DNA

Part:BBa_K4391002

Designed by: Kalyandeep Ghosh, Prerna Swarnim, Udbhas Garai   Group: iGEM22_IISER_Mohali   (2022-09-29)
Revision as of 18:01, 13 October 2022 by Denatured Helicase (Talk | contribs)

Salmonella typhimurium Aptamer

This is an high affinity ssDNA aptamer against bacteria Salmonella typhumurium . The aptamer 3D folded structure was generated, molecular docking against most of the known surface proteins of S. typhimurium was performed to identify the protein(s) the aptamer may bind to. Then the molecular dynamics simulation was performed.

Usage and Biology

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]

Modelling

References

[1] Duan, Nuo & Wu, Shijia & Chen, Xiujuan & Huang, Yukun & Xia, Yu & Ma, Xiaoyuan & Wang, Zhouping. (2013). Selection and Characterization of Aptamers against Salmonella typhimurium Using Whole-Bacterium Systemic Evolution of Ligands by Exponential Enrichment (SELEX). Journal of agricultural and food chemistry. 61. 10.1021/jf400767d.
[2] http://hex.loria.fr/
[3] Zhao, Y., et al., Automated and fast building of three-dimensional RNA structures. Scientific Reports, 2012. 2: p. 734.
[4]
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[edit]
Categories
//dna/aptamer
Parameters
None