Coding

Part:BBa_K4165120

Designed by: Esraa Elmligy   Group: iGEM22_CU_Egypt   (2022-09-30)
Revision as of 21:10, 11 October 2022 by M Zaki (Talk | contribs)


HTRA Binding Peptide 26

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 0.26 ± 0.01 and ΔG of 13 kcal.mol-1.

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]

Dry lab characterizations

Modeling

Got score of 4 out of 6 in our Quality assessment code after modeling by AlphaFold2.0

cbeta_deviations clashscore molprobity ramachandran_favored ramachandran_outliers Qmean_4 Qmean_6
0 20.83 3.85 33.33 33.33 -6.45183 -5.513969 


                   Figure 1.: 3D Model of H1Z peptide Modelled by AlphaFold2.0 displayed in Pymol.

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