The Importance of Peripheral Sequences in Determining the Metal Selectivity of an in Vitro‐Selected Co2+‐Dependent DNAzyme

No abstract is available for this paper.

• Publication year

  2012

• Venue

  ChemBioChem

• Publication date

  2012-02-13

• Fields of study

  Biology, Medicine, Chemistry

• Identifiers
  DOI 10.1002/cbic.201100724PMID 22250000PMCID PMC3299816
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Metal ion sensors based on DNAzymes and related DNA molecules.

  2011cited by this paper
• "Directed" assembly of metallacalix[n]arenes with pyrimidine nucleobase ligands of low symmetry: metallacalix[n]arene derivatives of cis-[a2M(cytosine-N3)2]2+ (M=Pt(II), Pd(II); n=4 and 6).

  2011cited by this paper
• Metal ion-N7 coordination in a ribozyme branch domain by NMR.

  2010cited by this paper
• Promotive effect of the platinum moiety on the DNA cleavage activity of copper-based artificial nucleases.

  2010cited by this paper
• Local rather than global folding enables the lead-dependent activity of the 8-17 deoxyribozyme: evidence from contact photo-crosslinking.

  2010cited by this paper
• A stability concept for metal ion coordination to single-stranded nucleic acids and affinities of individual sites.

  2010cited by this paper
• Recognition of abasic sites and single base bulges in DNA by a metalloinsertor.

  2009cited by this paper
• Calcium induziert die Bildung zweier Subpopulationen von Gruppe‐II‐Intron‐Molekülen

  2009cited by this paper
• Biologically inspired synthetic enzymes made from DNA.

  2009cited by this paper
• Ca2+ induces the formation of two distinct subpopulations of group II intron molecules.

  2009cited by this paper
• Functional nucleic acid sensors.

  2009cited by this paper
• Biochemical Characterization of a Uranyl Ion‐Specific DNAzyme

  2009cited by this paper
• A bulky rhodium complex bound to an adenosine-adenosine DNA mismatch: general architecture of the metalloinsertion binding mode.

  2009cited by this paper
• Thermal stability and hydration state of DNA G-quadruplex regulated by loop regions.

  2009cited by this paper
• Investigations of the cation binding to nucleotides by monitoring the hairpin-duplex equilibrium of a self-complementary sequence.

  2009cited by this paper
• Effect of the ribose versus 2'-deoxyribose residue on the metal ion-binding properties of purine nucleotides.

  2008cited by this paper
• DNAzyme technology and cancer therapy: cleave and let die

  2008cited by this paper
• Sequence-function relationships provide new insight into the cleavage site selectivity of the 8–17 RNA-cleaving deoxyribozyme

  2008cited by this paper
• Ligand‐pKa Shifts through Metals: Potential Relevance to Ribozyme Chemistry

  2008cited by this paper
• A highly selective DNAzyme sensor for mercuric ions.

  2008cited by this paper
• Enzymatic cleavage of nucleic acids on gold nanoparticles: a generic platform for facile colorimetric biosensors.

  2008cited by this paper
• Divalent metal ions tune the self-splicing reaction of the yeast mitochondrial group II intron Sc.ai5γ

  2008cited by this paper
• A deoxyribozyme with a novel guanine quartet-helix pseudoknot structure.

  2008cited by this paper
• Divalent metal ions promote the formation of the 5'-splice site recognition complex in a self-splicing group II intron.

  2008cited by this paper
• Catalytic DNA (deoxyribozymes) for synthetic applications-current abilities and future prospects.

  2008cited by this paper
• Highly sensitive and selective colorimetric sensors for uranyl (UO2(2+)): development and comparison of labeled and label-free DNAzyme-gold nanoparticle systems.

  2008cited by this paper
• Design of artificial metallonucleases with oxidative mechanism

  2007cited by this paper
• Rational design of "turn-on" allosteric DNAzyme catalytic beacons for aqueous mercury ions with ultrahigh sensitivity and selectivity.

  2007cited by this paper
• Entrapment of fluorescence signaling DNA enzymes in sol-gel-derived materials for metal ion sensing.

  2007cited by this paper
• Alternative roles for metal ions in enzyme catalysis and the implications for ribozyme chemistry.

  2007cited by this paper
• A DNAzyme catalytic beacon sensor for paramagnetic Cu2+ ions in aqueous solution with high sensitivity and selectivity.

