Diffusion-ordered nuclear magnetic resonance spectroscopy for analysis of DNA secondary structural elements

A. Ambrus, Danzhou Yang

Research output: Contribution to journalArticle

21 Citations (Scopus)

Abstract

Structure determination of secondary DNA structural elements, such as G-quadruplexes, gains an increasing importance as fundamental physiological roles are being associated with the formation of such structures in vivo. A truncated native DNA sequence generally requires further optimization to obtain a candidate with desired nuclear magnetic resonance (NMR) properties for structural analysis in solution. The optimum sequence is expected to form one dominant, stable molecular entity in solution with well-resolved NMR peaks. However, DNA sequences are prone to form structures composed of one, two, three, or four strands depending on sequence and solution conditions. The thorough characterization of the molecularity (stoichiometry and molecular weight) and appropriate solution conditions for sequences with different modifications traditionally applies analytical techniques that generally do not represent the solution conditions for NMR structure determination. Here we present the application of diffusion-ordered NMR spectroscopy as a useful analytical tool for the optimization and analysis of DNA secondary structural elements, specifically, the DNA G-quadruplex structures, including those formed in the human telomeric sequence and in the promoter regions of bcl-2 and c-myc genes.

Original languageEnglish
Pages (from-to)56-67
Number of pages12
JournalAnalytical Biochemistry
Volume367
Issue number1
DOIs
Publication statusPublished - Aug 1 2007

Fingerprint

Nuclear magnetic resonance spectroscopy
Magnetic Resonance Spectroscopy
G-Quadruplexes
DNA sequences
DNA
Nuclear magnetic resonance
myc Genes
Genetic Promoter Regions
Structural analysis
Stoichiometry
Genes
Molecular Weight
Molecular weight

Keywords

  • bcl-2
  • c-myc
  • DNA
  • DOSY
  • Human telomere
  • NMR
  • Quadruplex

ASJC Scopus subject areas

  • Biochemistry
  • Biophysics
  • Molecular Biology

Cite this

Diffusion-ordered nuclear magnetic resonance spectroscopy for analysis of DNA secondary structural elements. / Ambrus, A.; Yang, Danzhou.

In: Analytical Biochemistry, Vol. 367, No. 1, 01.08.2007, p. 56-67.

Research output: Contribution to journalArticle

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