Difference between revisions of "Part:BBa K4165131"

Latest revision as of 09:17, 13 October 2022

HTRA Binding Peptide 37

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

Usage and Biology

Synthetic peptide acquired by Phage display, Binds specifically to the water-sites of PDZ domain of HTRA1 Protein with IC50 of 2.0 ± 0.1 and ΔG of 100 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]

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	0	2.71	0	0	-6.45183	-5.513969

                    Figure 1.: 3D Model of H2K peptide Modelled by AlphaFold2.0 displayed in Pymol

References

1. Beuming, T., Farid, R., & Sherman, W. (2009). High‐energy water sites determine peptide binding affinity and specificity of PDZ domains. Protein Science, 18(8), 1609-1619.

@@ Line 6: / Line 6: @@
 ===Usage and Biology===
-Synthetic peptide acquired by Phage display, Binds specifically to the water-sites of PDZ domain of HTRA1 Protein with IC50 of 2.0 ± 0.1 and ΔG of 100.
+Synthetic peptide acquired by Phage display, Binds specifically to the water-sites of PDZ domain of HTRA1 Protein with IC50 of 2.0 ± 0.1 and ΔG of 100 kcal/mol.
 <!-- -->
@@ Line 13: / Line 13: @@
-===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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 </html>
-===Dry Lab===
-<p style=" font-weight: bold; font-size:14px;"> Modeling </p>
 <html>
 <p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/htra1-bp/h2k.jpg" style="margin-left:200px;" alt="" width="500" /></p>
@@ Line 58: / Line 59: @@
 ===References===
-Beuming, T., Farid, R., & Sherman, W. (2009). High‐energy water sites determine peptide binding affinity and specificity of PDZ domains. Protein Science, 18(8), 1609-1619.
+. Beuming, T., Farid, R., & Sherman, W. (2009). High‐energy water sites determine peptide binding affinity and specificity of PDZ domains. Protein Science, 18(8), 1609-1619.
 <partinfo>BBa_K4165131 parameters</partinfo>
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