Difference between revisions of "Part:BBa K4165000"

Revision as of 16:11, 10 October 2022

HTRA Binding Peptide 1

Part encodes a synthetic peptide that binds to the PDZ domain of serine protease HTRA1.

Usage and Biology

Synthetic peptide acquired by Phage display, binds specifically to PDZ domain of HTRA1 and HTRA3 Proteins.

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

ΔG of –8.8 and IC50 of 0.9 ± 0.1

Dry Lab Characterization

Got score of 5 out of 6 in our Quality assessment code after modeling by AlphaFold2.0 cbeta_deviations = 0, clashscore = 69.77, molprobity = 4.26, ramachandran_favored = 40, ramachandran_outliers = 60, Qmean_4 = -6.45183, Qmean6 = -5.51397

Modeling

                     Figure 1.: 3D Model of H1A peptide Modelled by AlphaFold2.0 displayed in Pymol

Docking

ΔG= -32.8 kcal/mol

                     Figure 1.: 3D Model of H1A peptide Docked against HTRA1 displayed in Pymol

@@ Line 3: / Line 3: @@
 <partinfo>BBa_K4165000 short</partinfo>
-part encodes for a synthetic peptide that binds to the PDZ domain of HTRA1 protein
+Part encodes a synthetic peptide that binds to the PDZ domain of serine protease HTRA1.
 ===Usage and Biology===
-Synthetic peptide acquired by Phage display, Binds specifically to PDZ domain of HTRA1 and HTRA3 Proteins with G of –8.8 and IC50 of 0.9 ± 0.1
+Synthetic peptide acquired by Phage display, binds specifically to PDZ domain of HTRA1 and HTRA3 Proteins.
 <!-- -->
 ===<span class='h3bb'>Sequence and Features</span>===
 <partinfo>BBa_K4165000 SequenceAndFeatures</partinfo>
 ===Functional Parameters===
+ΔG of –8.8 and IC50 of 0.9 ± 0.1
+===Dry Lab Characterization===
 Got score of 5 out of 6 in our Quality assessment code after modeling by AlphaFold2.0
 cbeta_deviations = 0, clashscore = 69.77, molprobity = 4.26, ramachandran_favored = 40, ramachandran_outliers = 60, Qmean_4 = -6.45183, Qmean6 = -5.51397
-===Modeling===
+<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/h1b.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 </html>
-                  Figure 1.: 3D Model of H1A peptide Modelled by AlphaFold2.0 displayed in Pyomol
+                      Figure 1.: 3D Model of H1A peptide Modelled by AlphaFold2.0 displayed in Pymol
-===Docking===
+<p style=" font-weight: bold; font-size:14px;"> Docking </p>
 ΔG= -32.8 kcal/mol
@@ Line 30: / Line 36: @@
 </html>
-                  Figure 1.: 3D Model of H1A peptide Docked against HTRA1 displayed in Pyomol
+                      Figure 1.: 3D Model of H1A peptide Docked against HTRA1 displayed in Pymol
 <partinfo>BBa_K4165000 parameters</partinfo>
 <!-- -->