Parallel stranded DNA with AT base pairing.

Abstract

The concentration and temperature dependences of the UV and CD spectra of the oligonucleotide 3'-d(ApTpApTpApTpApTpApTp)-O(CH2)6O-5'-d(pApTpApTpApTpApT pApT) (eicosamer) in aqueous solution at pH 7 in the presence of 0.5 M NaCl were studied. At less than 10(-6) M, the eicosamer was shown to form in solution a hairpin with parallel orientation of chains (parallel hairpin). From thermal denaturation profiles [A260(T)] the thermodynamic parameters, delta H degrees, delta S degrees and Tm for parallel hairpin formation were calculated to be -90 +/- 8 kJ/mol. -300 +/- 20 J.mol-1.K-1 and 40.5 degrees C, respectively. The CD spectra of the parallel double helix differed from those of B-form DNA and had characteristic features: decreasing magnitude of the positive maximum at 265 nm and a negative peak at 285 nm.

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@article{Shchyolkina1989ParallelSD, title={Parallel stranded DNA with AT base pairing.}, author={Anna K. Shchyolkina and Lysov YuP and I A Il'ichova and A. A. Chernyi and Golova YuB and Boris K. Chernov and B. P. Gottikh and Vladimir L. Florentiev}, journal={FEBS letters}, year={1989}, volume={244 1}, pages={39-42} }