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DNA-Tethered RNA Polymerase for Programmable In vitro Transcription and Molecular Computation
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Computational Generation of RNA Nanorings
Rishabh Sharan1, Eckart Bindewald2, Wojciech K Kasprzak3
1RNA Structure and Design Section, RNA Biology Laboratory, National Cancer Institute, National Institutes of Health, Frederick, MD, 21702, USA.
Methods in Molecular Biology (Clifton, N.J.)
|July 22, 2017
Summary
This study introduces a user-friendly workflow for designing complex RNA ring structures. It simplifies the creation of self-assembling RNA rings, making advanced molecular design accessible.
Area of Science:
- * Molecular Biology
- * Structural Biology
- * Bioinformatics
Background:
- * Designing self-assembling RNA ring structures is complex due to numerous motif and linker combinations.
- * Most combinations do not result in successful ring closure.
- * A previous
- design-by-catalog
- approach tabulated successful combinations.
Purpose of the Study:
- * To present a web-based workflow for designing RNA rings.
- * To simplify the creation of self-assembling RNA structures.
- * To demonstrate the generation and 3D modeling of RNA rings.
Main Methods:
- * Development of a web-browser based workflow using the Galaxy platform.
- * Utilization of a precomputed catalog of successful RNA motif combinations.
- * Generation and processing of RNA rings for 3D model creation.
Main Results:
- * A functional workflow for RNA ring design is established.
- * The workflow facilitates the creation of diverse RNA ring structures.
- * Successful generation and 3D modeling of example RNA rings were demonstrated.
Conclusions:
- * The developed workflow streamlines RNA ring design.
- * This approach democratizes the creation of complex RNA structures.
- * It facilitates further research in RNA nanotechnology and design.
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