Difference between revisions of "Part:BBa K3328039:Design"

(→‎Design Notes)
(→‎References)
Line 15: Line 15:
  
 
===References===
 
===References===
 +
[1] Kim, J., Zhou, Y., Carlson, P. D., Teichmann, M., Chaudhary, S., Simmel,
 +
F. C., … Green, A. A. (2019).  De novo-designed translation-repressing riboregulators for
 +
multi-input cellular logic. Nature Chemical Biology. doi:10.1038/s41589-019-0388-1
 +
 +
[2] Green, A. A., Silver, P. A., Collins, J. J., and Yin, P. (2014) toehold switches: de-novo-
 +
designed regulators of gene expression. Cell 159, 925– 939, DOI: 10.1016/j.cell.2014.10.002

Revision as of 16:43, 20 October 2020


triggerA of IMPLY gate (IMPLY1)


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

We combined the 3WJ switch and toehold switch to realize the IMPLY Boolean calculation. When no trigger expressed, this logic gate just likes a 3WJ switch. When trigger A expressed, the trigger will bind to the switch RNA. The binding allows for a branch migration process, exposing AUG and RBS for translation initiation. When trigger B expressed, the trigger will bind to 3WJ switch RNA. The resulting trigger–switch complex has a stable 3WJ structure that effectively sequesters the RBS and start codon within the loop and stem of the switch RNA, respectively, and strongly represses translation. When trigger A and B both expressed, the binding of trigger RNA to the toehold sequence allow the RNA polymerase binds to the former RBS and break open 3WJ stable hairpin.

Source

synthesize from company


References

[1] Kim, J., Zhou, Y., Carlson, P. D., Teichmann, M., Chaudhary, S., Simmel, F. C., … Green, A. A. (2019). De novo-designed translation-repressing riboregulators for multi-input cellular logic. Nature Chemical Biology. doi:10.1038/s41589-019-0388-1

[2] Green, A. A., Silver, P. A., Collins, J. J., and Yin, P. (2014) toehold switches: de-novo- designed regulators of gene expression. Cell 159, 925– 939, DOI: 10.1016/j.cell.2014.10.002