New photoactivatable structural and affinity probes of RNAs: specific features and applications for mapping of spermine binding sites in yeast tRNA(Asp) and interaction of this tRNA with yeast aspartyl-tRNA synthetase.
TLDR
Aryldiazonium salts are shown to be useful as phototriggered structural probes for RNA mapping as well as for footprinting of RNA/protein interaction.Abstract:
Aryldiazonium salts are shown to be useful as phototriggered structural probes for RNA mapping as well as for footprinting of RNA/protein interaction. In particular the yeast tRNA(Asp)/aspartyl-tRNA synthetase complex is shown to involve the variable loop face and the concave side of the L-shaped nucleic acid bound to a lipophilic area of the enzyme. When chemically linked to spermine, the photoactive group cleaves RNA at polyamine binding sites; 3-4 spermines have been located in the tRNA(Asp), stabilizing the central part of the molecule in regions where two ribose-phosphate strands are close to each other.read more
Citations
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Book ChapterDOI
tRNA structure and aminoacylation efficiency.
TL;DR: In this paper, the role of tRNA structure in the recognition process with synthetases and on the implications for aminoacylation efficiency is discussed, and a comparison of recent results with previous observations is made.
Journal ArticleDOI
Identity elements for specific aminoacylation of yeast tRNA(Asp) by cognate aspartyl-tRNA synthetase.
TL;DR: Steady-state aminoacylation kinetics of unmodified tRNA transcripts indicate that G34, U35, C36, and G73 are important determinants of tRNA(Asp) identity, and the identity nucleotides are located in regions of tight interaction between tRNA and synthetase and suggest sites of base-specific contacts.
Journal ArticleDOI
Location of spermine and other polyamines on DNA as revealed by photoaffinity cleavage with polyaminobenzenediazonium salts.
Nathalie Schmid,Jean-Paul Behr +1 more
TL;DR: Results show that polycations which are not point charges are guided by the electronegative potential along the nucleic acid and suggest fast crawling of the polyamine within the minor groove, due to individual NH2+ jumping between multiple equidistant and isoenergetic bidentate hydrogen-bonding sites.
Journal ArticleDOI
Endogenous polyamine function—the RNA perspective
Helen L. Lightfoot,Jonathan Hall +1 more
TL;DR: Polyamines bind RNA in a sequence-selective fashion and induce changes in RNA structure in context-dependent manners, confirming their roles as independent molecular entities which help drive RNA-mediated processes.
Journal ArticleDOI
A domain in the N-terminal extension of class IIb eukaryotic aminoacyl-tRNA synthetases is important for tRNA binding
TL;DR: It is demonstrated that the N‐terminal extension in yeast AspRS participates in tRNA binding and this finding is generalized to eukaryotic class IIb aminoacyl‐tRNA synthetases.
References
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Journal ArticleDOI
A new method for sequencing DNA
Allan M. Maxam,Walter Gilbert +1 more
TL;DR: Reactions that cleave DNA preferentially at guanines, at adenines,At cytosines and thymines equally, and at cytosine alone are described.
Journal ArticleDOI
Direct chemical method for sequencing RNA.
TL;DR: Four different base-specific chemical reactions generate a means of directly sequencing RNA terminally labeled with 32P, which yields clean cleavage patterns for each purine and pyrimidine and allows a determination of the entire RNA sequence out to 100-200 bases from the labeled terminus.
Journal ArticleDOI
Probing the structure of RNAs in solution
Chantal Ehresmann,Florence Baudin,Marylène Mougel,Pascale Romby,Jean-Pierre Ebel,Bernard Ehresmann +5 more
TL;DR: In this paper, the various structure probes used so far are described, and their utilization is discussed.
Journal ArticleDOI
Crystallographic refinement of yeast aspartic acid transfer RNA.
TL;DR: The structure of yeast transfer RNA aspartic acid has been refined in one crystal form to 3 A resolution using the restrained least-squares method and real-space fitting using the FRODO program and it is suggested that the labilization of the interactions between the T and D-loops is a consequence of the interaction of the anticodon triplets of symmetry-related molecules through hydrogen bonding.