1HWQ

SOLUTION STRUCTURE OF THE VS RIBOZYME SUBSTRATE STEM-LOOP

Summary for 1HWQ

Entry DOI	10.2210/pdb1hwq/pdb
NMR Information	BMRB: 5007
Descriptor	VS RIBOZYME SUBSTRATE RNA (1 entity in total)
Functional Keywords	vs ribozyme, stem-loop, tandem ga, protonated adenine, a+c base pair, rna
Total number of polymer chains	1
Total formula weight	9705.83
Authors	Flinders, J.C.,Dieckmann, T. (deposition date: 2001-01-09, release date: 2001-05-16, Last modification date: 2024-05-22)
Primary citation	Flinders, J.,Dieckmann, T. A pH controlled conformational switch in the cleavage site of the VS ribozyme substrate RNA. J.Mol.Biol., 308:665-679, 2001 Cited by PubMed Abstract: 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. PubMed: 11350168 DOI: 10.1006/jmbi.2001.4627 PDB entries with the same primary citation
Experimental method	SOLUTION NMR

Structure validation