Journal
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS
Volume 490, Issue 2, Pages 163-170Publisher
ELSEVIER SCIENCE INC
DOI: 10.1016/j.abb.2009.08.020
Keywords
Ribozyme; RNA motifs; RNA self-assembly; RNA tertiary structure; Self-folding; tectoRNA
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Funding
- Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT) [21111518, 19657071]
- National Institutes of Health [R01-GM079604]
- Kyushu University Global COE (Science for Future Molecular Systems) and California NanoSystems Institute (CNSI)
- Grants-in-Aid for Scientific Research [19657071, 21111518] Funding Source: KAKEN
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The DSL ribozyme is a class of artificial ligase ribozymes with a highly modular architecture, which catalyzes template-directed RNA ligation on a helical substrate module that can be either covalently connected (cis-DSL) or physically separated (trans-DSL) from the catalytic module. Substrate recognition by the catalytic module is promoted by one or two sets of GNRA/receptor interactions acting as clamps in the cis or trans configurations, respectively. In this study, we have rationally designed and analyzed the catalytic and self-assembly properties of several trans-DSL ribozymes with different sets of natural and artificial GNRA-receptor clamps. Two variants newly designed in this study showed significantly enhanced catalytic properties with respect of the original trans-DSL construct. While this work allows dissection of the turnover and catalytic properties of the trans-DSL ribozyme, it also emphasizes the remarkable modularity of RNA tertiary structure for nano-construction of complex functions. (C) 2009 Elsevier Inc. All rights reserved.
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