Structural transitions and thermodynamics of a glycine-dependent riboswitch from Vibrio cholerae (Q35928431)

11 August 2017

Structural transitions and thermodynamics of a glycine-dependent riboswitch from Vibrio cholerae (English)

1 reference

11 August 2017

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7

Sebastian Doniach

1 reference

11 August 2017

Jan Lipfert

1

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Rhiju Das

object named as

Rhiju Das

2

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Daniel Herschlag

6

object named as

Daniel Herschlag

1 reference

11 August 2017

Vincent B Chu

3

1 reference

11 August 2017

Madhuri Kudaravalli

4

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11 August 2017

Nathan Boyd

5

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11 August 2017

language of work or name

English

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publication date

13 October 2006

1 reference

Journal of Molecular Biology

11 August 2017

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11 August 2017

365

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11 August 2017

5

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11 August 2017

1393-1406

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describes a project that uses

11 August 2017

ImageQuant

1 reference

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC1941672/fullTextXML

based on heuristic

inferred from PubMed Central ID database lookup

cites work

Structure of the S-adenosylmethionine riboswitch regulatory mRNA element

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Evidence for preorganization of the glmS ribozyme ligand binding pocket

2 October 2017

1 reference

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Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand

2 October 2017

1 reference

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Structural basis of hepatocyte growth factor/scatter factor and MET signalling

2 October 2017

1 reference

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Structure of the autoinhibited kinase domain of CaMKII and SAXS analysis of the holoenzyme

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Regulation of bacterial gene expression by riboswitches

2 October 2017

1 reference

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Global rigid body modeling of macromolecular complexes against small-angle scattering data

2 October 2017

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2 October 2017

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Metal ions and RNA folding: a highly charged topic with a dynamic future

2 October 2017

1 reference

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SAFA: semi-automated footprinting analysis software for high-throughput quantification of nucleic acid footprinting experiments

2 October 2017

1 reference

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Probing counterion modulated repulsion and attraction between nucleic acid duplexes in solution

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Structural basis for discriminative regulation of gene expression by adenine- and guanine-sensing mRNAs

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

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

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

A glycine-dependent riboswitch that uses cooperative binding to control gene expression

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Semi-automated, single-band peak-fitting analysis of hydroxyl radical nucleic acid footprint autoradiograms for the quantitative analysis of transitions

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Riboswitches exert genetic control through metabolite-induced conformational change

2 October 2017

1 reference

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Gene regulation by riboswitches

2 October 2017

1 reference

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Control of gene expression by a natural metabolite-responsive ribozyme

2 October 2017

1 reference

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Riboswitches: the oldest mechanism for the regulation of gene expression?

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Recognition of planar and nonplanar ligands in the malachite green-RNA aptamer complex

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Small-angle scattering: a view on the properties, structures and structural changes of biological macromolecules in solution

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Metabolite-binding RNA domains are present in the genes of eukaryotes

2 October 2017

1 reference

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Probing the structural dynamics of nucleic acids by quantitative time-resolved and equilibrium hydroxyl radical "footprinting".

2 October 2017

1 reference

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Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Genetic control by a metabolite binding mRNA

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

The global structure of the VS ribozyme

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Rapid compaction during RNA folding

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Changes in biomolecular conformation seen by small angle X-ray scattering

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

In vitro evolution of nucleic acids

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

The thermodynamic origin of the stability of a thermophilic ribozyme.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Adaptive recognition by nucleic acid aptamers

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Oligonucleotide aptamers that recognize small molecules

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Restoring low resolution structure of biological macromolecules from solution scattering using simulated annealing

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Situs: A package for docking crystal structures into low-resolution maps from electron microscopy

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Low-resolution structures of proteins in solution retrieved from X-ray scattering with a genetic algorithm

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Structure, recognition and adaptive binding in RNA aptamer complexes

2 October 2017

1 reference

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Crystal structure of a group I ribozyme domain: principles of RNA packing

2 October 2017

1 reference

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Defining the inside and outside of a catalytic RNA molecule

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Iron(II)-ethylenediaminetetraacetic acid catalyzed cleavage of RNA and DNA oligonucleotides: similar reactivity toward single- and double-stranded forms

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

In vitro selection of RNA molecules that bind specific ligands

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Small angle X-ray scattering reveals a compact intermediate in RNA folding

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Structural stability of soybean lipoxygenase-1 in solution as probed by small angle X-ray scattering

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Roles of Mg2+ in TPP-dependent riboswitch

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Closing the folding chamber of the eukaryotic chaperonin requires the transition state of ATP hydrolysis

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

The linkage between magnesium binding and RNA folding.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Conformational change of proteins arising from normal mode calculations

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Solution structural studies and low-resolution model of the Schizosaccharomyces pombe sap1 protein.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Mutant ATP-binding RNA aptamers reveal the structural basis for ligand binding

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Principles of RNA Compaction: Insights from the Equilibrium Folding Pathway of the P4-P6 RNA Domain in Monovalent Cations

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Persistence Length Changes Dramatically as RNA Folds

14 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1941672

Mg2+-dependent compaction and folding of yeast tRNAPhe and the catalytic domain of the B. subtilis RNase P RNA determined by small-angle X-ray scattering

14 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17118400

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The Fastest Global Events in RNA Folding: Electrostatic Relaxation and Tertiary Collapse of the Tetrahymena Ribozyme

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17118400

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1016/J.JMB.2006.10.022

1 reference

11 August 2017

1 reference

11 August 2017

1 reference