Molecular recognition and function of riboswitches (Q27000757)

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English	Molecular recognition and function of riboswitches	scientific article

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title

Molecular recognition and function of riboswitches (English)

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author

Dinshaw J. Patel

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2

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author name string

Alexander Serganov

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1

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language of work or name

English

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PubMed

publication date

June 2012

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published in

Current Opinion in Structural Biology

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PubMed

volume

22

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PubMed

issue

3

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PubMed

page(s)

279-86

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PubMed

cites work

The structure of a tetrahydrofolate-sensing riboswitch reveals two ligand binding sites in a single aptamer

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PubMed Central

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retrieved

21 March 2017

Long-range pseudoknot interactions dictate the regulatory response in the tetrahydrofolate riboswitch

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Structural basis for recognition of S-adenosylhomocysteine by riboswitches

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PubMed Central

reference URL

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21 March 2017

Reengineering orthogonally selective riboswitches

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PubMed Central

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21 March 2017

Recognition of the bacterial second messenger cyclic diguanylate by its cognate riboswitch

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PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

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21 March 2017

Structural basis of ligand binding by a c-di-GMP riboswitch

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

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21 March 2017

Cocrystal structure of a class I preQ1 riboswitch reveals a pseudoknot recognizing an essential hypermodified nucleobase

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PubMed Central

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retrieved

21 March 2017

Crystal structure of the lysine riboswitch regulatory mRNA element

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PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

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21 March 2017

Chemical basis of glycine riboswitch cooperativity

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

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21 March 2017

Guanine riboswitch variants from Mesoplasma florum selectively recognize 2'-deoxyguanosine

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Structural principles of nucleoside selectivity in a 2′-deoxyguanosine riboswitch

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PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Molecular sensing by the aptamer domain of the FMN riboswitch: a general model for ligand binding by conformational selection

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Comparison of a PreQ1 Riboswitch Aptamer in Metabolite-bound and Free States with Implications for Gene Regulation

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PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Structural basis of differential ligand recognition by two classes of bis-(3′-5′)-cyclic dimeric guanosine monophosphate-binding riboswitches

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Novel Ligands for a Purine Riboswitch Discovered by RNA-Ligand Docking

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Structural Basis of Cooperative Ligand Binding by the Glycine Riboswitch

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PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Structural Insights into Ligand Recognition by a Sensing Domain of the Cooperative Glycine Riboswitch

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PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Structural and Biochemical Determinants of Ligand Binding by the c-di-GMP Riboswitch,

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

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

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Riboswitch structure: an internal residue mimicking the purine ligand

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

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

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PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

The Structural Basis for Recognition of the PreQ0 Metabolite by an Unusually Small Riboswitch Aptamer Domain

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PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

A Structural Basis for the Recognition of 2′-Deoxyguanosine by the Purine Riboswitch

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

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

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

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

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression

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PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

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

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Structural basis of glmS ribozyme activation by glucosamine-6-phosphate

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

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

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

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

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

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

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Novel riboswitch ligand analogs as selective inhibitors of guanine-related metabolic pathways

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Prospects for riboswitch discovery and analysis

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

21 March 2017

Structure and dynamics of the deoxyguanosine-sensing riboswitch studied by NMR-spectroscopy

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

25 May 2017

Widespread genetic switches and toxicity resistance proteins for fluoride

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Differential Analogue Binding by Two Classes of c-di-GMP Riboswitches

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Constitutive regulatory activity of an evolutionarily excluded riboswitch variant.

1 reference

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Molecular insights into the ligand-controlled organization of the SAM-I riboswitch

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Comparison of Solution and Crystal Structures of PreQ1 Riboswitch Reveals Calcium-Induced Changes in Conformation and Dynamics

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stated in

PubMed Central

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Cooperative and directional folding of the preQ1 riboswitch aptamer domain

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Effects of Mg2+ on the Free Energy Landscape for Folding a Purine Riboswitch RNA

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Comparative Study between Transcriptionally- and Translationally-Acting Adenine Riboswitches Reveals Key Differences in Riboswitch Regulatory Mechanisms

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PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Identification of a tertiary interaction important for cooperative ligand binding by the glycine riboswitch

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Tertiary contacts control switching of the SAM-I riboswitch

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Tuning Riboswitch Regulation through Conformational Selection

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stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Folding of a transcriptionally acting preQ1 riboswitch

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Real-time multidimensional NMR follows RNA folding with second resolution

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Heterogeneity and dynamics of the ligand recognition mode in purine-sensing riboswitches

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

A fragment-based approach to identifying ligands for riboswitches

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Multivector fluorescence analysis of the xpt guanine riboswitch aptamer domain and the conformational role of guanine

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

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

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Design and antimicrobial action of purine analogues that bind Guanine riboswitches

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

The long and the short of riboswitches.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Sensing Small Molecules by Nascent RNA

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 September 2017

Variable sequences outside the SAM-binding core critically influence the conformational dynamics of the SAM-III/SMK box riboswitch

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

31 May 2018

Conformational capture of the SAM-II riboswitch

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 November 2018

The glmS riboswitch integrates signals from activating and inhibitory metabolites in vivo

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3744878

retrieved

28 November 2018

Identifiers

DOI

10.1016/J.SBI.2012.04.005

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Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

4319960

Fatcat ID

release_dows4qiddbh63fire7bz6dgghi

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OpenCitations bibliographic resource ID

4319960

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

4319960

PMC publication ID

3744878

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

4319960

PubMed publication ID

22579413

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

4319960

 

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