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Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

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Engineering Crystal Packing in RNA Structures I: Past and Future Strategies for Engineering RNA Packing in Crystals.

Narsimha Pujari¹, Stephanie L Saundh¹, Francis A Acquah²

¹Department of Veterinary Biomedical Sciences, University of Saskatchewan, Saskatoon, SK S7N 5B4, Canada.

Crystals

|November 8, 2021

Summary

X-ray crystallography provides atomic details of RNA function but requires high-quality crystals. This review explores advanced techniques, including construct engineering, to improve RNA crystallization and expand structural data.

Keywords:

RNA RNA crystallization constructs RNA crystallogenesis RNA crystallography RNA motifs X-ray crystallography crystal packing design nucleic acid crystallography ribonucleic acid

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RNA Secondary Structure Prediction Using High-throughput SHAPE

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Published on: May 31, 2013

Area of Science:

Structural Biology
Biochemistry
Molecular Biology

Background:

X-ray crystallography is crucial for understanding RNA catalytic and regulatory roles at an atomic level.
RNA crystallization is challenging due to conformational heterogeneity and limited intermolecular interactions, resulting in fewer RNA-only structures in databases.
Developing methods to improve RNA crystal formation is vital for advancing structural studies.

Purpose of the Study:

To review successful techniques for facilitating RNA crystal packing.
To highlight recent advances in construct engineering for RNA crystallography.
To identify future research directions in RNA crystallization.

Main Methods:

Discussion of various established and novel techniques for promoting RNA crystallization.
Focus on construct-engineering strategies, such as incorporating tetraloop-tetraloop receptor pairs.
Exploration of chaperone-assisted and crystallization-friendly molecule approaches.

Main Results:

Several methods have been successfully employed to enhance RNA crystal formation and quality.
Construct engineering, particularly the use of specific RNA motifs, effectively promotes intermolecular contacts.
Chaperones and stabilizing molecules improve RNA stability and crystal packing.

Conclusions:

Effective strategies exist to overcome challenges in RNA crystallization.
Advances in construct engineering offer promising avenues for obtaining well-ordered RNA crystals.
Continued research is essential to further enhance RNA crystallography techniques.