ultrasound irradiation, binding of KF to the DNA was suppressed due to the decrease of the binding rate constant (k(1)) and the increase of the dissociation rate constant (k(-)(1)). The catalytic elongation rate (k(cat)) was increased, but the stability of the KF/DNA/monomer ternary complex (K(m)) was decreased by the ultrasound irradiation. Ultrasound effects are discussed in correlation with the conformation changes of domain structures in KF.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Sequence
  • Biopolymers / chemistry
  • Crystallization
  • DNA / chemistry
  • DNA-Directed DNA Polymerase / chemistry*
  • DNA-Directed DNA Polymerase / radiation effects
  • Kinetics
  • Macromolecular Substances
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Oscillometry
  • Protein Binding
  • Quartz
  • Ultrasonics*

Substances

  • Biopolymers
  • Macromolecular Substances
  • Quartz
  • DNA
  • DNA-Directed DNA Polymerase