The importance of peripheral sequences in determining the metal selectivity of an in vitro-selected Co(2+) -dependent DNAzyme (Q35822915)

10 August 2017

The importance of peripheral sequences in determining the metal selectivity of an in vitro-selected Co(2+) -dependent DNAzyme (English)

1 reference

10 August 2017

Yi Lu

0 references

Kevin E Nelson

1 reference

10 August 2017

Hannah E Ihms

series ordinal

1 reference

10 August 2017

Debapriya Mazumdar

series ordinal

1 reference

10 August 2017

Peter J Bruesehoff

series ordinal

1 reference

10 August 2017

17 January 2012

1 reference

10 August 2017

1 reference

10 August 2017

1 reference

10 August 2017

1 reference

10 August 2017

381-391

1 reference

Metal ion sensors based on DNAzymes and related DNA molecules

10 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Promotive effect of the platinum moiety on the DNA cleavage activity of copper-based artificial nucleases

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

A Bulky Rhodium Complex Bound to an Adenosine-Adenosine DNA Mismatch: General Architecture of the Metalloinsertion Binding Mode

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Biologically inspired synthetic enzymes made from DNA.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Functional nucleic acid sensors

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Recognition of abasic sites and single base bulges in DNA by a metalloinsertor

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Highly sensitive and selective colorimetric sensors for uranyl (UO2(2+)): development and comparison of labeled and label-free DNAzyme-gold nanoparticle systems

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Ligand-pKa shifts through metals: potential relevance to ribozyme chemistry

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Catalytic DNA (deoxyribozymes) for synthetic applications-current abilities and future prospects

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

DNAzyme technology and cancer therapy: cleave and let die.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Sequence-function relationships provide new insight into the cleavage site selectivity of the 8-17 RNA-cleaving deoxyribozyme

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

A deoxyribozyme with a novel guanine quartet-helix pseudoknot structure

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

The structural basis of ribozyme-catalyzed RNA assembly

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

A catalytic beacon sensor for uranium with parts-per-trillion sensitivity and millionfold selectivity

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Alternative roles for metal ions in enzyme catalysis and the implications for ribozyme chemistry

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Extraordinary rates of transition metal ion-mediated ribozyme catalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Characterization of long RNA-cleaving deoxyribozymes with short catalytic cores: the effect of excess sequence elements on the outcome of in vitro selection

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Revitalization of six abandoned catalytic DNA species reveals a common three-way junction framework and diverse catalytic cores

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

DNA catalysis: potential, limitations, open questions

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Zn2+-dependent deoxyribozymes that form natural and unnatural RNA linkages

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Metal complex-DNA interactions: from transcription inhibition to photoactivated cleavage

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Engineered allosteric ribozymes that respond to specific divalent metal ions

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Characterization of a native hammerhead ribozyme derived from schistosomes

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Artificial tertiary motifs stabilize trans-cleaving hammerhead ribozymes under conditions of submillimolar divalent ions and high temperatures

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

DNAzymes: from creation in vitro to application in vivo.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

The contribution of metal ions to the structural stability of the large ribosomal subunit

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Yeast telomerase RNA: a flexible scaffold for protein subunits

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Dinucleotide junction cleavage versatility of 8-17 deoxyribozyme

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Selection in vitro of allosteric ribozymes

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

The Varkud satellite ribozyme

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Metal ion binding to catalytic RNA molecules

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Mfold web server for nucleic acid folding and hybridization prediction

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

An efficient RNA-cleaving DNA enzyme that synchronizes catalysis with fluorescence signaling.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Self-induced structural switches in RNA.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Metal ions in the structure and function of RNA.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Metal ion binding and the folding of the hairpin ribozyme

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

RNA cleavage by a DNA enzyme with extended chemical functionality

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Intramolecular secondary structure rearrangement by the kissing interaction of the Neurospora VS ribozyme

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

The P5abc peripheral element facilitates preorganization of the tetrahymena group I ribozyme for catalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

In vitro selection and characterization of a highly efficient Zn(II)-dependent RNA-cleaving deoxyribozyme

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Deoxyribozymes: new players in the ancient game of biocatalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

11 July 2018

Cleaving DNA with DNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

A DNA enzyme that cleaves RNA

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Toward an efficient DNAzyme

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

A general purpose RNA-cleaving DNA enzyme

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Ribozymes: A Distinct Class of Metalloenzymes

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Multiple sequence alignment with hierarchical clustering

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Tech.Sight. Molecular biology. Making catalytic DNAs.

