Part:BBa_K1412088:Design
A combination of theophylline aptamer and taRNA that can response theophylline to regulate circuit
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
Design Notes
Our main goal to construct circuits that can response to different molecular. In our project, we wish to design different key to open the crRNA lock. We choose theophylline aptamer as our model ciucuit. According to James J Collins group (3) and Justin P.Gallivan group’s (4 ) work attract our attention. We put forward the following principle to design the key.
1.The binding site of taRNA and aptamer is near the site of theophylline and aptamer.
2.The order of secondary structures energy: single aptamer < combination of aptamer and taRNA < combination of aptamer and theophylline.
3.The conformation of the secondary structure formed by aptamer and taRNA is the same as the one Shana Topp (4) put forward.
Source
References
1.Farren J Isaasc, Daniel J Dwyer, Ding C, Pervouchine DD, Cantor CR, Collins JJ, et al.Engineered riboregulators enable post-translational control of gene expression. Nat Biotechnol. 2004 Jul;22(7):841-7.
2.Topp S, Gallivan J P. Guiding bacteria with small molecules and RNA[J]. Journal of the American Chemical Society, 2007, 129(21): 6807-6811.
3.Callura J M, Cantor C R, Collins J J. Genetic switchboard for synthetic biology applications[J]. Proceedings of the National Academy of Sciences, 2012, 109(15): 5850-5855.
4.Lynch S A, Desai S K, Sajja H K, et al. A high-throughput screen for synthetic riboswitches reveals mechanistic insights into their function[J]. Chemistry & biology, 2007, 14(2): 173-184.