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Nucleic Acids Research, 1987, Vol. 15, No. 8 3397-3409
© 1987

Articles

Comparison of the conformation of an oligonucleotide containing a central G-T base pair with the non-mismatch sequence by proton NMR

E. Quignard, G.V. Fazakerley, G. der van Marel1, J.H. Van Boom1 and W. Guschlbauer

Service de Biochimie, Batiment 142, Départment de Biologie, Centre d'Etudes Nucléaires de Saclay 91191 Gif-sur-Yvette Cédex, France 1Gorlaeus Laboratoria, University of Leiden 2300A-Leiden, The Netherlands

Received March 10, 1987. Accepted April 3, 1987.

We have recorded NOESY spectra of two non-selfcomplementary undecanucleotide duplexes. From the observed NOEs we do not detect any significant distortion of the helix when a G-C pair is replaced by a G-T pair and the normal inter-residue connectivities can be followed through the mismatch site. We conclude that the 2D spectra of the non-exchangeable protons do not allow differentiation between a wobble or rare tautomer form for the mismatch. NOE measurements in H2O, however, clearly show that the mismatch adopts a wobble structure and give information on the hydration in the minor groove for the B-T base pair which is embredded between two A-T base pairs in the sequence.


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