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Literature summary for 3.1.26.4 extracted from

  • Kauffmann, A.; Campagna, R.; Bartels, C.; Childs-Disney, J.
    Improvement of RNA secondary structure prediction using RNase H cleavage and randomized oligonucleotides (2009), Nucleic Acids Res., 37, e121.
    View publication on PubMedView publication on EuropePMC
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Application

Application Comment Organism
analysis facile method that identifies single-stranded regions in RNA using short, randomized DNA oligonucleotides and RNase H cleavage. These regions are then used as constraints in secondary structure prediction. This method was used to improve the secondary structure prediction of Escherichia coli 5S rRNA. The addition of constraints from RNase H cleavage improves the prediction to 100% of base pairs. The same method was used to generate secondary structure constraints for yeast tRNAPhe, which is accurately predicted in the absence of constraints to 95%. The method is advantageous over other single-stranded nucleases since RNase H is functional in physiological conditions and can be used for any RNA to identify accessible binding sites for oligonucleotides or small molecules Escherichia coli

Organism

Organism UniProt Comment Textmining
Escherichia coli
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Source Tissue

Source Tissue Comment Organism Textmining
commercial preparation
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 Escherichia coli
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