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The Application of Ribozymes and DNAzymes in Muscle and Brain
Molecules 2010, 15(9), 5850-5865; doi:10.3390/molecules15095850

Generation and Development of RNA Ligase Ribozymes with Modular Architecture Through “Design and Selection”

1, 1, 1,2 and 1,2,3,*
1 Graduate School of Engineering, Kyushu University, 819-0395, Fukuoka, Japan 2 International Research Center for Molecular Systems, Kyushu University, 819-0395, Fukuoka, Japan 3 PRESTO, Japan Science and Technology Agency, Tokyo 102-0075, Japan
* Author to whom correspondence should be addressed.
Received: 29 June 2010 / Revised: 12 August 2010 / Accepted: 18 August 2010 / Published: 26 August 2010
(This article belongs to the Special Issue Catalytic Nucleic Acids)
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In vitro selection with long random RNA libraries has been used as a powerful method to generate novel functional RNAs, although it often requires laborious structural analysis of isolated RNA molecules. Rational RNA design is an attractive alternative to avoid this laborious step, but rational design of catalytic modules is still a challenging task. A hybrid strategy of in vitro selection and rational design has been proposed. With this strategy termed “design and selection,” new ribozymes can be generated through installation of catalytic modules onto RNA scaffolds with defined 3D structures. This approach, the concept of which was inspired by the modular architecture of naturally occurring ribozymes, allows prediction of the overall architectures of the resulting ribozymes, and the structural modularity of the resulting ribozymes allows modification of their structures and functions. In this review, we summarize the design, generation, properties, and engineering of four classes of ligase ribozyme generated by design and selection.
Keywords: RNA motif; module; in vitro selection; ribozyme; ligase RNA motif; module; in vitro selection; ribozyme; ligase
This is an open access article distributed under the Creative Commons Attribution License (CC BY 3.0).

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Fujita, Y.; Ishikawa, J.; Furuta, H.; Ikawa, Y. Generation and Development of RNA Ligase Ribozymes with Modular Architecture Through “Design and Selection”. Molecules 2010, 15, 5850-5865.

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