  2007cited by this paper
• A catalytic beacon sensor for uranium with parts-per-trillion sensitivity and millionfold selectivity

  2007cited by this paper
• Supporting Online Material for The Structural Basis of Ribozyme-Catalyzed RNA Assembly

  2007cited by this paper
• Simple and rapid colorimetric enzyme sensing assays using non-crosslinking gold nanoparticle aggregation.

  2007cited by this paper
• Revitalization of six abandoned catalytic DNA species reveals a common three-way junction framework and diverse catalytic cores.

  2006cited by this paper
• Evolution of high-branching deoxyribozymes from a catalytic DNA with a three-way junction.

  2006cited by this paper
• Extraordinary rates of transition metal ion-mediated ribozyme catalysis.

  2006cited by this paper
• Characterization of long RNA-cleaving deoxyribozymes with short catalytic cores: the effect of excess sequence elements on the outcome of in vitro selection

  2006cited by this paper
• Efficient signaling platforms built from a small catalytic DNA and doubly labeled fluorogenic substrates

  2006cited by this paper
• Catalysis and Rational Engineering of trans‐Acting pH6DZ1, an RNA‐Cleaving and Fluorescence‐Signaling Deoxyribozyme with a Four‐Way Junction Structure

  2006cited by this paper
• Structure of a folding intermediate reveals the interplay between core and peripheral elements in RNA folding.

  2005cited by this paper
• Structural switch of telomere DNA by pH and monovalent cation.

  2005cited by this paper
• The influence of sequence context and length on the kinetics of DNA duplex formation from complementary hairpins possessing (CNG) repeats.

  2005cited by this paper
• Metal complex-DNA interactions: from transcription inhibition to photoactivated cleavage.

  2005cited by this paper
• Roles of Mg2+ in TPP‐dependent riboswitch

  2005cited by this paper
• Zn2+-dependent deoxyribozymes that form natural and unnatural RNA linkages.

  2005cited by this paper
• Engineered allosteric ribozymes that respond to specific divalent metal ions

  2005cited by this paper
• A deoxyribozyme that forms a three-helix-junction complex with its RNA substrates and has general RNA branch-forming activity.

  2005cited by this paper
• DNA Catalysis: Potential, Limitations, Open Questions

  2005cited by this paper
• Characterization of a native hammerhead ribozyme derived from schistosomes.

  2005cited by this paper
• Basis for Structural Diversity in Homologous RNAs

  2004cited by this paper
• Artificial tertiary motifs stabilize trans-cleaving hammerhead ribozymes under conditions of submillimolar divalent ions and high temperatures.

  2004cited by this paper
• The Varkud satellite ribozyme.

  2004cited by this paper
• DNAzymes: from creation in vitro to application in vivo.

  2004cited by this paper
• Selection in vitro of allosteric ribozymes.

  2004cited by this paper
• Design of a highly reactive HDV ribozyme sequence uncovers facilitation of RNA folding by alternative pairings and physiological ionic strength.

  2004cited by this paper
• The contribution of metal ions to the structural stability of the large ribosomal subunit.

  2004cited by this paper
• Dinucleotide junction cleavage versatility of 8-17 deoxyribozyme.

  2004cited by this paper
• Ribozymes and siRNA protocols

  2004cited by this paper
• Yeast telomerase RNA: a flexible scaffold for protein subunits.

  2004cited by this paper
• Substrate specificity and reaction kinetics of an X-motif ribozyme.

  2003cited by this paper
• A colorimetric lead biosensor using DNAzyme-directed assembly of gold nanoparticles.

  2003cited by this paper
• A lead-dependent DNAzyme with a two-step mechanism.

  2003cited by this paper
• New transition-metal-dependent DNAzymes as efficient endonucleases and as selective metal biosensors.

  2003cited by this paper
• Structural competition involving G-quadruplex DNA and its complement.

  2003cited by this paper
• New highly sensitive and selective catalytic DNA biosensors for metal ions.

  2003cited by this paper
• Assemblage of signaling DNA enzymes with intriguing metal-ion specificities and pH dependences.

  2003cited by this paper
• Metal ion binding to catalytic RNA molecules.

  2003cited by this paper
• Mfold web server for nucleic acid folding and hybridization prediction

  2003cited by this paper
• An efficient RNA-cleaving DNA enzyme that synchronizes catalysis with fluorescence signaling.

  2003cited by this paper
• Self-induced structural switches in RNA.

  2002cited by this paper
• New transition-metal-dependent DNAzymes as efficient endonucleases and as selective metal biosensors.

  2002cited by this paper
• Metal ions in the structure and function of RNA

  2002cited by this paper
• Improving metal ion specificity during in vitro selection of catalytic DNA.

