Difference between revisions of "Part:BBa K4165113"
Line 6: Line 6:
  
 
===Usage and Biology===
 
===Usage and Biology===
−
Synthetic peptide acquired by Phage display, Binds specifically to PDZ domain of HTRA1 and HTRA3 Proteins with IC50 of 7.7 ± 0.6
+
Synthetic peptide acquired by Phage display, Binds specifically to PDZ domain of HTRA1 and HTRA3 Proteins with IC50 of 23 ± 3
  
 
<!-- -->
 
<!-- -->
Line 15: Line 15:
 
Got score of 4 out of 6 in our Quality assessment code after modeling by AlphaFold2.0
 
Got score of 4 out of 6 in our Quality assessment code after modeling by AlphaFold2.0
  
−
cbeta_deviations = 0, clashscore = 179.69, molprobity = 3.76, ramachandran_favored = 33.33, ramachandran_outliers = 66.67, Qmean_4 = -1.899134, Qmean6 = -0.607119
+
cbeta_deviations = 0, clashscore = 40.65, molprobity = 4.06, ramachandran_favored = 20, ramachandran_outliers = 60, Qmean_4 = -6.45183, Qmean6 = -5.513969
  
  
Line 24: Line 24:
  
  
−
                   Figure 1.: 3D Model of H1S peptide Modelled by AlphaFold2.0 displayed in Pyomol
+
                   Figure 1.: 3D Model of H1T peptide Modelled by AlphaFold2.0 displayed in Pyomol
  
 
===References===
 
===References===

Revision as of 22:13, 6 October 2022


HTRA Binding Peptide 19

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 IC50 of 23 ± 3

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 = 40.65, molprobity = 4.06, ramachandran_favored = 20, ramachandran_outliers = 60, Qmean_4 = -6.45183, Qmean6 = -5.513969


Modeling


                 Figure 1.: 3D Model of H1T peptide Modelled by AlphaFold2.0 displayed in Pyomol

References

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.