Difference between revisions of "Part:BBa K4165102"

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                   Figure 1.: 3D Model of H1H peptide Modelled by AlphaFold2.0 displayed in Pyomol  
 
                   Figure 1.: 3D Model of H1H peptide Modelled by AlphaFold2.0 displayed in Pyomol  
  
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===Reference===
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1.Romero-Molina, S., Ruiz-Blanco, Y. B., Mieres-Perez, J., Harms, M., Münch, J., Ehrmann, M., & Sanchez-Garcia, E. (2022). PPI-Affinity: A Web Tool for the Prediction and Optimization of Protein–Peptide and Protein–Protein Binding Affinity. Journal of Proteome Research.
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2.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.
  
 
<partinfo>BBa_K4165102 parameters</partinfo>
 
<partinfo>BBa_K4165102 parameters</partinfo>
 
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Revision as of 23:51, 6 October 2022


HTRA Binding Peptide 8

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 G of –7.3 and IC50 of 7.7 ± 0.6

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 least score of 1 out of 6 in our Quality assessment code after modeling by AlphaFold2.0

cbeta_deviations = 0, clashscore = 0, molprobity = 1.42, ramachandran_favored = 60, ramachandran_outliers = 40, Qmean_4 = -6.45183, Qmean6 = -5.513969

Modeling


                 Figure 1.: 3D Model of H1H peptide Modelled by AlphaFold2.0 displayed in Pyomol 

Reference

1.Romero-Molina, S., Ruiz-Blanco, Y. B., Mieres-Perez, J., Harms, M., Münch, J., Ehrmann, M., & Sanchez-Garcia, E. (2022). PPI-Affinity: A Web Tool for the Prediction and Optimization of Protein–Peptide and Protein–Protein Binding Affinity. Journal of Proteome Research.

2.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.