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Publication Abstract from PubMed

The VS ribozyme is a 154 nucleotide sequence found in certain natural strains of Neurospora. The RNA can be divided into a substrate and a catalytic domain. Here we present the solution structure of the substrate RNA that is cleaved in a trans reaction by the catalytic domain in the presence of Mg2+. The 30 nucleotide substrate RNA forms a compact helix capped by a flexible loop. The cleavage site bulge contains three non-canonical base-pairs, including an A+.C pair with a protonated adenine. This adenine (A622) is a pH controlled conformational switch that opens up the internal loop at higher pH. The possible significance of this switch for substrate recognition and cleavage is discussed.

A pH controlled conformational switch in the cleavage site of the VS ribozyme substrate RNA.,Flinders J, Dieckmann T J Mol Biol. 2001 May 11;308(4):665-79. PMID:11350168^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.