(Q37606918)

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Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites.

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29 February 2020

Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites (English)

1 reference

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29 February 2020

Howard M. Salis

3

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29 February 2020

author name string

Amin Espah Borujeni

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29 February 2020

Anirudh S Channarasappa

2

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29 February 2020

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14 November 2013

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29 February 2020

Nucleic Acids Research

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29 February 2020

42

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29 February 2020

4

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29 February 2020

2646-2659

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29 February 2020

copyright license

Creative Commons Attribution 3.0 Unported

10 November 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

0 references

Composability of regulatory sequences controlling transcription and translation in Escherichia coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Dual-acting riboswitch control of translation initiation and mRNA decay

1 reference

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23 August 2017

Ribozyme-based insulator parts buffer synthetic circuits from genetic context

1 reference

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23 August 2017

De novo automated design of small RNA circuits for engineering synthetic riboregulation in living cells

1 reference

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Fine-tuning gene networks using simple sequence repeats.

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Ribosomal protein S1 unwinds double-stranded RNA in multiple steps

1 reference

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Contextualizing context for synthetic biology--identifying causes of failure of synthetic biological systems

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23 August 2017

Genetic switchboard for synthetic biology applications

1 reference

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23 August 2017

Multiple factors dictate target selection by Hfq-binding small RNAs

1 reference

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23 August 2017

5'-UTR RNA G-quadruplexes: translation regulation and targeting

1 reference

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23 August 2017

Transcriptional pausing coordinates folding of the aptamer domain and the expression platform of a riboswitch

1 reference

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23 August 2017

Entropic origin of Mg2+-facilitated RNA folding

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Folding energy landscape of the thiamine pyrophosphate riboswitch aptamer

1 reference

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23 August 2017

Regulation by small RNAs in bacteria: expanding frontiers

1 reference

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23 August 2017

Quantifying the sequence-function relation in gene silencing by bacterial small RNAs

1 reference

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23 August 2017

EcoCyc: a comprehensive database of Escherichia coli biology

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Automated design of synthetic ribosome binding sites to control protein expression

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Design principles for riboswitch function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

A structural view of translation initiation in bacteria

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Effect of Hfq on RprA-rpoS mRNA pairing: Hfq-RNA binding and the influence of the 5' rpoS mRNA leader region

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Structure of the 30S translation initiation complex.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

The Vienna RNA websuite

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Structured mRNAs regulate translation initiation by binding to the platform of the ribosome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

An antisense RNA inhibits translation by competing with standby ribosomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

A high-throughput screen for synthetic riboswitches reveals mechanistic insights into their function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

The path of messenger RNA through the ribosome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Crystal structures of complexes of the small ribosomal subunit with tetracycline, edeine and IF3.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

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Induced fit in RNA-protein recognition

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

A trans-acting RNA as a control switch in Escherichia coli: DsrA modulates function by forming alternative structures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Structure of a bacterial 30S ribosomal subunit at 5.5 A resolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Control of translation by mRNA secondary structure in Escherichia coli. A quantitative analysis of literature data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

Determination of the optimal aligned spacing between the Shine-Dalgarno sequence and the translation initiation codon of Escherichia coli mRNAs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

23 August 2017

New insights into riboswitch regulation mechanisms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

6 September 2017

The Escherichia coli threonyl-tRNA synthetase gene contains a split ribosomal binding site interrupted by a hairpin structure that is essential for autoregulation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

6 September 2017

Comparison of mRNA features affecting translation initiation and reinitiation.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

28 September 2017

Heterogeneous pathways and timing of factor departure during translation initiation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

25 June 2018

Structure and structural variations of the Escherichia coli 30 S ribosomal subunit as revealed by three-dimensional cryo-electron microscopy

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

25 June 2018

Translation enhancer improves the ribosome liberation from translation initiation.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

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1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

Real-time assembly landscape of bacterial 30S translation initiation complex.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

Rationally designed families of orthogonal RNA regulators of translation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

Model-driven engineering of RNA devices to quantitatively program gene expression

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

The ribosome binding site calculator.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

Reprogramming bacteria to seek and destroy an herbicide

1 reference

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1 September 2018

Characterization of RNA sequence determinants and antideterminants of processing reactivity for a minimal substrate of Escherichia coli ribonuclease III.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

Unfolding of mRNA secondary structure by the bacterial translation initiation complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

Translational standby sites: how ribosomes may deal with the rapid folding kinetics of mRNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

Translational initiation on structured messengers. Another role for the Shine-Dalgarno interaction.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3936740

1 September 2018

Translational Operator of mRNA on the Ribosome: How Repressor Proteins Exclude Ribosome Binding

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKT1139

21 January 2018

Flexibility of single-stranded DNA: use of gapped duplex helices to determine the persistence lengths of poly(dT) and poly(dA)

1 reference

https://pubmed.ncbi.nlm.nih.gov/24234441

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/NAR/GKT1139

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24234441%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24234441%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

1 reference

Europe PubMed Central

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29 February 2020

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