Nucleic Acids Research, Vol 25, Issue 21 4187-4193, Copyright © 1997 by Oxford University Press
KG Rajeev, VR Jadhav and KN Ganesh
Oligodeoxynucleotides with spermine conjugation at C4 of 5-Me-dC ( sp -
ODN) exhibit triple helix formation with complementary Watson-Crick
duplexes, and were optimally stable at physiological pH 7.3 and low salt
concentration. This was attributed to a favored reassociation of the
polycationic third strand with the anionic DNA duplex. To gain further
insights into the factors that contribute to the enhancement of triplex
stability and for engineering improved triplex systems, the spermine
appendage at C4 of 5-Me-dC was replaced with 1,11-diamino-
3,6,9-trioxaundecane to create teg -ODNs. From the triple helix forming
abilities of these modified ODNs studied by hysteresis behaviour and the
effect of salts on triplex stability, it is demonstrated here that teg-
ODNs stabilise triplexes through hydrophobic desolvation while sp - ODNs
stabilise triplexes by charge effects. The results imply that factors in
addition to base stacking effects and interstrand hydrogen bonds are
significantly involved in modulation of triplex stability by base modified
oligonucleotides.
ARTICLES
Triplex formation at physiological pH: comparative studies on DNA triplexes containing 5-Me-dC tethered at N4 with spermine and tetraethyleneoxyamine
Division of Organic Chemistry, National Chemical Laboratory, Pune 411008, India.
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