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Nucleic Acids Research, 1981, Vol. 9, No. 4 841-858
© 1981

MOLECULAR BIOLOGY

The conformation of chicken, rat and human U1A RNAs in solution

Christiane Branlant$, Alain Krol, Jean-Pierre Ebel, Hélène Gallinaro, Eliane Lazar and Monique Jacob

Institut de Biologie Moléculaire et Cellulaire du CNRS, Université Louis Pasteur de Strasbourg 15, rue René Descartes, 67084 Strasbourg Cédex Laboratoire de Génétique Moléculaire des Eucaryotes, Unité de Biologie Moléculaire et de Génie Génétique 11, rue Humann, 67085 Strasbourg Cédex, France

$To whom all correspondence should be sent

Received December 10, 1980. Chicken, rat and human U1A RNAs in solution, were examined for secondary structure, using several methods including hydrolysis by various nucleases, hybridization to DNA oligomers and analysis of fragment interactions. The experimental results showed that the three U1A RNAs have the same structure, stable over a wide range of pH and ionic conditions. They allowed the selection of one out of several possible models constructed from the data of primary structure. This model is characterized by 4 hairpins and two single-stranded regions, the two hairpins from the 3' part of the molecule hearing very stable stems. In addition, the experimental results showed that in contrast to the 5' half of the molecule, the 3' half has a compact conformation probably stabilized by tertiary interactions. The 5' end of U1A RNA is accessible and free of base-pairing so that it might base-pair with regions of other RNA molecules, for instance, with the extremities of introns as has been recently proposed in a model of splicing.


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