Difference between revisions of "Part:BBa K4165120"

 
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 the water-sites of PDZ domain of HTRA1 Protein with IC50 of 0.26 ± 0.01 and G of 13
 
<!-- -->
 
<!-- -->
 
<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K4165120 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4165120 SequenceAndFeatures</partinfo>
  
−
 
−
<!-- Uncomment this to enable Functional Parameter display
 
 
===Functional Parameters===
 
===Functional Parameters===
 +
Got score of 4 out of 6 in our Quality assessment code after modeling by AlphaFold2.0
 +
 +
cbeta_deviations = 0, clashscore = 20.83, molprobity = 3.85, ramachandran_favored = 33.33, ramachandran_outliers = 33.33, Qmean_4 = -6.45183, Qmean6 = -5.51397
 +
 +
===Modeling===
 +
<html>
 +
<p><img src="" style="margin-left:200px;" alt="" width="500" /></p>
 +
</html>
 +
 +
 +
                  Figure 1.: 3D Model of H1Z peptide Modelled by AlphaFold2.0 displayed in Pyomol
 +
 +
===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.
 
<partinfo>BBa_K4165120 parameters</partinfo>
 
<partinfo>BBa_K4165120 parameters</partinfo>
 
<!-- -->
 
<!-- -->

Revision as of 23:16, 6 October 2022


HTRA Binding Peptide 26

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 0.26 ± 0.01 and G of 13 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 = 20.83, molprobity = 3.85, ramachandran_favored = 33.33, ramachandran_outliers = 33.33, Qmean_4 = -6.45183, Qmean6 = -5.51397

Modeling


                 Figure 1.: 3D Model of H1Z peptide Modelled by AlphaFold2.0 displayed in Pyomol

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.