Coding

Part:BBa_K4165130

Designed by: Esraa Elmligy   Group: iGEM22_CU_Egypt   (2022-09-30)
Revision as of 17:29, 10 October 2022 by Salma Sobhy (Talk | contribs) (→‎Modeling)


HTRA Binding Peptide 36

part encodes for a synthetic peptide that binds to the PDZ domain of HTRA1 protein

Usage and Biology

Synthetic peptide acquired by Phage display, Binds specifically to the water-sites of PDZ domain of HTRA1 Protein with IC50 of 2.8 ± 0.7 and G of 140

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]

Functional Parameters

Got score of 5 out of 6 in our Quality assessment code after modeling by AlphaFold2.0

cbeta_deviations = 0, clashscore = 0, molprobity = 1.37, ramachandran_favored = 66.67, ramachandran_outliers = 0, Qmean_4 = 2.023586, Qmean6 = 1.78381

Modeling


                 Figure 1.: 3D Model of H2J peptide Modelled by AlphaFold2.0 displayed in Pyomol

References

Beuming, T., Farid, R., & Sherman, W. (2009). High‐energy water sites determine peptide binding affinity and specificity of PDZ domains. Protein Science, 18(8), 1609-1619.

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Categories
Parameters
None