Difference between revisions of "Part:BBa K4165080"

 
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<partinfo>BBa_K4165080 short</partinfo>
 
<partinfo>BBa_K4165080 short</partinfo>
  
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A serine protease inhibitor is used to inhibit the action of HTRA1
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This basic part encodes Human serine protease inhibitor known as SPINK7 which is able to inhibit trypsin-like proteases, like HtrA1 (BBa_K4165004).
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===Usage and Biology===
 
===Usage and Biology===
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This type of family encodes for a type of inhibitor that is able to inhibit serine proteases. The inhibitor binds to trypsin proteases and since the catalytic core of HtrA1 (BBa_K4165004) is considered as a tyrpsin-like catalytic domain, so this inhibitor also is considered to inhibit the function of HtrA1 [1] - [4].
  
 
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===Functional Parameters===
 
===Functional Parameters===
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GC% Content
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53.3%
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Isoelectric point (PI)
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7.268
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Charge at pH 7
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0.566
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Molecular Weight (Protein)
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9.232 kDa
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It has both x-ray structure and a predicted model (AlphaFold).
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PDB structure
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NMR structure:
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https://www.rcsb.org/structure/2LEO
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Molprobity:
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Clash Score:
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Ramachandran Favoured:
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Ramachandran Outliers:
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Rotamers Outliers:
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C-beta Deviations:
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Q-Mean:
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AlphaFold:
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https://alphafold.ebi.ac.uk/entry/P58062
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Molprobity:
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Clash Score:
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Ramachandran Favoured:
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Ramachandran Outliers:
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Rotamers Outliers:
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C-beta Deviations:
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Q-Mean:
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===References===
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1 - Frochaux, V., Hildebrand, D., Talke, A., Linscheid, M. W., & Schlüter, H. (2014). Alpha-1-antitrypsin: a novel human high temperature requirement protease A1 (HTRA1) substrate in human placental tissue. PloS one, 9(10), e109483.
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2 - Grau, S., Baldi, A., Bussani, R., Tian, X., Stefanescu, R., Przybylski, M., ... & Ehrmann, M. (2005). Implications of the serine protease HtrA1 in amyloid precursor protein processing. Proceedings of the National Academy of Sciences, 102(17), 6021-6026.
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3 - Eigenbrot, C., Ultsch, M., Lipari, M. T., Moran, P., Lin, S. J., Ganesan, R., ... & Kirchhofer, D. (2012). Structural and functional analysis of HtrA1 and its subdomains. Structure, 20(6), 1040-1050.
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4 - Chen, T. J., Tian, Y. F., Chou, C. L., Chan, T. C., He, H. L., Li, W. S., ... & Lai, H. Y. (2021). High spink4 expression predicts poor outcomes among rectal cancer patients receiving CCRT. Current Oncology, 28(4), 2373-2384.
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<partinfo>BBa_K4165080 parameters</partinfo>
 
<partinfo>BBa_K4165080 parameters</partinfo>
 
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Revision as of 17:18, 5 October 2022


SPINK7 (Serine Peptidase Inhibitor Kazal type 7).

This basic part encodes Human serine protease inhibitor known as SPINK7 which is able to inhibit trypsin-like proteases, like HtrA1 (BBa_K4165004).


Usage and Biology

This type of family encodes for a type of inhibitor that is able to inhibit serine proteases. The inhibitor binds to trypsin proteases and since the catalytic core of HtrA1 (BBa_K4165004) is considered as a tyrpsin-like catalytic domain, so this inhibitor also is considered to inhibit the function of HtrA1 [1] - [4].

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

GC% Content 53.3% Isoelectric point (PI) 7.268 Charge at pH 7 0.566 Molecular Weight (Protein) 9.232 kDa

It has both x-ray structure and a predicted model (AlphaFold). PDB structure

NMR structure: https://www.rcsb.org/structure/2LEO Molprobity: Clash Score: Ramachandran Favoured: Ramachandran Outliers: Rotamers Outliers: C-beta Deviations: Q-Mean:

AlphaFold: https://alphafold.ebi.ac.uk/entry/P58062 Molprobity: Clash Score: Ramachandran Favoured: Ramachandran Outliers: Rotamers Outliers: C-beta Deviations: Q-Mean:

References

1 - Frochaux, V., Hildebrand, D., Talke, A., Linscheid, M. W., & Schlüter, H. (2014). Alpha-1-antitrypsin: a novel human high temperature requirement protease A1 (HTRA1) substrate in human placental tissue. PloS one, 9(10), e109483. 2 - Grau, S., Baldi, A., Bussani, R., Tian, X., Stefanescu, R., Przybylski, M., ... & Ehrmann, M. (2005). Implications of the serine protease HtrA1 in amyloid precursor protein processing. Proceedings of the National Academy of Sciences, 102(17), 6021-6026. 3 - Eigenbrot, C., Ultsch, M., Lipari, M. T., Moran, P., Lin, S. J., Ganesan, R., ... & Kirchhofer, D. (2012). Structural and functional analysis of HtrA1 and its subdomains. Structure, 20(6), 1040-1050. 4 - Chen, T. J., Tian, Y. F., Chou, C. L., Chan, T. C., He, H. L., Li, W. S., ... & Lai, H. Y. (2021). High spink4 expression predicts poor outcomes among rectal cancer patients receiving CCRT. Current Oncology, 28(4), 2373-2384.