The crystal structure of tRNA

@article{Clark2007TheCS,
  title={The crystal structure of tRNA},
  author={Brian F. C. Clark},
  journal={Journal of Biosciences},
  year={2007},
  volume={31},
  pages={453-457}
}
  • B. Clark
  • Published 1 October 2006
  • Chemistry, Medicine
  • Journal of Biosciences
Because of its importance in decoding, its small size (~25 000 Da or 73-93 nucleotides) and its availability, tRNA became a favoured example of a nucleic acid molecule in the 1960s for both sequence determination and 3D-structural elucidation. The fi rst primary structural determination of a tRNA, that of yeast alanine tRNA by Robert Holley’s group at Cornell University (lthaca, NY, USA) in 1965, earned Holley a share in the 1968 Nobel Prize for Physiology or Medicine. By contrast, despite its… 
Crystallogenesis at the Heart of the Interplay between Science and Technology in the Quest to Comprehend tRNA Biology
Transfer RNAs (tRNA) are small RNAs that provide the interface between DNA and ribosome-dependent protein synthesis, besides being involved in many other cellular processes. They interact with an
The early history of tRNA recognition by aminoacyl-tRNA synthetases
  • R. Giegé
  • Biology, Medicine
    Journal of Biosciences
  • 2007
TLDR
Early strategies to characterize the structural features within a given tRNA that account for its preferential aminoacylation by the cognate synthetase will be reviewed, and the importance of anticodon and tRNA amino acid accepting arms were highlighted as well as that of the overall tRNA architecture that can be mimicked by tRNA-like structures.
RNA Structures and Their Diversity
TLDR
The structural variety of RNA is a striking contrast to the relative predictability of most DNA tertiary structure, and the conformational features of canonical RNA helices have been obtained from fiber-diffraction studies on duplex RNA polynucleotides from both viral and synthetic origins.
The principles of RNA structure architecture.
  • C. Zwieb
  • Biology, Medicine
    Methods in molecular biology
  • 2014
TLDR
The composition and fundamental properties of RNA and how the single-stranded RNA chains fold and shape certain motifs that are repeatedly observed in different structures are described.
Analysis of genomic tRNA revealed presence of novel genomic features in cyanobacterial tRNA
TLDR
A study of cyanobacterial tRNA from 61 species revealed that; cyanobacteria contain thirty-six to seventy-eight tRNA gens per genome that encodes for 20 tRNA isotypes and the number of iso-acceptors (anti-codons) ranged from thirty-two to forty-three per genome.
RNA structure and modeling: progress and techniques.
  • Dinggeng Chai
  • Biology, Medicine
    Progress in nucleic acid research and molecular biology
  • 2008
TLDR
This chapter discusses the progress and techniques of RNA structure and modeling, which is greatly enhanced by the application of chemical and enzymatic probes ofRNA structure in solution.
The substrate specificity of tRNA (m1G37) methyltransferase (TrmD) from Aquifex aeolicus
TLDR
It is demonstrated that TrmD from Aquifex aeolicus methylates t RNA transcripts possessing an A36G37 sequence as well as tRNA transcripts possessing a G36G 37 sequence, while tRNA Transcripts possessing pyrimidine36 G37 were not methylated at all.
Insights into RNA-processing pathways and associated RNA-degrading enzymes in Archaea
TLDR
This review provides a state of the art overview of archaeal endoribonucleases and exoribONucleases that cleave and trim RNA species and also of the key small archaealing proteins that bind RNAs.
Component-Based Modelling of RNA Structure Folding
TLDR
An RNA secondary structure folding model described in ml-Devs is presented, a variant of the Devs formalism, which enables the hierarchical combination with other model components like RNA binding proteins.
Energy landscape analysis for regulatory RNA finding using scalable distributed cyberinfrastructure
TLDR
It is found that BE sampling provides insight into the variations in conformational distribution among sequences of the same ncRNA family, and is a viable pre‐processing or post‐processing tool to complement comparative sequence analysis.
...
1
2
...

References

SHOWING 1-10 OF 17 REFERENCES
Three-Dimensional Structure of Yeast Phenylalanine Transfer RNA: Folding of the Polynucleotide Chain
TLDR
At 4 � resolution the polynucleotides in yeast phenylalanine transfer RNA are seen in a series of electron dense masses about 5.8 � apart, and it is possible to trace the entire polyn DNA chain with only two minor regions of ambiguity.
Studies on the Escherichia coli Methionine transfer ribonucleic acids.
TLDR
A simplified method for the purification of the bacterial initiator tRNA, tRNAfMet in amounts greater than 100 mg from 10 g of unfractionated tRNA was devised and the presence of 4-thiouridine was not necessary for the biological activity of t RNAfMet.
Crystallization of pure species of bacterial tRNA for x-ray diffraction studies.
TLDR
Crystallization conditions for both tR NATyr and tRNAPhe have been systematically investigated for a limited number of solvents and several forms of tRNATyr can be produced in a controlled fashion.
High-resolution x-ray diffraction patterns of crystalline transfer RNA that show helical regions.
TLDR
From an analysis of the packing in the unit cell it is concluded that the molecular dimensions are approximately 80 by 33 by 28 A, indicating that the double-helical portions of the transfer RNA molecule are approximately half a helical turn in length, and therefore can contain 4-7 base pairs.
Correlation between three-dimensional structure and chemical reactivity of transfer RNA.
The bases of yeast tRNA(Phe) which react with carbodiimide and methoxyamine have been determined and this information has been combined with chemical modification studies of other workers to produce
The role of N-formyl-methionyl-sRNA in protein biosynthesis.
TLDR
Bacterial sRNA has been fractionated into two methionine-accepting species, only one of which could be formylated, and the analysis of this polypeptide product identified methionines in internal positions.
Location of a platinum binding site in the structure of yeast phenylalanine transfer RNA.
TLDR
The solution studies have given confidence to the assignment of part of the 3 A electron density map to the anticodon region of the molecular structure of yeast tRNAPhe.
Three-dimensional structure of yeast phenylalanine transfer RNA at 3. 0Å resolution
At 3Å resolution, the electron density map of crystalline tRNA shows the polynucleotide chain as an alternating series of ribose and phosphate peaks. Bases are seen, especially in the double helical
Structure of yeast phenylalanine tRNA at 3 Å resolution
The structure of a tRNA has been determined by isomorphous replacement. Some of the interactions which maintain the tertiary structure are of a novel type. Our model differs significantly from one
High-resolution x-ray diffraction studies on a pure species of transfer RNA.
TLDR
Systematic crystallization studies on yeast transfer RNAphe have yielded crystals large enough for X-ray crystallography that extend to beyond 3 A spacings.
...
1
2
...