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Nucleic Acids Research, 1985, Vol. 13, No. 9 3317-3333
© 1985

Articles

Conformational characteristics of the hexanucleoside pentaphosphate AUAUAU: a 2D NMR study at 500 MHz

Peter P. Lankhorst, Gijs van der Marel, Gerry Wille, Jacques H. van Boom and Cornelis Altona

Gorlaeus Laboratories, State University of Leiden P. O. Box 9502, 2300 RA Leiden, The Netherlands

Received March 14, 1985. Accepted April 10, 1985.

All 36 ribose proton resonances and most of the base proton resonances of the hexanucleoside pentaphosphate AUAUAU have been assigned unequivocally using 2D J-resolved spectroscopy, spin echo correlated spectroscopy (SECSY) and 2D NOE spectroscopy (NOESY).

The NMR parameters of AUAUAU are compared with those of smaller fragments that contain methylated adenine bases: Formula and Formula. Previous studies on this series of compounds have shown that in all these cases purine-pyrimidine-purine sequences prefer to adopt a mixture of states which have as common feature that the interior pyrimidine residues are bulged out, whereas the purine residues stack upon each other.

Chemical shift data, proton-proton coupling constants, as well as the observation of imino-proton resonances for AUAUAU show unambiguously that upon lowering the temperature the high-temperature "bulged out" situation reverts to a normal A-RNA-like double helix.


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