Difference between revisions of "Part:BBa K4165109"

 
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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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decameric peptide, Binds specifically to PDZ domain of HTRA1 Protein with G of 10.3 ± 0.2 kcal/mol.
  
 
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<partinfo>BBa_K4165109 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4165109 SequenceAndFeatures</partinfo>
  
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===Functional Parameters===
 
===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 = 17.86, molprobity = 4, ramachandran_favored = 62.5, ramachandran_outliers = 12.5, Qmean_4 = -6.45183, Qmean6 = -5.513969
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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/h1o.jpg" style="margin-left:200px;" alt="" width="500" /></p>
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</html>
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                  Figure 1.: 3D Model of H1O peptide Modelled by AlphaFold2.0 displayed in Pyomol
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===Docking===
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===References===
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Rey, J., Breiden, M., Lux, V., Bluemke, A., Steindel, M., Ripkens, K., ... & Ehrmann, M. (2022). An allosteric HTRA1-calpain 2 complex with restricted activation profile. Proceedings of the National Academy of Sciences, 119(14), e2113520119.
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<partinfo>BBa_K4165109 parameters</partinfo>
 
<partinfo>BBa_K4165109 parameters</partinfo>
 
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Revision as of 20:58, 6 October 2022


HTRA Binding Peptide 15

part encodes for a synthetic peptide that binds to the PDZ domain of HTRA1 protein

Usage and Biology

decameric peptide, Binds specifically to PDZ domain of HTRA1 Protein with G of 10.3 ± 0.2 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]

Functional Parameters

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

cbeta_deviations = 0, clashscore = 17.86, molprobity = 4, ramachandran_favored = 62.5, ramachandran_outliers = 12.5, Qmean_4 = -6.45183, Qmean6 = -5.513969


Modeling


                 Figure 1.: 3D Model of H1O peptide Modelled by AlphaFold2.0 displayed in Pyomol

Docking

References

Rey, J., Breiden, M., Lux, V., Bluemke, A., Steindel, M., Ripkens, K., ... & Ehrmann, M. (2022). An allosteric HTRA1-calpain 2 complex with restricted activation profile. Proceedings of the National Academy of Sciences, 119(14), e2113520119.