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Theoretical study on effect of binding of Netropsin on thermal denaturation of synthetic oligo-nucleotides | Abstract

Der Pharma Chemica
Journal for Medicinal Chemistry, Pharmaceutical Chemistry, Pharmaceutical Sciences and Computational Chemistry

ISSN: 0975-413X
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Abstract

Theoretical study on effect of binding of Netropsin on thermal denaturation of synthetic oligo-nucleotides

Author(s): Onkar Prasad, Leena Sinha, Neeraj Misra, R.C. Agnihotri, Jitendra Pathak

The multiphasic nature of transition in Netropsin free and Netropsin bound in virgin reference mixture as well as in oligomers (dA)12-X-(dT)12-X-(dT)12 with and without salt surroundings has been successfully interpreted within the theoretical framework of Zimm and Bragg theory of helix to coil transition. The phenomenon of destabilization and stabilization of triplex and duplex due to the binding of Netropsin, in all cases has been successfully explained in terms of the nucleation parameter s and enthalpy changes DH. The Netropsin binding to the triplex leads to the decrease in the cooperativity of triplex → duplex and duplex → random coil melting and the increase in the enthalpy of both triplex → duplex and duplex→ random coil transition


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