Difference between revisions of "Part:BBa K4165138"

Revision as of 18:19, 11 October 2022

HTRA Binding Peptide 44

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 showed 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

cbeta_deviations = 0, clashscore = 8.2, molprobity = 3.7, ramachandran_favored = 0, ramachandran_outliers = 80, Qmean_4 = -5.42217, Qmean6 = -4.10711

Modeling

                 Figure 1.: 3D Model of H2R peptide Modelled by AlphaFold2.0 displayed in Pyomol

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.

@@ Line 8: / Line 8: @@
 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.
+We were motivated by our chosen Tau binding peptide since it was the inverted sequence of a high affinity peptide that showed better affinity, so we decided to try it with our HTRA1 BP.
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