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Korean Society for Biochemistry and Molecular Biology (생화학분자생물학회)
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Detection for folding of the thrombin binding aptamer using label-free electrochemical methods

  • Cho, Min-Seon (Department of Chemistry, Pohang University of Science and Technology) ;
  • Kim, Yeon-Wha (Department of Chemistry, Pohang University of Science and Technology) ;
  • Han, Se-Young (Department of Chemistry, Pohang University of Science and Technology) ;
  • Min, Kyung-In (Department of Chemistry, Pohang University of Science and Technology) ;
  • Rahman, Md. Aminur (Department of Chemistry, Pusan National University) ;
  • Shim, Yoon-Bo (Department of Chemistry, Pusan National University) ;
  • Ban, Chang-Ill (Department of Chemistry, Pohang University of Science and Technology)
  • Received : 2007.08.03
  • Accepted : 2007.10.05
  • Published : 2008.02.29
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Abstract

The folding of aptamer immobilized on an Au electrode was successfully detected using label-free electrochemical methods. A thrombin binding DNA aptamer was used as a model system in the presence of various monovalent cations. Impedance spectra showed that the extent to which monovalent cations assist in folding of aptamer is ordered as $K^+$ > $NH_4^+$ > $Na^+$ > $Cs^+$. Our XPS analysis also showed that $K^+$ and $NH_4^+$ caused a conformational change of the aptamer in which it forms a stable complex with these monovalent ions. Impedance results for the interaction between aptamer and thrombin indicated that thrombin interacts more with folded aptamer than with unfolded aptamer. The EQCM technique provided a quantitative analysis of these results. In particular, the present impedance results showed that thrombin participates a folding of aptamer to some extent, and XPS analysis confirmed that thrombin stabilizes and induces the folding of aptamer.

Keywords

References

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