The nature of stabilization of the tandem DNA duplex pTGGAGCTG · (pCAGC+(Phn-NH-(CH2)3-NH)pTCCA) basing on the UV, CD, and two-dimensional NMR spectroscopy data

The properties and the three-dimensional structure of the tandem DNA duplex pTGGAGCTG·(pCAGC+(PhnL)pTCCA) in aqueous solution, where L is an amino linker and Phn is anN-(2-hydroxyethyl)phenazinium residue, were studied spectrophotometrically and by two-dimensional1H NMR spectroscopy (COSY and NOESY)...

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Bibliographic Details
Published in:Russian journal of bioorganic chemistry 2000, Vol.26 (5), p.337-349
Main Authors: Denisov, A. Yu, Pyshnyi, D. V., Ivanova, E. M.
Format: Article
Language:English
Subjects:
Aqueous solutions
Dyes
NMR spectroscopy
Residues
Spectrophotometry
Stabilization
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Summary:The properties and the three-dimensional structure of the tandem DNA duplex pTGGAGCTG·(pCAGC+(PhnL)pTCCA) in aqueous solution, where L is an amino linker and Phn is anN-(2-hydroxyethyl)phenazinium residue, were studied spectrophotometrically and by two-dimensional1H NMR spectroscopy (COSY and NOESY). When a tandem complex involving a Phn residue-bearing oligonucleotide is formed, the dye aromatic system intercalates into the double helix at the nick site and takes part in two stacking interactions: a strong one (3.5–4 Å) with the T5-A12 base pair of its own duplex moiety and a weak one (4–5 Å) with the C4-G13 pair of the adjoining duplex (mainly with the C4 base). This arrangement of the dye residue, providing a cross-interaction of the phenazinium moiety with the base pairs of the adjacent duplex structures, results in the stabilization of the whole tandem complex.
ISSN:1068-1620
1573-9163
1608-330X
DOI:10.1007/BF02759287