Riboswitch diversity and distribution (Q46386482)

12 July 2018

title

Riboswitch diversity and distribution (English)

1 reference

12 July 2018

author

Phillip J. McCown

1

1 reference

21 December 2017

http://europepmc.org/abstract/MED/28396576

Madeline E Sherlock

4

1 reference

21 December 2017

http://europepmc.org/abstract/MED/28396576

Ronald Breaker

5

1 reference

21 December 2017

http://europepmc.org/abstract/MED/28396576

author name string

Keith A Corbino

2

1 reference

12 July 2018

Shira Stav

3

1 reference

12 July 2018

language of work or name

English

0 references

publication date

10 April 2017

1 reference

12 July 2018

published in

RNA

1 reference

12 July 2018

volume

23

1 reference

12 July 2018

issue

7

1 reference

12 July 2018

page(s)

995-1011

1 reference

12 July 2018

The lost language of the RNA World.

cites work

1 reference

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15 July 2018

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15 July 2018

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Singlet glycine riboswitches bind ligand as well as tandem riboswitches.

15 July 2018

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De Novo Guanine Biosynthesis but Not the Riboswitch-Regulated Purine Salvage Pathway Is Required for Staphylococcus aureus Infection In Vivo

15 July 2018

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The yjdF riboswitch candidate regulates gene expression by binding diverse azaaromatic compounds

15 July 2018

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15 July 2018

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15 July 2018

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15 July 2018

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Metal Ion-Mediated Nucleobase Recognition by the ZTP Riboswitch.

15 July 2018

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Global RNA Fold and Molecular Recognition for a pfl Riboswitch Bound to ZMP, a Master Regulator of One-Carbon Metabolism

15 July 2018

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Extensive Identification of Bacterial Riboflavin Transporters and Their Distribution across Bacterial Species.

15 July 2018

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Control of bacterial exoelectrogenesis by c-AMP-GMP.

15 July 2018

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GEMM-I riboswitches from Geobacter sense the bacterial second messenger cyclic AMP-GMP

15 July 2018

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Mn(2 )-sensing mechanisms of yybP-ykoY orphan riboswitches

15 July 2018

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The ubiquitous yybP-ykoY riboswitch is a manganese-responsive regulatory element

15 July 2018

1 reference

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Bacterial riboswitches cooperatively bind Ni(2 ) or Co(2 ) ions and control expression of heavy metal transporters.

15 July 2018

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An ancient riboswitch class in bacteria regulates purine biosynthesis and one-carbon metabolism

15 July 2018

1 reference

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Comparative genomics of transcriptional regulation of methionine metabolism in Proteobacteria

15 July 2018

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Crystal structure of a c-di-AMP riboswitch reveals an internally pseudo-dimeric RNA

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

c-di-AMP binds the ydaO riboswitch in two pseudo-symmetry–related pockets

15 July 2018

1 reference

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Structural insights into recognition of c-di-AMP by the ydaO riboswitch

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Structural, functional, and taxonomic diversity of three preQ1 riboswitch classes.

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Small molecules that interact with RNA: riboswitch-based gene control and its involvement in metabolic regulation in plants and algae

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Genetic analysis of riboswitch-mediated transcriptional regulation responding to Mn2 in Salmonella

15 July 2018

1 reference

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Riboswitches in eubacteria sense the second messenger c-di-AMP

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Comparative genomics of metabolic capacities of regulons controlled by cis-regulatory RNA motifs in bacteria

15 July 2018

1 reference

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Infernal 1.1: 100-fold faster RNA homology searches

15 July 2018

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A riboswitch-regulated antisense RNA in Listeria monocytogenes

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Integron attI1 sites, not riboswitches, associate with antibiotic resistance genes

15 July 2018

1 reference

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Advantages and limitations of genomics in prokaryotic taxonomy

15 July 2018

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15 July 2018

A decade of riboswitches

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B12 cofactors directly stabilize an mRNA regulatory switch

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

A highly specialized flavin mononucleotide riboswitch responds differently to similar ligands and confers roseoflavin resistance to Streptomyces davawensis

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Fluoride ion encapsulation by Mg2 ions and phosphates in a fluoride riboswitch

15 July 2018

1 reference

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Growing unculturable bacteria

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Metabolite recognition principles and molecular mechanisms underlying riboswitch function

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Coordinated regulation of accessory genetic elements produces cyclic di-nucleotides for V. cholerae virulence

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Riboswitch control of Rho-dependent transcription termination

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Widespread genetic switches and toxicity resistance proteins for fluoride

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Prospects for riboswitch discovery and analysis

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

The Escherichia coli MntR miniregulon includes genes encoding a small protein and an efflux pump required for manganese homeostasis

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 July 2018

1 reference

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Riboswitches: Discovery of Drugs That Target Bacterial Gene-Regulatory RNAs

15 July 2018

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Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy

15 July 2018

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Structural Basis of Cooperative Ligand Binding by the Glycine Riboswitch

15 July 2018

1 reference

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An expanded collection and refined consensus model of glmS ribozymes

15 July 2018

1 reference

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Challenges of ligand identification for riboswitch candidates

15 July 2018

1 reference

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Bacterial aptamers that selectively bind glutamine

