Determination of the 3D Structure of DNA Hexamers (ATGCAT, ATCGAT, TAGCTA, TACGTA) BY 2D NMR Spectroscopy
2008
Kirils Zinovjevs, Kristaps Jaudzems, Edvards Liepiņš

The solution structures of self-complementary DNA hexamers with ApT or TpA base steps on each end and with CpG or GpC base steps in the center resembling the biologically important “E-box” sequences were determined. All four hexamers form the antiparallel-stranded right-handed duplexes. The 1H-NMR spectra acquired at higher temperatures (up to 25° C) showed that all duplexes are stable. The base-pair step parameters were calculated for four middle steps of all duplexes. The analysis of macroscopic curvature gave order TACGTA>ATGCAT>ATCGAT>TAGCTA. It was proposed that the increased macroscopic curvature of sequence already in uncomplexed state allows for easier energy – saved interactions with proteins or drugs.


Keywords
NMR spectroscopy, DNA, oligonucleotides, stereochemistry

Zinovjevs, K., Jaudzems, K., Liepiņš, E. Determination of the 3D Structure of DNA Hexamers (ATGCAT, ATCGAT, TAGCTA, TACGTA) BY 2D NMR Spectroscopy. Materials Sciences and Applied Chemistry. Vol.16, 2008, pp.99-106. ISSN 1407-7353.

Publication language
Latvian (lv)
The Scientific Library of the Riga Technical University.
E-mail: uzzinas@rtu.lv; Phone: +371 28399196