(Q34235299)

31 July 2017

A two-dimensional mutate-and-map strategy for non-coding RNA structure (English)

1 reference

31 July 2017

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Rhiju Das

4

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author name string

Wipapat Kladwang

series ordinal

1

1 reference

31 July 2017

Christopher C VanLang

series ordinal

2

1 reference

31 July 2017

Pablo Cordero

series ordinal

3

1 reference

31 July 2017

language of work or name

1 reference

30 October 2011

1 reference

31 July 2017

1 reference

31 July 2017

3

1 reference

31 July 2017

12

1 reference

31 July 2017

954-962

1 reference

https://scigraph.springernature.com/pub.10.1038/nchem.1176

31 July 2017

0 references

cites work

Understanding the errors of SHAPE-directed RNA structure modeling

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Multiplexed RNA structure characterization with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq)

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Structural Basis of Cooperative Ligand Binding by the Glycine Riboswitch

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Comparative study between transcriptionally- and translationally-acting adenine riboswitches reveals key differences in riboswitch regulatory mechanisms

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Transient Hoogsteen base pairs in canonical duplex DNA.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

A mutate-and-map strategy accurately infers the base pairs of a 35-nucleotide model RNA

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

On the significance of an RNA tertiary structure prediction

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Real-time multidimensional NMR follows RNA folding with second resolution

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Evaluation of the information content of RNA structure mapping data for secondary structure prediction

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

The crystal structure of unmodified tRNAPhe from Escherichia coli

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Atomic accuracy in predicting and designing noncanonical RNA structure

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

VARNA: Interactive drawing and editing of the RNA secondary structure

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Accurate SHAPE-directed RNA structure determination

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

SHAPE analysis of long-range interactions reveals extensive and thermodynamically preferred misfolding in a fragile group I intron RNA.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Riboswitches in eubacteria sense the second messenger cyclic di-GMP

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

High-throughput SHAPE analysis reveals structures in HIV-1 genomic RNA strongly conserved across distinct biological states

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Coherent two-dimensional optical spectroscopy

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Structural inference of native and partially folded RNA by high-throughput contact mapping

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Chemical basis of glycine riboswitch cooperativity

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

DMS footprinting of structured RNAs and RNA-protein complexes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Bridging the gap in RNA structure prediction.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Local RNA structural changes induced by crystallization are revealed by SHAPE

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Folding of the adenine riboswitch

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Hydroxyl radical footprinting in vivo: mapping macromolecular structures with synchrotron radiation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

An intermolecular base triple as the basis of ligand specificity and affinity in the guanine- and adenine-sensing riboswitch RNAs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

The different roles of tryptophan transfer RNA in regulating trp operon expression in E. coli versus B. subtilis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Adenine riboswitches and gene activation by disruption of a transcription terminator

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Genetic control by metabolite-binding riboswitches

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

ON THE NATURE OF ALLOSTERIC TRANSITIONS: A PLAUSIBLE MODEL

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

RNA folding causes secondary structure rearrangement

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

The 5S rRNA loop E: chemical probing and phylogenetic data versus crystal structure

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Metals, motifs, and recognition in the crystal structure of a 5S rRNA domain

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Crystal structure of a group I ribozyme domain: principles of RNA packing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Detailed molecular model for transfer ribonucleic acid

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

RNA substrate binding site in the catalytic core of the Tetrahymena ribozyme

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3725140

Noncoding RNAs and gene silencing

28 July 2018

1 reference

https://api.crossref.org/works/10.1038%2FNCHEM.1176

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNCHEM.1176

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNCHEM.1176

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNCHEM.1176

Molecular basis of RNA-mediated gene regulation on the adenine riboswitch by single-molecule approaches

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNCHEM.1176

A mutate-and-map strategy for inferring base pairs in structured nucleic acids: proof of concept on a DNA/RNA helix

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNCHEM.1176

A transient and low-populated protein-folding intermediate at atomic resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNCHEM.1176

HiTRACE: high-throughput robust analysis for capillary electrophoresis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNCHEM.1176

New loop-loop tertiary interactions in self-splicing introns of subgroup IC and ID: a complete 3D model of the Tetrahymena thermophila ribozyme

21 January 2018

1 reference

12 December 2020

The dynamic landscapes of RNA architecture

1 reference

12 December 2020

NMR studies of structure and function of biological macromolecules (Nobel lecture)

1 reference

12 December 2020

In vitro reconstitution of 30S ribosomal subunits using complete set of recombinant proteins

1 reference

12 December 2020

Identifiers

DOI

10.1038/NCHEM.1176

1 reference

Dimensions Publication ID

31 July 2017

0 references

1 reference

31 July 2017

1 reference