Hammerhead redux: Does the new structure fit the old biochemical data?
- 20 February 2008
- journal article
- research article
- Published by Cold Spring Harbor Laboratory in RNA
- Vol. 14 (4), 605-615
- https://doi.org/10.1261/rna.912608
Abstract
The cleavage rates of 78 hammerhead ribozymes containing structurally conservative chemical modifications were collected from the literature and compared to the recently determined crystal structure of the Schistosoma mansoni hammerhead. With only a few exceptions, the biochemical data were consistent with the structure, indicating that the new structure closely resembles the transition state of the reaction. Since all the biochemical data were collected on minimal hammerheads that have a very different structure, the minimal hammerhead must be dynamic and occasionally adopt the quite different extended structure in order to cleave.Keywords
This publication has 56 references indexed in Scilit:
- Minimal and extended hammerheads utilize a similar dynamic reaction mechanism for catalysisRNA, 2007
- The tolerance to exchanges of the Watson–Crick base pair in the hammerhead ribozyme core is determined by surrounding elementsRNA, 2007
- Efficient Ligation of the Schistosoma Hammerhead RibozymeBiochemistry, 2007
- Effects of the trinucleotide preceding the self-cleavage site on eggplant latent viroid hammerheads: differences in co- and post-transcriptional self-cleavage may explain the lack of trinucleotide AUC in most natural hammerheadsNucleic Acids Research, 2006
- Extraordinary rates of transition metal ion-mediated ribozyme catalysisRNA, 2006
- Chemical rescue, multiple ionizable groups, and general acid–base catalysis in the HDV genomic ribozymeRNA, 2006
- Hammerheads Derived from sTRSV Show Enhanced Cleavage and Ligation Rate ConstantsBiochemistry, 2005
- Role of an Active Site Adenine in Hairpin Ribozyme CatalysisJournal of Molecular Biology, 2005
- Characterization of a native hammerhead ribozyme derived from schistosomesRNA, 2005
- Capturing the Structure of a Catalytic RNA Intermediate: The Hammerhead RibozymeScience, 1996