Coding

Part:BBa_K4165124

Designed by: Esraa Elmligy   Group: iGEM22_CU_Egypt   (2022-09-30)
Revision as of 17:40, 11 October 2022 by Omnia Alaa11 (Talk | contribs)


HTRA Binding Peptide 30

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

Usage and Biology

A reversed sequence of a high affinity binding peptide is proposed for binding to the PDZ domain of HTRA1.

We were motivated by our chosen Tau binding peptide since it was the inverted sequence of a high affinity peptide that shown better affinity, so we decided to try it with our HTRA1 BP. 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 4 out of 6 in our Quality assessment code after modeling by AlphaFold2.0.

tml> <style> table, th, td {

 border:1px solid black; margin-left:auto;margin-right:auto;

} </style> <body>

cbeta_deviations clashscore molprobity ramachandran_favored ramachandran_outliers Qmean_4 Qmean_6
0 16 3.73 20 60 -5.832 -3.92999

</body> </html>

Dry Lab

Modeling


                    Figure 1.: 3D Model of H2D peptide Modelled by AlphaFold2.0 displayed in Pymol.

References

Dammers, C., Yolcu, D., Kukuk, L., Willbold, D., Pickhardt, M., Mandelkow, E., ... & Funke, S. A. (2016). Selection and Characterization of Tau Binding ᴅ-Enantiomeric Peptides with Potential for Therapy of Alzheimer Disease. PLoS One, 11(12), e0167432.

[edit]
Categories
Parameters
None