Coding

Part:BBa_K4165108

Designed by: Mennatallah Mahmoud Mohamed Abdelzaher Turky   Group: iGEM22_CU_Egypt   (2022-09-30)
Revision as of 15:59, 9 October 2022 by Salma Sobhy (Talk | contribs)


HTRA Binding Peptide 14

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

Usage and Biology

decameric peptide, Binds specifically to PDZ domain of HTRA1 Protein with G of 3.8 ± 0.2 kcal/mol.

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 = 1.62, ramachandran_favored = 100, ramachandran_outliers = 0, Qmean_4 = -5.843485, Qmean6 = -4.746417

Modeling


                 Figure 1.: 3D Model of H1C peptide Modelled by AlphaFold2.0 displayed in Pyomol

Docking

G= 

                 Figure 1.: 3D Model of H1N peptide Docked against HTRA1 displayed in Pyomol


References

Rey, J., Breiden, M., Lux, V., Bluemke, A., Steindel, M., Ripkens, K., ... & Ehrmann, M. (2022). An allosteric HTRA1-calpain 2 complex with restricted activation profile. Proceedings of the National Academy of Sciences, 119(14), e2113520119.

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Categories
Parameters
None