Reporter

Part:BBa_K494000:Design

Designed by: Haissi Cui, Tilman Flock, Sebastian Gude, Christoph Hartlmüller, Florian Praetorius, Jan Schüürmann, Tobi Wauer, Philipp Wortmann   Group: iGEM10_TU_Munich   (2010-10-25)

Malachite Green Binding Aptamer


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 1
    Illegal BamHI site found at 33
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

Sequence was ordered by Biomers. Originally ordered Sequence: aggctcctaatacgactcactatag ggagaattcgcggccgcttctagag ggatcccgactggcgagagccaggt aacgaatggatcctactagtagcgg ccgctgcag
Amplified by PCR, cut with EcoRI and PstI and cloned into precut, linearized pSB1C3.

Source

Synthetic aptamer evolved using SELEX. First described in Grate, D. and C. Wilson, Laser-mediated, site-specific inactivation of RNA transcripts. Proceedings of the National Academy of Sciences of the United States of America, 1999. 96(11): p. 6131.

References

Design:
Grate, D. and C. Wilson, Laser-mediated, site-specific inactivation of RNA transcripts. Proceedings of the National Academy of Sciences of the United States of America, 1999. 96(11): p. 6131.
Spectral properties:
Babendure, J.R., S.R. Adams, and R.Y. Tsien, Aptamers switch on fluorescence of triphenylmethane dyes. J. Am. Chem. Soc, 2003. 125(48): p. 14716-14717.
Threedimensional Structure:
Baugh, C., D. Grate, and C. Wilson, 2.8 Ã… crystal structure of the malachite green aptamer1. Journal of Molecular Biology, 2000. 301(1): p. 117-128.
Applications:
tojanovic, M.N. and D.M. Kolpashchikov, Modular aptameric sensors. J. Am. Chem. Soc, 2004. 126(30): p. 9266-9270.
Stead, S.L., et al., An RNA-Aptamer-Based Assay for the Detection and Analysis of Malachite Green and Leucomalachite Green Residues in Fish Tissue. Analytical chemistry. 82(7): p. 2652-2660.
Weigand, J.E. and B. Suess, Aptamers and riboswitches: perspectives in biotechnology. Applied microbiology and biotechnology, 2009. 85(2): p. 229-236.