Dynamic energy landscapes of riboswitches help interpret conformational rearrangements and function (Q34167824)

31 July 2017

title

Dynamic energy landscapes of riboswitches help interpret conformational rearrangements and function (English)

1 reference

31 July 2017

1 reference

Giulio Quarta

1

0 references

Tamar Schlick

series ordinal

3

object named as

Tamar Schlick

1 reference

31 July 2017

Ken Sin

2

1 reference

31 July 2017

publication date

16 February 2012

1 reference

PLOS Computational Biology

31 July 2017

published in

1 reference

31 July 2017

volume

8

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31 July 2017

issue

2

1 reference

31 July 2017

page(s)

e1002368

1 reference

Creative Commons Attribution 4.0 International

31 July 2017

copyright license

start time

16 February 2012

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes

5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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Relative Stability of Helices Determines the Folding Landscape of Adenine Riboswitch Aptamers

5 July 2018

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S-box and T-box riboswitches and antisense RNA control a sulfur metabolic operon of Clostridium acetobutylicum

5 July 2018

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5 July 2018

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5 July 2018

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Hinge stiffness is a barrier to RNA folding

5 July 2018

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5 July 2018

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RNase P cleaves the adenine riboswitch and stabilizes pbuE mRNA in Bacillus subtilis

5 July 2018

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A widespread riboswitch candidate that controls bacterial genes involved in molybdenum cofactor and tungsten cofactor metabolism

5 July 2018

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5 July 2018

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5 July 2018

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Molecular basis of gene regulation by the THI-box riboswitch

5 July 2018

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Direct observation of hierarchical folding in single riboswitch aptamers

5 July 2018

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5 July 2018

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The distributions, mechanisms, and structures of metabolite-binding riboswitches

5 July 2018

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Structure and mechanism of a metal-sensing regulatory RNA

5 July 2018

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5 July 2018

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Metal-ion binding and metal-ion induced folding of the adenine-sensing riboswitch aptamer domain

5 July 2018

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Conformational changes in the expression domain of the Escherichia coli thiM riboswitch

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3280964

Control of alternative RNA splicing and gene expression by eukaryotic riboswitches

5 July 2018

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Ligand-induced folding of the adenosine deaminase A-riboswitch and implications on riboswitch translational control.

5 July 2018

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A riboswitch selective for the queuosine precursor preQ1 contains an unusually small aptamer domain

5 July 2018

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The intricate world of riboswitches

5 July 2018

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A computational proposal for designing structured RNA pools for in vitro selection of RNAs

5 July 2018

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Folding of the adenine riboswitch

5 July 2018

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CONTRAfold: RNA secondary structure prediction without physics-based models

5 July 2018

1 reference

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5 July 2018

Flipping riboswitches

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3280964

Structural basis for gene regulation by a thiamine pyrophosphate-sensing riboswitch

5 July 2018

1 reference

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Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand

5 July 2018

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Thermodynamic and kinetic characterization of ligand binding to the purine riboswitch aptamer domain

5 July 2018

1 reference

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RNA secondary structure prediction by centroids in a Boltzmann weighted ensemble

5 July 2018

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Structure of a natural guanine-responsive riboswitch complexed with the metabolite hypoxanthine

5 July 2018

1 reference

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Barrier-limited, microsecond folding of a stable protein measured with hydrogen exchange: Implications for downhill folding

5 July 2018

1 reference

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Using an RNA secondary structure partition function to determine confidence in base pairs predicted by free energy minimization

5 July 2018

1 reference

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The riboswitch control of bacterial metabolism

5 July 2018

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Adenine riboswitches and gene activation by disruption of a transcription terminator

5 July 2018

1 reference

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A statistical sampling algorithm for RNA secondary structure prediction

5 July 2018

1 reference

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An mRNA structure in bacteria that controls gene expression by binding lysine

5 July 2018

1 reference

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An mRNA structure that controls gene expression by binding S-adenosylmethionine

5 July 2018

1 reference

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The riboswitch-mediated control of sulfur metabolism in bacteria

5 July 2018

1 reference

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Sensing Small Molecules by Nascent RNA

5 July 2018

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Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression

5 July 2018

1 reference

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Secondary structure prediction for aligned RNA sequences

5 July 2018

1 reference

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Dynalign: an algorithm for finding the secondary structure common to two RNA sequences

5 July 2018

1 reference

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Folding of a large ribozyme during transcription and the effect of the elongation factor NusA.

5 July 2018

1 reference

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Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure

5 July 2018

1 reference

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Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs

5 July 2018

1 reference

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RNA folding kinetics regulates translation of phage MS2 maturation gene.

5 July 2018

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Funnels, pathways, and the energy landscape of protein folding: a synthesis

5 July 2018

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Translational control of maturation-protein synthesis in phage MS2: a role for the kinetics of RNA folding?

5 July 2018

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Secondary structure formation during RNA synthesis

5 July 2018

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The equilibrium partition function and base pair binding probabilities for RNA secondary structure

5 July 2018

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Ligand-induced folding of the thiM TPP riboswitch investigated by a structure-based fluorescence spectroscopic approach.

5 July 2018

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L-arginine influences the structure and function of arginase mRNA in Aspergillus nidulans.

21 January 2018

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Concordant exploration of the kinetics of RNA folding from global and local perspectives.

21 January 2018

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Kinetics of riboswitch regulation studied by in vitro transcription.

21 January 2018

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The kinetics of ligand binding by an adenine-sensing riboswitch

21 January 2018

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An iterated loop matching approach to the prediction of RNA secondary structures with pseudoknots

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

Analysis of riboswitch structure and function by an energy landscape framework

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

Thiamine pyrophosphate riboswitches are targets for the antimicrobial compound pyrithiamine

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

Promoter and riboswitch control of the Mg2 transporter MgtA from Salmonella enterica

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

Reprogramming bacteria to seek and destroy an herbicide

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

Crystallization of the glmS ribozyme-riboswitch

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

Fast folding and comparison of RNA secondary structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

NMR resonance assignments of an engineered neomycin-sensing riboswitch RNA bound to ribostamycin and tobramycin.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

An RNA sensor for intracellular Mg(2 ).

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

The Speed of RNA Transcription and Metabolite Binding Kinetics Operate an FMN Riboswitch

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1002368

Evidence for Pseudoknot Formation of Class I preQ1Riboswitch Aptamers

21 January 2018

1 reference

12 December 2020

Multiple Monovalent Ion-dependent Pathways for the Folding of the L-21 Tetrahymena thermophila Ribozyme

1 reference

12 December 2020

A Group I Intron Riboswitch

1 reference

12 December 2020

Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria

1 reference

12 December 2020

10.1371/JOURNAL.PCBI.1002368

Identifiers

DOI

1 reference

journals/ploscb/QuartaSS12

31 July 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

31 July 2017

1 reference