15 July 2018

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15 July 2018

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Riboswitches and the RNA world

15 July 2018

1 reference

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Riboswitches: Structures and Mechanisms

15 July 2018

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TheglmSribozyme: use of a small molecule coenzyme by a gene-regulatory RNA

15 July 2018

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An allosteric self-splicing ribozyme triggered by a bacterial second messenger

15 July 2018

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

15 July 2018

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

15 July 2018

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Evidence for bacterial origin of heat shock RNA-1

15 July 2018

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The T box mechanism: tRNA as a regulatory molecule

15 July 2018

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

15 July 2018

1 reference

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

15 July 2018

1 reference

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Design and antimicrobial action of purine analogues that bind Guanine riboswitches

15 July 2018

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Riboswitches: from ancient gene-control systems to modern drug targets

15 July 2018

1 reference

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Identification of candidate structured RNAs in the marine organism 'Candidatus Pelagibacter ubique'

15 July 2018

1 reference

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The long and the short of riboswitches.

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

The structural and functional diversity of metabolite-binding riboswitches

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Roseoflavin is a natural antibacterial compound that binds to FMN riboswitches and regulates gene expression

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Coenzyme recognition and gene regulation by a flavin mononucleotide riboswitch

15 July 2018

1 reference

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Riboswitch RNAs: using RNA to sense cellular metabolism

15 July 2018

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Structure of the transcriptional regulator LmrR and its mechanism of multidrug recognition

15 July 2018

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NCBI Reference Sequences: current status, policy and new initiatives

15 July 2018

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

15 July 2018

1 reference

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Riboswitches in eubacteria sense the second messenger cyclic di-GMP

15 July 2018

1 reference

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Structural biochemistry of a bacterial checkpoint protein reveals diadenylate cyclase activity regulated by DNA recombination intermediates

15 July 2018

1 reference

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Thiamine biosynthesis in algae is regulated by riboswitches

15 July 2018

1 reference

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Mechanism of mRNA destabilization by the glmS ribozyme

15 July 2018

1 reference

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

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Riboswitch control of gene expression in plants by splicing and alternative 3' end processing of mRNAs

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Structure and mechanism of a metal-sensing regulatory RNA

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Control of alternative RNA splicing and gene expression by eukaryotic riboswitches

15 July 2018

1 reference

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Structural investigation of the GlmS ribozyme bound to Its catalytic cofactor

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Riboswitches as antibacterial drug targets

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Crystal structures of the thi-box riboswitch bound to thiamine pyrophosphate analogs reveal adaptive RNA-small molecule recognition

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

RNA-mediated response to heat shock in mammalian cells

15 July 2018

1 reference

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The S(MK) box is a new SAM-binding RNA for translational regulation of SAM synthetase

15 July 2018

1 reference

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

15 July 2018

1 reference

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RALEE--RNA ALignment editor in Emacs

15 July 2018

1 reference

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New RNA motifs suggest an expanded scope for riboswitches in bacterial genetic control

15 July 2018

1 reference

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Control of gene expression by a natural metabolite-responsive ribozyme

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Adenine riboswitches and gene activation by disruption of a transcription terminator

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Thiamine-regulated gene expression of Aspergillus oryzae thiA requires splicing of the intron containing a riboswitch-like domain in the 5'-UTR

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

The L box regulon: Lysine sensing by leader RNAs of bacterial lysine biosynthesis genes

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

The riboswitch-mediated control of sulfur metabolism in bacteria

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Transcription termination control of the S box system: direct measurement of S-adenosylmethionine by the leader RNA.

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Sensing Small Molecules by Nascent RNA

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

An mRNA structure that controls gene expression by binding FMN

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Genetic control by a metabolite binding mRNA

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

RNAMotif, an RNA secondary structure definition and search algorithm

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

15 July 2018

The Protein Data Bank

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

A conserved RNA structure element involved in the regulation of bacterial riboflavin synthesis genes

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Modern metabolism as a palimpsest of the RNA world

15 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Coenzymes as fossils of an earlier metabolic state

15 July 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

15 July 2018

https://api.crossref.org/works/10.1261/RNA.061234.117

The GlcN6P cofactor plays multiple catalytic roles in the glmS ribozyme

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Structural basis for guanidine sensing by the ykkC family of riboswitches.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Structural Basis for Ligand Binding to the Guanidine-I Riboswitch

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Metabolism of Free Guanidine in Bacteria Is Regulated by a Widespread Riboswitch Class.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Riboswitch control of aminoglycoside antibiotic resistance.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

The RFN riboswitch of Bacillus subtilis is a target for the antibiotic roseoflavin produced by Streptomyces davawensis

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

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

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

An RNA sensor for intracellular Mg(2 ).

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Thiamine pyrophosphate riboswitches are targets for the antimicrobial compound pyrithiamine

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5473149

Bacterial Riboswitch Discovery and Analysis

15 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1261/RNA.061234.117

Heat Shock RNA 1, Known as a Eukaryotic Temperature-Sensing Noncoding RNA, Is of Bacterial Origin

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28396576

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

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

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28396576

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1261/RNA.061234.117

1 reference

12 July 2018

PMC publication ID

5473149

1 reference

12 July 2018

1 reference

12 July 2018