Effect of 2′-O-methylation on the structure of mammalian 5.8S rRNAs and the 5.8S—28S rRNA junction

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Abstract
The mammalian 5.8S rRNA contains a partially 2′-0-methylated uridylic acid residue at position 14 which is largely or entirely methylated in the cytoplasm (Nazar, R.N., Sitz, T.O. and Sommers, K.D. (1980) J. Mol. Biol. 142, 117–121). The effect of this methylation on the 5.8S RNA structure and 5.8–28S rRNA junction was investigated using both chemical and physical approaches. Electrophoretic studies indicated that the free 5.8S rRNA can take on at least two different conformations and that the 2′-0-methylation at U14 restricts the molecule to the more hydrodynamically open form. Structural studies using limited pancreatic or T1 ribonuclease digestion indicated that the methylated conformation was more susceptible to digestion, consistent with a more open tertiary structure. Modification-exclusion studies indicated that the first 29 nucleotides at the 5′ end and residues 140 through 158 at the 3′ end affect the 5.8S–28S rRNA interaction, supporting previous suggestions that the 5.8S RNA interacts with its cognate high molecular weight component through its termini. These results also suggested that the 2′-0-methylated uridylic acid residue plays a role in the 5.8S–28S rRNA interaction and thermal denaturation studies confirmed this by showing that methylation destabilizes the 5.8S–28S rRNA junction. The 5.8–28S rRNA interaction appears to be more complex than previously believed.