Free State Conformational Sampling of the SAM-I Riboswitch Aptamer Domain (Q27663543)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20637415%20AND%20SRC:MED&resulttype=core&format=json

8 February 2020

title

Free state conformational sampling of the SAM-I riboswitch aptamer domain (English)

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8 February 2020

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6

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8 February 2020

5

Karissa Y Sanbonmatsu

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8 February 2020

3

Scott P Hennelly

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8 February 2020

author name string

Colby D Stoddard

series ordinal

1

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8 February 2020

Rebecca K Montange

series ordinal

2

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8 February 2020

Robert P Rambo

series ordinal

4

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8 February 2020

publication date

1 July 2010

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8 February 2020

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8 February 2020

volume

18

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8 February 2020

issue

7

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8 February 2020

page(s)

787-797

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Discrimination between Closely Related Cellular Metabolites by the SAM-I Riboswitch

8 February 2020

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20 March 2017

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20 March 2017

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20 March 2017

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20 March 2017

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

20 March 2017

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20 March 2017

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20 March 2017

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20 March 2017

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The finer things in X-ray diffraction data collection

20 March 2017

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20 March 2017

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Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination

29 September 2017

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

20 March 2017

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The S box regulon: a new global transcription termination control system for methionine and cysteine biosynthesis genes in gram-positive bacteria

20 March 2017

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Folding of the SAM aptamer is determined by the formation of a K-turn-dependent pseudoknot

20 March 2017

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Structure of the S-adenosylmethionine riboswitch regulatory mRNA element

20 March 2017

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Accurate structural correlations from maximum likelihood superpositions

20 March 2017

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The role of dynamic conformational ensembles in biomolecular recognition

20 March 2017

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X-ray solution scattering (SAXS) combined with crystallography and computation: defining accurate macromolecular structures, conformations and assemblies in solution

7 April 2017

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Dynamic personalities of proteins

7 April 2017

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Structural characterization of flexible proteins using small-angle X-ray scattering

7 April 2017

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Selective 2'-hydroxyl acylation analyzed by primer extension (SHAPE): quantitative RNA structure analysis at single nucleotide resolution

7 April 2017

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RNA structure analysis at single nucleotide resolution by selective 2'-hydroxyl acylation and primer extension (SHAPE)

7 April 2017

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

7 April 2017

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

29 September 2017

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Role of the adenine ligand on the stabilization of the secondary and tertiary interactions in the adenine riboswitch

29 September 2017

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A trans-acting riboswitch controls expression of the virulence regulator PrfA in Listeria monocytogenes

29 September 2017

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A mechanism for S-adenosyl methionine assisted formation of a riboswitch conformation: a small molecule with a strong arm

29 September 2017

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Navigating the ribosome's metastable energy landscape

29 September 2017

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MD simulations of ligand-bound and ligand-free aptamer: molecular level insights into the binding and switching mechanism of the add A-riboswitch

29 September 2017

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A switch in time: detailing the life of a riboswitch

29 September 2017

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Molecular dynamics simulation study of the binding of purine bases to the aptamer domain of the guanine sensing riboswitch

29 September 2017

1 reference

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The structural and functional diversity of metabolite-binding riboswitches

29 September 2017

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Riboswitches: emerging themes in RNA structure and function

29 September 2017

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Analyzing the flexibility of RNA structures by constraint counting

29 September 2017

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

29 September 2017

1 reference

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Natural variability in S-adenosylmethionine (SAM)-dependent riboswitches: S-box elements in bacillus subtilis exhibit differential sensitivity to SAM In vivo and in vitro

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2917978

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

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2917978

Small-angle X-ray scattering from RNA, proteins, and protein complexes

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2917978

Mix-and-match riboswitches.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2917978

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

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2917978

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

29 September 2017

1 reference

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Generalized-ensemble algorithms for molecular simulations of biopolymers

29 September 2017

1 reference

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

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2917978

Induced fit in RNA-protein recognition

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2917978

A chemogenetic approach to RNA function/structure analysis

29 September 2017

1 reference

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Nucleotide analog interference mapping

29 September 2017

1 reference

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Strong correlation between SHAPE chemistry and the generalized NMR order parameter (S2) in RNA

29 September 2017

1 reference

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Stochastic gating and drug-ribosome interactions.

2 June 2018

1 reference

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Energy landscape of the ribosomal decoding center.

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A tertiary structural element in S box leader RNAs is required for S-adenosylmethionine-directed transcription termination

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

27 November 2018

1 reference

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12 December 2020

Simulation of the pressure and temperature folding/unfolding equilibrium of a small RNA hairpin

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Chemical probing of RNA by nucleotide analog interference mapping

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10.1016/J.STR.2010.04.006

Identifiers

DOI

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20637415%20AND%20SRC:MED&resulttype=core&format=json

8 February 2020

1 reference

2 references

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8 February 2020

PubMed publication ID

20637415

2 references