Difference between revisions of "Part:BBa K4165102"

Revision as of 13:31, 10 October 2022

HTRA Binding Peptide 8

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 PDZ domain of HTRA1 and HTRA3 Proteins with ΔG of –7.3 kJ mol-1 and IC50 of 7.7 ± 0.6

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 least score of 1 out of 6 in our Quality assessment code after modeling by AlphaFold2.0

cbeta_deviations = 0, clashscore = 0, molprobity = 1.42, ramachandran_favored = 60, ramachandran_outliers = 40, Qmean_4 = -6.45183, Qmean6 = -5.513969

Modeling

                 Figure 1.: 3D Model of H1H peptide Modelled by AlphaFold2.0 displayed in Pyomol

Reference

1.Romero-Molina, S., Ruiz-Blanco, Y. B., Mieres-Perez, J., Harms, M., Münch, J., Ehrmann, M., & Sanchez-Garcia, E. (2022). PPI-Affinity: A Web Tool for the Prediction and Optimization of Protein–Peptide and Protein–Protein Binding Affinity. Journal of Proteome Research.

2.Runyon, S. T., Zhang, Y., Appleton, B. A., Sazinsky, S. L., Wu, P., Pan, B., ... & Sidhu, S. S. (2007). Structural and functional analysis of the PDZ domains of human HtrA1 and HtrA3. Protein Science, 16(11), 2454-2471.

@@ Line 7: / Line 7: @@
 ===Usage and Biology===
-Synthetic peptide acquired by Phage display, Binds specifically to PDZ domain of HTRA1 and HTRA3 Proteins with G of –7.3 and IC50 of 7.7 ± 0.6
+Synthetic peptide acquired by Phage display, Binds specifically to PDZ domain of HTRA1 and HTRA3 Proteins with  ΔG of –7.3 kJ mol-1 and IC50 of 7.7 ± 0.6
 <!-- -->