Probing RNA structure and RNA-ligand complexes with chemical probes (Q33965123)

30 July 2017

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title

Probing RNA structure and RNA-ligand complexes with chemical probes (English)

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30 July 2017

Brunel C

1

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PubMed ID

10889976

30 July 2017

Romby P

series ordinal

2

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PubMed ID

10889976

30 July 2017

language of work or name

English

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publication date

1 January 2000

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30 July 2017

19

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inferred from page(s)

published in

Methods in Enzymology

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30 July 2017

318

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30 July 2017

3-21

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Probing the structure of RNAs in solution

30 July 2017

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Enzymatic approaches to probing of RNA secondary and tertiary structure

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A highly sensitive probe for guanine N7 in folded structures of RNA: application to tRNAPhe and Tetrahymena group I intron

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Major groove accessibility of RNA

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All oxygens in nucleic acids react with carcinogenic ethylating agents

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Cleavage of DNA with methidiumpropyl-EDTA-iron(II): reaction conditions and product analyses

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Tertiary structure of tRNAs in solution monitored by phosphodiester modification with ethylnitrosourea

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Yeast tRNAAsp tertiary structure in solution and areas of interaction of the tRNA with aspartyl-tRNA synthetase. A comparative study of the yeast phenylalanine system by phosphate alkylation experiments with ethylnitrosourea

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Defining the inside and outside of a catalytic RNA molecule

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Probing the higher order structure of RNA with peroxonitrous acid

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Time-resolved synchrotron X-ray "footprinting", a new approach to the study of nucleic acid structure and function: application to protein-DNA interactions and RNA folding.

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Use of lead(II) to probe the structure of large RNA's. Conformation of the 3' terminal domain of E. coli 16S rRNA and its involvement in building the tRNA binding sites

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Lead-catalyzed cleavage of yeast tRNAPhe mutants.

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Chemical nucleases: their use in studying RNA structure and RNA-protein interactions.

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Recognition of tertiary structure in tRNAs by Rh(phen)2phi3+, a new reagent for RNA structure-function mapping

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Recognition of G-U mismatches by tris(4,7-diphenyl-1,10-phenanthroline)rhodium(III)

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Isoalloxazine derivatives promote photocleavage of natural RNAs at G.U base pairs embedded within helices

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Efficient modification of RNA by porphyrin cation photochemistry: monitoring the folding of coaxially stacked RNA helices in tRNA(Phe) and the human immunodeficiency virus type 1 rev response element RNA.

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Synthetic RNA-cleaving molecules mimicking ribonuclease A active center. Design and cleavage of tRNA transcripts

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Cleavage of tRNA with imidazole and spermine imidazole constructs: a new approach for probing RNA structure

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An in vivo and in vitro structure-function analysis of the Saccharomyces cerevisiae U3A snoRNP: protein-RNA contacts and base-pair interaction with the pre-ribosomal RNA

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Nucleoside phosphorothioates

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Identification of ribosome-ligand interactions using cleavage reagents

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Mapping the position of translational elongation factor EF-G in the ribosome by directed hydroxyl radical probing

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Three-dimensional model of Escherichia coli ribosomal 5 S RNA as deduced from structure probing in solution and computer modeling.

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Structural analysis of RNA using chemical and enzymatic probing monitored by primer extension

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Enzymatic and chemical probing of ribosomal RNA-protein interactions.

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A guide for probing native small nuclear RNA and ribonucleoprotein structures

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Inhibition of a nuclease contaminant in the commercial preparations of escherichia coli alkaline phosphatase

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The use of nuclease P1in sequence analysis of end group labeled RNA

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Chemical mapping of co-existing RNA structures

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Improved methods for structure probing in large RNAs: a rapid ‘heterologous’ sequencing approach is coupled to the direct mapping of nudease accessible sites. Application to the 5′nal domain of eukaryotic 28S rRNA

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The tRNA-like structure of turnip yellow mosaic virus RNA: structural organization of the last 159 nucleotides from the 3' OH terminus.

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The tRNA-like structure at the 3' terminus of turnip yellow mosaic virus RNA. Differences and similarities with canonical tRNA

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Escherichia coli threonyl-tRNA synthetase and tRNA(Thr) modulate the binding of the ribosome to the translational initiation site of the thrS mRNA

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Computer modeling from solution data of spinach chloroplast and of Xenopus laevis somatic and oocyte 5 S rRNAs

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Binding sites of ribosomal proteins on prokaryotic 5S RNAs: a study with ribonucleases

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A comparison of the solution structures and conformational properties of the somatic and oocyte 5S rRNAs ofXenopus laevis

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Structural studies on site-directed mutants of domain 3 of Xenopus laevis oocyte 5 S ribosomal RNA.

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The conformation of loop E of eukaryotic 5S ribosomal RNA.

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The loop E-loop D region of Escherichia coli 5S rRNA: the solution structure reveals an unusual loop that may be important for binding ribosomal proteins

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

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Higher order structure of chloroplastic 5S ribosomal RNA from spinach

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A common motif organizes the structure of multi-helix loops in 16 S and 23 S ribosomal RNAs

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Rapid chemical probing of conformation in 16 S ribosomal RNA and 30 S ribosomal subunits using primer extension

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Structural Features that Give Rise to the Unusual Stability of RNA Hairpins Containing GNRA Loops

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Three-dimensional structure of a hammerhead ribozyme

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Crystal structure of domain E of Thermus flavus 5S rRNA: a helical RNA structure including a hairpin loop

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Solution structure of human U1 snRNA. Derivation of a possible three-dimensional model

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Libraries for genomic SELEX.

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7 January 2021

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Identifiers

DOI

1 reference

30 July 2017

1 reference

PubMed ID

10889976