Difference between revisions of "Part:BBa K4165082"

Latest revision as of 05:25, 12 October 2022

SPINK9 (Serine Peptidase Inhibitor Kazal type 9).

This basic part encodes Human serine protease inhibitor known as SPINK9 which is able to inhibit trypsin-like proteases, like HtrA1 (BBa_K4165004).

Usage and Biology

This part encodes for a type of inhibitor that is able to inhibit serine proteases and it is predicted to be located extracellularly. The main function of the inhibitor is to specifically target kallikrein-related peptide 5 (KLK-5) which is an important initiator of skin peeling. The inhibitor binds to trypsin proteases and since the catalytic core of HtrA1 (BBa_K4165004) is considered as a trypsin-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 Charachtarization

Modelling

                        Figure 1.: A graphical illustration showing the domains of TRIM21.

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 3: / Line 3: @@
 <partinfo>BBa_K4165082 short</partinfo>
-This basic part encodes Human serine protease inhibitor known as SPINK4 which is able to
+This basic part encodes Human serine protease inhibitor known as SPINK9 which is able to inhibit trypsin-like proteases, like HtrA1 (BBa_K4165004).
-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 and it is predicted to be located extracellularly. 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].
+This part encodes for a type of inhibitor that is able to inhibit serine proteases and it is predicted to be located extracellularly. The main function of the inhibitor is to specifically target kallikrein-related peptide 5 (KLK-5) which is an important initiator of skin peeling. The inhibitor binds to trypsin proteases and since the catalytic core of HtrA1 (BBa_K4165004) is considered as a trypsin-like catalytic domain, so this inhibitor also is considered to inhibit the function of HtrA1 [1] - [4].
 <!-- -->
-<span class='h3bb'>Sequence and Features</span>
+===<span class='h3bb'>Sequence and Features</span>===
 <partinfo>BBa_K4165082 SequenceAndFeatures</partinfo>
+===Dry-Lab Charachtarization===
-===Functional Parameters===
+<p style=" font-weight: bold; font-size:14px;"> Modelling </p>
-GC% Content
-.9%
-Isoelectric point (PI)
-.362
-Charge at pH 7
-.609
-Molecular Weight (Protein)
-.454 kDa
-Only a predicted model (AlphaFold).
+<html>
+<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/switches/1-alphafold.png" style="margin-left:200px;" alt="" width="500" /></p>
+</html>
-AlphaFold:
+                         Figure 1.: A graphical illustration showing the domains of TRIM21.
-https://alphafold.ebi.ac.uk/entry/O60575
-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_K4165082 parameters</partinfo>
 <!-- -->