DNA

Part:BBa_K4438801

Designed by: Shreyas Samir Parkhie   Group: iGEM22_IISER-Tirupati_India   (2022-10-12)


MN4_trigger_1-T7promoter-w/oPol

It is a single-stranded DNA sequence having 19 nucleotides (ssDNA sense T7 promoter strand). Figure 1A) shows the secondary structure and minimum free energy.

Usage and Biology

This part can bind to Aptamer_MN4 (BBa_K4438800) due to complementarity and disrupt its three-way junction. Figure 1D) Shows the secondary structure of both parts hybridised at 37° Celsius. Quinine binds with cocaine-binding aptamer MN4 [1] and displaces the MN4_trigger_1-T7promoter-w/oPol(BBa_K4438801). This part has complete complementarity with MN4_Target_1(BBa_K4438802). T7 polymerase binds and in-vitro transcription of the duplex forms multiple broccoli light-up aptamers. All three parts can be used to detect different concentrations of quinine.

T--IISER-Tirupati India--mn4structure1.png

Sequence and Features


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]


References

Reinstein, O., Yoo, M., Han, C., Palmo, T., Beckham, S. A., Wilce, M. C., & Johnson, P. E. (2013). Quinine binding by the cocaine-binding aptamer. Thermodynamic and hydrodynamic analysis of high-affinity binding of an off-target ligand. Biochemistry, 52(48), 8652-8662.

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Categories
Parameters
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