DNA base pair stacks with high electric conductance

A systematic structural search

Yuri A. Berlin, Alexander A. Voityuk, Mark A Ratner

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

We report a computational search for DNA φ-stack structures exhibiting high electric conductance in the hopping regime, based on the INDO/S calculations of electronic coupling and the method of data analysis called k-means clustering. Using homogeneous poly(G)-poly(C) and poly(A)-poly(T) stacks as the simplest structural models, we identify the configurations of neighboring G:C and A:T pairs that allow strong electronic coupling and, therefore, molecular electric conductance much larger than the values reported for the corresponding reference systems in the literature. A computational approach for modeling the impact of thermal fluctuations on the averaged dimer structure was also proposed and applied to the [(G:C),(G:C)] and [(A:T),(A:T)] duplexes. The results of this work may provide guidance for the construction of DNA devices and DNA-based elements of nanoscale molecular circuits. Several factors that cause changes of step parameters favorable to the formation of the predicted stack conformation with high electric conductance of DNA molecules are also discussed; favorable geometries may enhance the conductivity by factors as large as 15.

Original languageEnglish
Pages (from-to)8216-8225
Number of pages10
JournalACS Nano
Volume6
Issue number9
DOIs
Publication statusPublished - Sep 25 2012

Fingerprint

Electric conductance
DNA
deoxyribonucleic acid
Poly T
Poly A
reference systems
electronics
Dimers
Conformations
dimers
conductivity
Molecules
Geometry
Networks (circuits)
causes
geometry
configurations
molecules

Keywords

  • π-stack
  • DNA
  • electronic coupling
  • molecular conductance
  • step parameters

ASJC Scopus subject areas

  • Engineering(all)
  • Materials Science(all)
  • Physics and Astronomy(all)

Cite this

DNA base pair stacks with high electric conductance : A systematic structural search. / Berlin, Yuri A.; Voityuk, Alexander A.; Ratner, Mark A.

In: ACS Nano, Vol. 6, No. 9, 25.09.2012, p. 8216-8225.

Research output: Contribution to journalArticle

Berlin, Yuri A. ; Voityuk, Alexander A. ; Ratner, Mark A. / DNA base pair stacks with high electric conductance : A systematic structural search. In: ACS Nano. 2012 ; Vol. 6, No. 9. pp. 8216-8225.
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