Difference between revisions of "Part:BBa K4165080"

Latest revision as of 05:22, 12 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]

Dry-Lab Charachtarizstion

Modelling

                             Figure 1.: A graphical illustration showing the Inhibitor (NMR).

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.

@@ Line 10: / Line 10: @@
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-<span class='h3bb'>Sequence and Features</span>
+===<span class='h3bb'>Sequence and Features</span>===
 <partinfo>BBa_K4165080 SequenceAndFeatures</partinfo>
-===Functional Parameters===
+===Dry-Lab Charachtarizstion===
-GC% Content
-.3%
-Isoelectric point (PI)
-.268
-Charge at pH 7
-.566
-Molecular Weight (Protein)
-.232 kDa
-It has both x-ray structure and a predicted model (AlphaFold).
+===Modelling===
-PDB structure
-NMR structure:
+<html>
-https://www.rcsb.org/structure/2LEO
+<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/switches/p85062-nmr.png" style="margin-left:200px;" alt="" width="500" /></p>
-Molprobity:
+</html>
-Clash Score:
-Ramachandran Favoured:
-Ramachandran Outliers:
-Rotamers Outliers:
-C-beta Deviations:
-Q-Mean:
-AlphaFold:
+                              Figure 1.: A graphical illustration showing the Inhibitor (NMR).
-https://alphafold.ebi.ac.uk/entry/P58062
-Molprobity:
-Clash Score:
-Ramachandran Favoured:
-Ramachandran Outliers:
-Rotamers Outliers:
-C-beta Deviations:
-Q-Mean:
 ===References===
-- 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.
+- 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. <br>
-- 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.
+- 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.<br>
-- 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.
+- 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.<br>
 - 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.
 <partinfo>BBa_K4165080 parameters</partinfo>
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