Difference between revisions of "Part:BBa K4165134"

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:

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	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.

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-<span class='h3bb'>Sequence and Features</span>
+===<span class='h3bb'>Sequence and Features</span>===
 <partinfo>BBa_K4165134 SequenceAndFeatures</partinfo>
-===Functional Parameters===
+===Dry lab characterizations===
+===Modeling===
 Got score of 4 out of 6 in our Quality assessment code after modeling by AlphaFold2.0
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-===Modeling===
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 <p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/htra1-bp/h2n.jpg" style="margin-left:200px;" alt="" width="500" /></p>
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 ===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.
+.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.
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 <partinfo>BBa_K4165134 parameters</partinfo>
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