ArticleThe journal of physical chemistry. B2010
Linear relationship between deformability and thermal stability of 2'-O-modified RNA hetero duplexes.
Article in The journal of physical chemistry. B, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- An siRMSD parameter of structural distortion induced by chemical modification is predictive of the off-target effect of siRNA.Molecular therapy. Nucleic acids · 2025Article
- Molecular Dynamics Study of the Hybridization between RNA and Modified Oligonucleotides.Journal of chemical theory and computation · 2019Article
- Structural and Energetic Effects of O2'-Ribose Methylation of Protonated Pyrimidine Nucleosides.Journal of the American Society for Mass Spectrometry · 2019Article
- Application of 2'-O-(2-N-Methylcarbamoylethyl) Nucleotides in RNase H-Dependent Antisense Oligonucleotides.Nucleic acid therapeutics · 2018Article
- Molecular Modeling Applied to Nucleic Acid-Based Molecule Development.Biomolecules · 2018Review
- Future strategies for the discovery of therapeutic aptamers.Expert opinion on drug discovery · 2017Article
- Tandem mass spectrometry of modified and platinated oligoribonucleotides.Journal of the American Society for Mass Spectrometry · 2011Article
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5 authors.
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Abstract
We describe the relationship between the experimentally determined melting temperatures of 2'-O-modified-RNA/RNA duplexes and their deformability estimated from molecular dynamics simulations. To clarify this relationship, we synthesized several fully modified oligoribonucleotides such as 2'-O-cyanoethyl RNAs and 2'-O-methoxyethyl RNAs and compared the actual melting temperatures of the duplexes with their calculated deformabilities. An increase of the melting temperatures by 2'-O-modifications was found to correlate strongly with an increase of the helical elastic constants in U(14)/A(14), (CU)(7)/(AG)(7), and (GACU)(3)/(AGUC)(3) sequences. Linear regression analyses could be used to estimate the melting temperature with an accuracy of +/-2.0 degrees C in our model case. Although the strong correlation was observed in the same base sequence, the linear regression functions were different from each base sequence. Our results indicated the possibility of predicting the thermal stability of 2'-O-modified duplexes at the computer-aided molecular design stage.
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