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Bulletin of the Korean Chemical Society (BKCS)

ISSN 0253-2964(Print)
ISSN 1229-5949(Online)
Volume 16, Number 8
BKCSDE 16(8)
August 20, 1995 

Spectroscopic Studies on Binding of Berenil to Double Helix of d(GCTTAAGC)2 and d(GCAATTGC)2
Sungho Huh*, Eunhee Kim
Thermodynamic parameters for double helix formation of d(GCTTAAGC)2, d(GCAATTGC)2 and their complexes with berenil were obtained by observing absorbance at 260 nm during the DNA melting process. Two oligodeoxynucleotides are self-complementary and have identical base pairing but different base sequence in the central four bases. From the CD spectral and UV melting data, they revealed noticeable difference in their conformation as well as thermodynamic property. The melting transition of d(GCTTAAGC)2 was more or less enthalpic, but rather entropic for that of d(GCAATTGC)2. And berenil bound to d(GCAATTGC)2 more tightly and increased the melting temperature of the oligodeoxynucleotide from 30 ℃ to 38 ℃, but the overall conformation was maintained. Binding of berenil to the d(GCTTAAGC)2 duplex did not increase melting temperature of the oligodeoxynucleotide, but caused a conformational change. The experimental results showed that ΔHo and ΔSo could be used to explain the sequence specificity appeared in the binding interaction between each model oligodeoxynucleotide and berenil.
755 - 760
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