Multiple conformations of SAM-II riboswitch detected with SAXS and NMR spectroscopy. (Q35888815)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22139931%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

title

Multiple conformations of SAM-II riboswitch detected with SAXS and NMR spectroscopy (English)

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17 January 2020

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4

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17 January 2020

author name string

Bin Chen

series ordinal

1

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17 January 2020

Xiaobing Zuo

series ordinal

2

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17 January 2020

Yun-Xing Wang

series ordinal

3

1 reference

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17 January 2020

language of work or name

English

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publication date

1 December 2011

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17 January 2020

published in

Nucleic Acids Research

1 reference

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17 January 2020

volume

40

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17 January 2020

issue

7

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17 January 2020

page(s)

3117-3130

1 reference

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Creative Commons Attribution-NonCommercial 3.0 Unported

17 January 2020

copyright license

start time

4 October 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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The SAM-responsive S(MK) box is a reversible riboswitch

11 July 2018

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Tuning riboswitch regulation through conformational selection

11 July 2018

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Use of small angle X-ray scattering (SAXS) to characterize conformational states of functional RNAs

11 July 2018

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Free State Conformational Sampling of the SAM-I Riboswitch Aptamer Domain

11 July 2018

1 reference

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Rapid global structure determination of large RNA and RNA complexes using NMR and small-angle X-ray scattering

11 July 2018

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Folding of a transcriptionally acting preQ1 riboswitch

11 July 2018

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Dissecting electrostatic screening, specific ion binding, and ligand binding in an energetic model for glycine riboswitch folding

11 July 2018

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Compact intermediates in RNA folding.

11 July 2018

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Idiosyncratically tuned switching behavior of riboswitch aptamer domains revealed by comparative small-angle X-ray scattering analysis

11 July 2018

1 reference

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Improving small-angle X-ray scattering data for structural analyses of the RNA world

11 July 2018

1 reference

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Electrostatics of strongly charged biological polymers: ion-mediated interactions and self-organization in nucleic acids and proteins

11 July 2018

1 reference

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Atomistic basis for the on-off signaling mechanism in SAM-II riboswitch

11 July 2018

1 reference

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The ligand-free state of the TPP riboswitch: a partially folded RNA structure

11 July 2018

1 reference

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The role of dynamic conformational ensembles in biomolecular recognition

11 July 2018

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Domain-elongation NMR spectroscopy yields new insights into RNA dynamics and adaptive recognition

11 July 2018

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Determination of Multicomponent Protein Structures in Solution Using Global Orientation and Shape Restraints

11 July 2018

1 reference

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Conformational selection or induced fit: a flux description of reaction mechanism

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Robust, high-throughput solution structural analyses by small angle X-ray scattering (SAXS)

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

The long and the short of riboswitches.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

The structural and functional diversity of metabolite-binding riboswitches

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Structural Insights into riboswitch control of the biosynthesis of queuosine, a modified nucleotide found in the anticodon of tRNA

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Coenzyme recognition and gene regulation by a flavin mononucleotide riboswitch

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

A repulsive field: advances in the electrostatics of the ion atmosphere

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

RNA folding: thermodynamic and molecular descriptions of the roles of 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=3326309

Structural insights into amino acid binding and gene control by a lysine riboswitch

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Crystal structure of the lysine riboswitch regulatory mRNA element

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Riboswitches: emerging themes in RNA structure and function

11 July 2018

1 reference

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11 July 2018

1 reference

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Global molecular structure and interfaces: refining an RNA:RNA complex structure using solution X-ray scattering data

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Ligand-dependent folding of the three-way junction in the purine riboswitch

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Structure of the SAM-II riboswitch bound to S-adenosylmethionine

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Ligand-induced folding of the guanine-sensing riboswitch is controlled by a combined predetermined induced fit mechanism

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Structure and mechanism of a metal-sensing regulatory 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=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

The intricate world of riboswitches

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

S-adenosylmethionine directly inhibits binding of 30S ribosomal subunits to the SMK box translational riboswitch 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=3326309

Structural investigation of the GlmS ribozyme bound to Its catalytic cofactor

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Interplay of 'induced fit' and preorganization in the ligand induced folding of the aptamer domain of the guanine binding riboswitch

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Folding of the adenine riboswitch

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Structure of the S-adenosylmethionine riboswitch regulatory mRNA element

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Structure of a self-splicing group II intron catalytic effector domain 5: parallels with spliceosomal U6 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=3326309

Riboswitches and the role of noncoding RNAs in bacterial metabolic control

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Evidence for a second class of S-adenosylmethionine riboswitches and other regulatory RNA motifs in alpha-proteobacteria

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Riboswitches as versatile gene control elements

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Gene regulation by riboswitches

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Large-scale preparation and purification of polyacrylamide-free RNA oligonucleotides

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Adenine riboswitches and gene activation by disruption of a transcription terminator

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Allosteric proteins and cellular control 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=3326309

Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Rapid compaction during RNA folding

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Current topics in RNA-protein recognition: control of specificity and biological function through induced fit and conformational capture

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Beyond kinetic traps in RNA folding

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Adaptive recognition by nucleic acid aptamers

11 July 2018

1 reference

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Exposing the kinetic traps in RNA folding

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Theory and practice of gel electrophoresis of interacting macromolecules

11 July 2018

1 reference

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NMRPipe: a multidimensional spectral processing system based on UNIX pipes

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Correlation of nucleotide base and sugar protons in a 15N-labeled HIV-1 RNA oligonucleotide by 1H-15N HSQC experiments

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Gradient-tailored excitation for single-quantum NMR spectroscopy of aqueous solutions

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Conformational capture of the SAM-II riboswitch

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Key labeling technologies to tackle sizeable problems in RNA structural biology

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

Rapid purification of RNAs using fast performance liquid chromatography (FPLC).

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326309

CRYSOL– a Program to Evaluate X-ray Solution Scattering of Biological Macromolecules from Atomic Coordinates

24 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKR1154

Automated matching of high- and low-resolution structural models

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKR1154

Analysis of RNA Folding by Native Polyacrylamide Gel Electrophoresis

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKR1154

21 January 2018

Identifiers

DOI

10.1093/NAR/GKR1154

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22139931%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22139931%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

1 reference