Difference between revisions of "Part:BBa K4165111"

 
Line 5: Line 5:
 
part encodes for a synthetic peptide that binds to the PDZ domain of HTRA1 protein
 
part encodes for a synthetic peptide that binds to the PDZ domain of HTRA1 protein
  
−
 
−
 
−
 
−
<!-- Add more about the biology of this part here
 
 
===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 0.9 ± 0.1
  
 
<!-- -->
 
<!-- -->
Line 15: Line 12:
 
<partinfo>BBa_K4165111 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4165111 SequenceAndFeatures</partinfo>
  
−
 
−
<!-- Uncomment this to enable Functional Parameter display
 
 
===Functional Parameters===
 
===Functional Parameters===
−
<partinfo>BBa_K4165111 parameters</partinfo>
+
Got score of 4 out of 6 in our Quality assessment code after modeling by AlphaFold2.0
 +
 
 +
cbeta_deviations = 0, clashscore = 30.53, molprobity = 3.76, ramachandran_favored = 60, ramachandran_outliers = 40, Qmean_4 = -6.45183, Qmean6 = -5.435502
 +
 
 +
 
 +
===Modeling===
 +
<html>
 +
<p><img src="" style="margin-left:200px;" alt="" width="500" /></p>
 +
</html>
 +
 
 +
 
 +
                  Figure 1.: 3D Model of H1Q 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.
 
<!-- -->
 
<!-- -->

Revision as of 21:19, 6 October 2022


HTRA Binding Peptide 17

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 0.9 ± 0.1

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 = 30.53, molprobity = 3.76, ramachandran_favored = 60, ramachandran_outliers = 40, Qmean_4 = -6.45183, Qmean6 = -5.435502


Modeling


                 Figure 1.: 3D Model of H1Q 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.