  2002cited by this paper
• Metal ion binding and the folding of the hairpin ribozyme.

  2002cited by this paper
• FRET study of a trifluorophore-labeled DNAzyme.

  2002cited by this paper
• Intramolecular secondary structure rearrangement by the kissing interaction of the Neurospora VS ribozyme

  2001cited by this paper
• Effect of divalent cations on antiparallel G‐quartet structure of d(G4T4G4)

  2001cited by this paper
• A highly sensitive and selective catalytic DNA biosensor for lead ions [9]

  2000cited by this paper
• The P5abc peripheral element facilitates preorganization of the tetrahymena group I ribozyme for catalysis.

  2000cited by this paper
• Tech.Sight. Molecular biology. Making catalytic DNAs.

  2000cited by this paper
• Biochimie

  2000cited by this paper
• Preferential Activation of the 8–17 Deoxyribozyme by Ca 2+ Ions

  2000cited by this paper
• Allosteric nucleic acid catalysts.

  2000cited by this paper
• Making Catalytic DNAs

  2000cited by this paper
• In vitro selection and characterization of a highly efficient Zn(II)-dependent RNA-cleaving deoxyribozyme.

  2000cited by this paper
• RNA cleavage by a DNA enzyme with extended chemical functionality.

  2000cited by this paper
• Advanced Inorganic Chemistry

  1999influential reference
• Deoxyribozymes: new players in the ancient game of biocatalysis.

  1999cited by this paper
• DNA enzymes.

  1998cited by this paper
• Cleaving DNA with DNA.

  1998cited by this paper
• A general purpose RNA-cleaving DNA enzyme.

  1997cited by this paper
• RNA secondary structure switching during DNA synthesis catalyzed by HIV-1 reverse transcriptase.

  1997cited by this paper
• Toward an efficient DNAzyme.

  1997cited by this paper
• Ca2+-Ionen als Cofaktoren für ein neuartiges RNA-spaltendes Desoxyribozym†

  1996cited by this paper
• The Ca2+ Ion as a Cofactor for a Novel RNA-Cleaving Deoxyribozyme†

  1996cited by this paper
• A DNA enzyme that cleaves RNA.

  1994cited by this paper
• Model for an RNA tertiary interaction from the structure of an intermolecular complex between a GAAA tetraloop and an RNA helix

  1994cited by this paper
• Ribozymes: a distinct class of metalloenzymes.

  1993cited by this paper
• Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis.

  1990cited by this paper

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• Label-Free Fluorescent Determination of Lead (II) Using DNAzyme and Thiazole Orange

  2022cites this paper
• Simultaneous and ultra-sensitive detection of Cu2+ and Mg2+ in wine and beer based on dual DNA tweezers and entropy-driven three-dimensional DNA nanomachine.

  2021cites this paper
• Recent advances in the construction of functional nucleic acids with isothermal amplification for heavy metal ions sensor

  2021cites this paper
• Growing prospects of DNA nanomaterials in novel biomedical applications

  2019cites this paper
• Metal-Dependent DNAzymes for the Quantitative Detection of Metal Ions in Living Cells: Recent Progress, Current Challenges, and Latest Results on FRET Ratiometric Sensors.

  2019cites this paper
• DNAzymes as Activity-Based Sensors for Metal Ions: Recent Applications, Demonstrated Advantages, Current Challenges, and Future Directions.

  2019cites this paper
• Metal Sensing by DNA.

  2017cites this paper
• Multiplexed gene silencing in living cells and in vivo using a DNAzymes-CoOOH nanocomposite.

  2017cites this paper
• Recent advances in DNA-based electrochemical biosensors for heavy metal ion detection: A review.

  2017cites this paper
• Current progress in biosensors for heavy metal ions based on DNAzymes/DNA molecules functionalized nanostructures: A review

  2016cites this paper
• Fluorescent nanoprobes for sensing and imaging of metal ions: recent advances and future perspectives.

  2016cites this paper
• Biochemical and Biophysical Understanding of Metal Ion Selectivity of DNAzymes.

  2016cites this paper
• Characterization of Highly Efficient RNA‐Cleaving DNAzymes that Function at Acidic pH with No Divalent Metal‐Ion Cofactors

  2016cites this paper
• DNA as sensors and imaging agents for metal ions.

  2014cites this paper
• Functional nucleic acid-based sensors for heavy metal ion assays.

  2014cites this paper
• Investigating the interactions between cations, peroxidation substrates and G-quadruplex topology in DNAzyme peroxidation reactions using statistical testing.

  2012cites this paper