Difference between revisions of "Part:BBa K4165116"

 
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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
  
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===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 IC50 of 0.16 ± 0.01 and G of 8.0
  
 
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<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K4165116 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4165116 SequenceAndFeatures</partinfo>
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===Functional Parameters===
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Got score of 4 out of 6 in our Quality assessment code after modeling by AlphaFold2.0
  
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cbeta_deviations = 0, clashscore = 170.45, molprobity = 4.83, ramachandran_favored = 0, ramachandran_outliers = 66.67, Qmean_4 = -6.45183, Qmean6 = -5.51397
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===Modeling===
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<p><img src="" style="margin-left:200px;" alt="" width="500" /></p>
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</html>
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                  Figure 1.: 3D Model of H1V peptide Modelled by AlphaFold2.0 displayed in Pyomol
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===References===
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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.
  
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===Functional Parameters===
 
 
<partinfo>BBa_K4165116 parameters</partinfo>
 
<partinfo>BBa_K4165116 parameters</partinfo>
 
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Revision as of 23:03, 6 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 G of 8.0

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 = 170.45, molprobity = 4.83, ramachandran_favored = 0, ramachandran_outliers = 66.67, Qmean_4 = -6.45183, Qmean6 = -5.51397

Modeling


                 Figure 1.: 3D Model of H1V 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.