ArticleNucleic acids research2016
A DNAzyme requiring two different metal ions at two distinct sites.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17 citing papers in PubMed, 91 citations in OpenAlex.
- Cleaving DNA with DNA: Cooperative Tuning of Structure and Reactivity Driven by Copper Ions.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Construction and Application of DNAzyme-based Nanodevices.Chemical research in Chinese universities · 2023Review
- DNA Assembly-Based Stimuli-Responsive Systems.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2021Review
- New DNA-hydrolyzing DNAs isolated from an ssDNA library carrying a terminal hybridization stem.Nucleic acids research · 2021Article
- Catalytic Nucleic Acids: Biochemistry, Chemical Biology, Biosensors, and Nanotechnology.iScience · 2020Review
- Constructing Controllable Logic Circuits Based on DNAzyme Activity.Molecules (Basel, Switzerland) · 2019Article
- From general base to general acid catalysis in a sodium-specific DNAzyme by a guanine-to-adenine mutation.Nucleic acids research · 2019Article
- A Novel Small RNA-Cleaving Deoxyribozyme with a Short Binding Arm.Scientific reports · 2019Article
- Allosteric DNAzyme-based DNA logic circuit: operations and dynamic analysis.Nucleic acids research · 2019Article
- Article
- Misfolding of a DNAzyme for ultrahigh sodium selectivity over potassium.Nucleic acids research · 2018Article
- Characterization of Highly Efficient RNA-Cleaving DNAzymes that Function at Acidic pH with No Divalent Metal-Ion Cofactors.ChemistryOpen · 2017Article
- Theranostic DNAzymes.Theranostics · 2017Review
- Integrating Deoxyribozymes into Colorimetric Sensing Platforms.Sensors (Basel, Switzerland) · 2016Review
- A highly specific sodium aptamer probed by 2-aminopurine for robust Na+ sensing.Nucleic acids research · 2016Article
- Biochemical and Biophysical Understanding of Metal Ion Selectivity of DNAzymes.Inorganica chimica acta · 2016Article
- Label-Free Ag⁺ Detection by Enhancing DNA Sensitized Tb(3+) Luminescence.Sensors (Basel, Switzerland) · 2016Article
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Authors and funding
5 authors at 2 institutions in 2 countries.
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No grant is acknowledged in the PubMed record.
Abstract
Most previously reported RNA-cleaving DNAzymes require only a single divalent metal ion for catalysis. We recently reported a general trivalent lanthanide-dependent DNAzyme named Ce13d. This work shows that Ce13d requires both Na(+) and a trivalent lanthanide (e.g. Ce(3+)), simultaneously. This discovery is facilitated by the sequence similarity between Ce13d and a recently reported Na(+)-specific DNAzyme, NaA43. The Ce13d cleavage rate linearly depends on the concentration of both metal ions. Sensitized Tb(3+) luminescence and DMS footprinting experiments indicate that the guanines in the enzyme loop are important for Na(+)-binding. The Na(+) dissociation constants of Ce13d measured from the cleavage activity assay, Tb(3+) luminescence and DMS footprinting are 24.6, 16.3 and 47 mM, respectively. Mutation studies indicate that the role of Ce(3+) might be replaced by G23 in NaA43. Ce(3+) functions by stabilizing the transition state phosphorane, thus promoting cleavage. G23 competes favorably with low concentration Ce(3+) (below 1 μM). The G23-to-hypoxanthine mutation suggests the N1 position of the guanine as a hydrogen bond donor. Together, Ce13d has two distinct metal binding sites, each fulfilling a different role. DNAzymes can be quite sophisticated in utilizing metal ions for catalysis and molecular recognition, similar to protein metalloenzymes.
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