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. 1996 Nov 15;24(22):4501–4505. doi: 10.1093/nar/24.22.4501

Improved thermodynamic parameters and helix initiation factor to predict stability of DNA duplexes.

N Sugimoto 1, S Nakano 1, M Yoneyama 1, K Honda 1
PMCID: PMC146261  PMID: 8948641

Abstract

To improve the previous DNA/DNA nearest-neighbor parameters, thermodynamic parameters (deltaH degrees, deltaS degrees and deltaG degrees) of 50 DNA/DNA duplexes were measured. Enthalpy change of a helix initiation factor is also considered though the parameters reported recently did not contain the factor. A helix initiation factor for DNA/DNA duplex determined here was the same as that of RNA/RNA duplex (deltaG degrees(37) = 3.4 kcal/mol). The improved nearest-neighbor parameters reproduced not only these 50 experimental values used here but also 15 other experimental values obtained in different studies. Comparing deltaG degrees(37) values of DNA/DNA nearest-neighbor parameters obtained here with those of RNA/RNA and RNA/DNA, RNA/RNA duplex was generally the most stable of the three kinds of duplexes with the same nearest-neighbor sequences. Which is more stable between DNA/DNA and RNA/DNA duplexes is sequence dependent.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

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