Tuning RNA folding and function through rational design of junction topology (Q49220038)

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scientific article published in September 2017

Language	Label	Description	Also known as
English	Tuning RNA folding and function through rational design of junction topology	scientific article published in September 2017

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scholarly article

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

Tuning RNA folding and function through rational design of junction topology (English)

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

0 references

5

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

author name string

May Daher

1

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

Anthony M Mustoe

2

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

Alex Morriss-Andrews

3

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

Charles L Brooks

4

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

language of work or name

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publication date

1 September 2017

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Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

Nucleic Acids Research

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

45

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

16

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

9706-9715

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

copyright license

Creative Commons Attribution-NonCommercial 4.0 International

17 July 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

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describes a project that uses

1 reference

Europe PubMed Central

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC5766210/fullTextXML

based on heuristic

inferred from PubMed Central ID database lookup

Crystal-Structure-Guided Design of Self-Assembling RNA Nanotriangles.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Secondary structure encodes a cooperative tertiary folding funnel in the Azoarcus ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Noncanonical secondary structure stabilizes mitochondrial tRNA(Ser(UCN)) by reducing the entropic cost of tertiary folding.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Molecular crowding accelerates ribozyme docking and catalysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Topological constraints are major determinants of tRNA tertiary structure and dynamics and provide basis for tertiary folding cooperativity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Understanding nucleic acid-ion interactions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Coarse grained models reveal essential contributions of topological constraints to the conformational free energy of RNA bulges

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

WExplore: hierarchical exploration of high-dimensional spaces using the weighted ensemble algorithm.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

The many faces of the hairpin ribozyme: structural and functional variants of a small catalytic RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

New insights into the fundamental role of topological constraints as a determinant of two-way junction conformation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

The Small Ribozymes: Common and Diverse Features Observed through the FRET Lens

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Topological constraints: using RNA secondary structure to model 3D conformation, folding pathways, and dynamic adaptation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Structure of the three-way helical junction of the hepatitis C virus IRES element

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Analysis of complex single-molecule FRET time trajectories

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Do conformational biases of simple helical junctions influence RNA folding stability and specificity?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Analysis of four-way junctions in RNA structures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

CHARMM: the biomolecular simulation program

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Dissecting the multistep reaction pathway of an RNA enzyme by single-molecule kinetic "fingerprinting".

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

A nomenclature of junctions and branchpoints in nucleic acids

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Ions and RNA folding

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Building programmable jigsaw puzzles with RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Single-molecule enzymology of RNA: essential functional groups impact catalysis from a distance

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Modifications and deletions of helices within the hairpin ribozyme-substrate complex: an active ribozyme lacking helix 1.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

A four-way junction accelerates hairpin ribozyme folding via a discrete intermediate

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Transition state stabilization by a catalytic RNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Correlating structural dynamics and function in single ribozyme molecules

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Structural dynamics of catalytic RNA highlighted by fluorescence resonance energy transfer.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

The folding of the hairpin ribozyme: dependence on the loops and the junction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

The hammerhead, hairpin and VS ribozymes are catalytically proficient in monovalent cations alone

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Structural basis for heterogeneous kinetics: reengineering the hairpin ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Hierarchy and dynamics of RNA folding

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Essential nucleotide sequences and secondary structure elements of the hairpin ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Catalytically active geometry in the reversible circularization of ‘mini-monomer’ RNAs derived from the complementary strand of tobacco ringspot virus satellite RNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

22 May 2018

Mutually Exclusive Formation of G-Quadruplex and i-Motif Is a General Phenomenon Governed by Steric Hindrance in Duplex DNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

14 August 2018

Topology links RNA secondary structure with global conformation, dynamics, and adaptation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

14 August 2018

Topology of three-way junctions in folded RNAs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

14 August 2018

The linkage between magnesium binding and RNA folding.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

14 August 2018

Probing non-selective cation binding in the hairpin ribozyme with Tb(III).

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

14 August 2018

Stability of hairpin ribozyme tertiary structure is governed by the interdomain junction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5766210

14 August 2018

Construction of hairpin ribozymes with a three-way junction

1 reference

https://pubmed.ncbi.nlm.nih.gov/28934478

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The hairpin ribozyme: structure, assembly and catalysis

1 reference

https://pubmed.ncbi.nlm.nih.gov/28934478

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A unique mechanism for RNA catalysis: the role of metal cofactors in hairpin ribozyme cleavage

1 reference

https://pubmed.ncbi.nlm.nih.gov/28934478

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

An unusual pH-independent and metal-ion-independent mechanism for hairpin ribozyme catalysis

1 reference

https://pubmed.ncbi.nlm.nih.gov/28934478

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Structure-mapping of the hairpin ribozyme. Magnesium-dependent folding and evidence for tertiary interactions within the ribozyme-substrate complex

1 reference

https://pubmed.ncbi.nlm.nih.gov/28934478

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

RNA self-assembly and RNA nanotechnology

1 reference

https://pubmed.ncbi.nlm.nih.gov/28934478

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Helical junctions as determinants for RNA folding: origin of tertiary structure stability of the hairpin ribozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/28934478

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Bulge-induced bends in RNA: quantification by transient electric birefringence

1 reference

https://pubmed.ncbi.nlm.nih.gov/28934478

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The molecular interactions that stabilize RNA tertiary structure: RNA motifs, patterns, and networks

1 reference

https://pubmed.ncbi.nlm.nih.gov/28934478

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/NAR/GKX614

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

19 February 2018

http://europepmc.org/abstract/PMC/5766210

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