Difference between revisions of "Part:BBa K4165093"

 
Line 3: Line 3:
 
<partinfo>BBa_K4165093 short</partinfo>
 
<partinfo>BBa_K4165093 short</partinfo>
  
−
A serine protease inhibitor is used to inhibit the action of HTRA1
+
This basic part encodes Histocompatibility minor serpin domain which is predicted to be able to inhibit HtrA1 (BBa_K4165004).
  
  
  
−
<!-- Add more about the biology of this part here
 
 
===Usage and Biology===
 
===Usage and Biology===
 +
This gene encodes a protein with a serpin-domain that may act as a serine protease inhibitor. This gene is predominantly expressed in myeloid cells. A splice variant encoding a minor histocompatibility antigen may be expressed as a result of a polymorphism in this gene. This type of inhibitor is predicted to have high affinity for trypsin-like proteases (serine proteases), and in our case it would act as an inhibitor for the trypsin-like catalytic domain of serine protease HtrA1[1]-[3].
 +
  
 
<!-- -->
 
<!-- -->
Line 15: Line 16:
  
  
−
<!-- Uncomment this to enable Functional Parameter display
+
 
 
===Functional Parameters===
 
===Functional Parameters===
 +
 +
GC Content%
 +
60.9%
 +
 +
Isoelectric point (PI)
 +
4.993
 +
 +
Charge at pH 7
 +
-2.188
 +
 +
Molecular Weight (Protein)
 +
15.535 kDa
 +
 +
===PDB Structure===
 +
The predicted structure (AlphaFold) is present.
 +
 +
AlphaFold
 +
https://alphafold.ebi.ac.uk/entry/A8MTL9
 +
Q_Mean =
 +
Ramachandran Favoured =
 +
Ramachandran Outliers =
 +
Clash Score =
 +
C-beta Deviation =
 +
Rotamers outliers =
 +
Total Score =
 +
 +
===References===
 +
1. Clauss, A., Lilja, H., & Lundwall, Å. (2005). The evolution of a genetic locus encoding small serine proteinase inhibitors. Biochemical and biophysical research communications, 333(2), 383-389.
 +
2. 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.
 +
3. 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.
 +
 +
 
<partinfo>BBa_K4165093 parameters</partinfo>
 
<partinfo>BBa_K4165093 parameters</partinfo>
 
<!-- -->
 
<!-- -->

Revision as of 19:04, 5 October 2022


Histocompatibility minor serpin domain (HMSD).

This basic part encodes Histocompatibility minor serpin domain which is predicted to be able to inhibit HtrA1 (BBa_K4165004).


Usage and Biology

This gene encodes a protein with a serpin-domain that may act as a serine protease inhibitor. This gene is predominantly expressed in myeloid cells. A splice variant encoding a minor histocompatibility antigen may be expressed as a result of a polymorphism in this gene. This type of inhibitor is predicted to have high affinity for trypsin-like proteases (serine proteases), and in our case it would act as an inhibitor for the trypsin-like catalytic domain of serine protease HtrA1[1]-[3].


Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal PstI site found at 400
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal PstI site found at 400
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal PstI site found at 400
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal PstI site found at 400
  • 1000
    COMPATIBLE WITH RFC[1000]


Functional Parameters

GC Content% 60.9%

Isoelectric point (PI) 4.993

Charge at pH 7 -2.188

Molecular Weight (Protein) 15.535 kDa

PDB Structure

The predicted structure (AlphaFold) is present.

AlphaFold https://alphafold.ebi.ac.uk/entry/A8MTL9 Q_Mean = Ramachandran Favoured = Ramachandran Outliers = Clash Score = C-beta Deviation = Rotamers outliers = Total Score =

References

1. Clauss, A., Lilja, H., & Lundwall, Å. (2005). The evolution of a genetic locus encoding small serine proteinase inhibitors. Biochemical and biophysical research communications, 333(2), 383-389. 2. 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. 3. 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.