THERMODYNAMICS OF HELIX-TO-COIL TRANSITION IN DUPLEX AND TRIPLEX COMPLEXES OF OLIGOADENILATE WITH OLIGOTHYMIDYLATE. INFLUENCE OF COVALENTLY ATTACHED DYE
Abstract
Helix-to-coil transitions in oligonucleotide (dA)15 complexes with (dT)10 and (dT)12 as well as with intercalating phenazine dye attached covalently, have been thermodynamically analyzed. At molar strand ratios 1:1 and 1:2 and μ = 0.1 and 1 thermodynamic transition parameters ΔH, ΔS and ΔG and equilibrium constants were calculated for duplex and triplex structures by using the "two state" model and the modified "staggering zipper" model. Declination of experimental dependencies from the "two state" model was found for duplexes containing phenaztne attached. This effect is interpreted as a result of the effect of the impurity triplex state. It was stated by the help of model "staggering zipper" calculations that terminal group of the complexes are in a partially disordered state the degree of which increases with temperature. It is shown that strengthening of both complex types by the dye attached may be taken into account by multiplication of the complex binding constant by the attachment constant of the dye in the complementary structure.
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