Difference between revisions of "Part:BBa K4165116"
 
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<partinfo>BBa_K4165116 short</partinfo>
 
<partinfo>BBa_K4165116 short</partinfo>
  
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part encodes for a synthetic peptide that binds to the PDZ domain of HTRA1 protein
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Part encodes for a synthetic peptide that binds to the PDZ domain of HTRA1 protein
  
 
===Usage and Biology===
 
===Usage and Biology===
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Synthetic peptide acquired by Phage display, Binds specifically to the water-sites of PDZ domain of HTRA1 Protein with IC<sub>50</sub> of 0.16 ± 0.01 and ΔG of 8.0 kJ.mol<sup>-1</sup>
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Synthetic peptide acquired by Phage display, Binds specifically to the water-sites of PDZ domain of HTRA1 Protein with IC<sub>50</sub> of 0.16 ± 0.01 and ΔG of 8.0 kcal/mol
  
 
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<partinfo>BBa_K4165116 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4165116 SequenceAndFeatures</partinfo>
 
   
 
   
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===Functional Parameters===
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===Dry Lab Characterization===
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<p style=" font-weight: bold; font-size:14px;"> Modeling </p>
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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
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<html>
 
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</html>
 
</html>
  
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===Modeling===
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<html>
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/htra1-bp/h1v.jpg" style="margin-left:200px;" alt="" width="500" /></p>
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/htra1-bp/h1v.jpg" style="margin-left:250px;" alt="" width="500" /></p>
 
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                    Figure 1.: 3D Model of H1V peptide Modelled by AlphaFold2.0 displayed in Pymol.
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                      Figure 1.: 3D Model of H1V peptide Modelled by AlphaFold2.0 displayed in Pymol.
  
 
===References===
 
===References===

Latest revision as of 09:23, 13 October 2022


HTRA Binding Peptide 22

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 0.16 ± 0.01 and ΔG of 8.0 kcal/mol

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]

Dry Lab Characterization

Modeling

Got score of 4 out of 6 in our Quality assessment code after modeling by AlphaFold2.0


cbeta_deviations clashscore molprobity ramachandran_favored ramachandran_outliers Qmean_4 Qmean_6
0 170.45 4.83 0 66.67 -6.45183 -5.513969 



                      Figure 1.: 3D Model of H1V peptide Modelled by AlphaFold2.0 displayed in Pymol.

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.