Difference between revisions of "Part:BBa K4165098"
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Figure 1.: 3D Model of H1D peptide Modelled by AlphaFold2.0 displayed in Pyomol. | Figure 1.: 3D Model of H1D peptide Modelled by AlphaFold2.0 displayed in Pyomol. | ||
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| + | ===References=== | ||
| + | 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. | ||
<partinfo>BBa_K4165098 parameters</partinfo> | <partinfo>BBa_K4165098 parameters</partinfo> | ||
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Revision as of 20:09, 11 October 2022
HTRA Binding Peptide 4
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 ΔG of –8.1 kJ.mol-1 and IC50 of 2.8 ± 0.3
Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
Functional Parameters
Got score of 5 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 | 30,53 | 3.76 | 60 | 40 | -6.45183 | -5.435502 |
Modeling
Figure 1.: 3D Model of H1D peptide Modelled by AlphaFold2.0 displayed in Pyomol.
References
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.