Difference between revisions of "Part:BBa K4165134"
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Latest revision as of 09:10, 13 October 2022
HTRA Binding Peptide 40
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:
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE 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 | 8.77 | 3.42 | 40 | 40 | -3.62452 | -2.48071 |
Figure 1.: 3D Model of H2N peptide Modelled by AlphaFold2.0 displayed in Pymol.
References
1.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.