11 July 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

The Ca2+ Ion as a Cofactor for a Novel RNA-Cleaving Deoxyribozyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

A lead-dependent DNAzyme with a two-step mechanism

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Biochemical characterization of a uranyl ion-specific DNAzyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

A colorimetric lead biosensor using DNAzyme-directed assembly of gold nanoparticles

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

New highly sensitive and selective catalytic DNA biosensors for metal ions.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Efficient signaling platforms built from a small catalytic DNA and doubly labeled fluorogenic substrates

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Entrapment of fluorescence signaling DNA enzymes in sol-gel-derived materials for metal ion sensing.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Enzymatic cleavage of nucleic acids on gold nanoparticles: a generic platform for facile colorimetric biosensors

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Effect of the ribose versus 2'-deoxyribose residue on the metal ion-binding properties of purine nucleotides

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

A stability concept for metal ion coordination to single-stranded nucleic acids and affinities of individual sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

"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).

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Local rather than global folding enables the lead-dependent activity of the 8-17 deoxyribozyme: evidence from contact photo-crosslinking.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Divalent metal ions tune the self-splicing reaction of the yeast mitochondrial group II intron Sc.ai5gamma.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Substrate specificity and reaction kinetics of an X-motif ribozyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Metal ion-N7 coordination in a ribozyme branch domain by NMR.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Model for an RNA tertiary interaction from the structure of an intermolecular complex between a GAAA tetraloop and an RNA helix.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Catalysis and rational engineering of trans-acting pH6DZ1, an RNA-cleaving and fluorescence-signaling deoxyribozyme with a four-way junction structure

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

A deoxyribozyme that forms a three-helix-junction complex with its RNA substrates and has general RNA branch-forming activity

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Design of a highly reactive HDV ribozyme sequence uncovers facilitation of RNA folding by alternative pairings and physiological ionic strength

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Ca2+ induces the formation of two distinct subpopulations of group II intron molecules

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Roles of Mg2+ in TPP-dependent riboswitch

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Structural switch of telomere DNA by pH and monovalent cation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Effect of divalent cations on antiparallel G-quartet structure of d(G4T4G4).

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

A Highly Sensitive and Selective Catalytic DNA Biosensor for Lead Ions

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Evolution of high-branching deoxyribozymes from a catalytic DNA with a three-way junction

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3299816

Structural Competition Involving G-Quadruplex DNA and Its Complement†

24 September 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Rational Design of “Turn-On” Allosteric DNAzyme Catalytic Beacons for Aqueous Mercury Ions with Ultrahigh Sensitivity and Selectivity

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

A DNAzyme Catalytic Beacon Sensor for Paramagnetic Cu2+Ions in Aqueous Solution with High Sensitivity and Selectivity

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

FRET Study of a Trifluorophore-Labeled DNAzyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Allosteric nucleic acid catalysts

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

5S RNA secondary structure

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FCBIC.201100724

Simple and rapid colorimetric enzyme sensing assays using non-crosslinking gold nanoparticle aggregation

21 January 2018

1 reference

12 December 2020

Investigations of the cation binding to nucleotides by monitoring the hairpin-duplex equilibrium of a self-complementary sequence

1 reference

12 December 2020

A highly selective DNAzyme sensor for mercuric ions

1 reference

12 December 2020

Improving metal ion specificity during in vitro selection of catalytic DNA

1 reference

12 December 2020

Basis for structural diversity in homologous RNAs

1 reference

12 December 2020

Thermal stability and hydration state of DNA G-quadruplex regulated by loop regions

1 reference

12 December 2020

RNA Secondary Structure Switching during DNA Synthesis Catalyzed by HIV-1 Reverse Transcriptase

1 reference

12 December 2020

New transition-metal-dependent DNAzymes as efficient endonucleases and as selective metal biosensors

1 reference

12 December 2020

The influence of sequence context and length on the kinetics of DNA duplex formation from complementary hairpins possessing (CNG) repeats

1 reference

12 December 2020

1 reference

12 December 2020

Assemblage of signaling DNA enzymes with intriguing metal-ion specificities and pH dependences

1 reference

12 December 2020

Preferential activation of the 8-17 deoxyribozyme by Ca(2+) ions. Evidence for the identity of 8-17 with the catalytic domain of the Mg5 deoxyribozyme

1 reference

12 December 2020

Structure of a folding intermediate reveals the interplay between core and peripheral elements in RNA folding

1 reference

12 December 2020

Divalent metal ions promote the formation of the 5'-splice site recognition complex in a self-splicing group II intron

1 reference

12 December 2020

Identifiers

DOI

10.1002/CBIC.201100724

1 reference

10 August 2017

1 reference

10 August 2017

PubMed publication ID

22250000

1 reference