RNA aptamers for the MS2 bacteriophage coat protein and the wild-type RNA operator have similar solution behaviour
- 15 January 2000
- journal article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 28 (2) , 489-497
- https://doi.org/10.1093/nar/28.2.489
Abstract
We have probed the effects of altering buffer conditions on the behaviour of two aptamer RNAs for the bacterio-phage MS2 coat protein using site-specific substitution of 2'-deoxy-2-aminopurine nucleotides at key adenosine positions. These have been compared to the wild-type operator stem-loop oligonucleotide, which is the natural target for the coat protein. The fluorescence emission spectra show a position and oligonucleotide sequence dependence which appears to reflect local conformational changes. These are largely similar between the differing oligonucleotides and deviations can be explained by the individual features of each sequence. Recognition by coat protein is enhanced, unaffected or decreased depending on the site of substitution, consistent with the known protein-RNA contacts seen in crystal structures of the complexes. These data suggest that the detailed conformational dynamics of aptamers and wild-type RNA ligands for the same protein target are remarkably similar.Keywords
This publication has 26 references indexed in Scilit:
- Crystal structures of a series of RNA aptamers complexed to the same protein targetNature Structural & Molecular Biology, 1998
- Full 1H NMR assignment of a 24-nucleotide RNA hairpin: application of the 1H 3D-NOE/2QC experiment.Journal of Biomolecular NMR, 1998
- The limits of specificity: An experimental analysis with RNA aptamers to MS2 coat protein variantsMolecular Diversity, 1998
- Probing sequence-specific RNA recognition by the bacteriophage MS2 coat protienNucleic Acids Research, 1995
- Crystal structure of the MS2 coat protein dimer: implications for RNA binding and virus assemblyStructure, 1995
- Systematic Evolution of Ligands by Exponential Enrichment: RNA Ligands to Bacteriophage T4 DNA PolymeraseScience, 1990
- Use of synthetic oligoribonucleotides to probe RNA-protein interactions in the MS2 translational operator complexNucleic Acids Research, 1990
- [22] absorbance melting curves of RNAPublished by Elsevier ,1989
- Ribonucleoprotein complexes of R17 coat protein and a translational operator analogJournal of Molecular Biology, 1988
- Fluorescence studies of nucleotides and polynucleotides. I. Formycin, 2-aminopurine riboside, 2,6-diaminopurine riboside, and their derivatives.1969