Difference between revisions of "Part:BBa K4165093"

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This basic part encodes Histocompatibility minor serpin domain which is predicted to be able to inhibit HtrA1 (BBa_K4165004).
 
This basic part encodes Histocompatibility minor serpin domain which is predicted to be able to inhibit HtrA1 (BBa_K4165004).
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===Usage and Biology===
 
===Usage and Biology===
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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].
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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 a 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<sup>[1-3]</sup>.
  
  
 
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<span class='h3bb'>Sequence and Features</span>
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===<span class='h3bb'>Sequence and Features</span>===
 
<partinfo>BBa_K4165093 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4165093 SequenceAndFeatures</partinfo>
  
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===Functional Parameters===
  
  
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===Functional Parameters===
 
  
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GC Content%
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<html>
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60.9%
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<style>
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table, th, td {
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  border:1px solid black; margin-left:auto;margin-right:auto;
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}
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</style>
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<body>
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<table style="width:65%">
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<table>
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  <tr>
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    <th>GC Content%</th>
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    <th>Isoelectric point (PI)</th>
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    <th>Charge at pH 7</th>
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    <th>Molecular Weight (Protein)</th>
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  </tr>
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  <tr>
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    <td>60.9%</td>
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    <td>4.993</td>
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    <td>-2.188</td>
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    <td>15.535 kDa</td>
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  </tr>
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</table>
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</body>
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</html>
  
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Isoelectric point (PI)
 
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4.993
 
  
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Charge at pH 7
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===Modeling===
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-2.188
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Molecular Weight (Protein)
 
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15.535 kDa
 
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===PDB Structure===
 
 
The predicted structure (AlphaFold) is present.
 
The predicted structure (AlphaFold) is present.
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AlphaFold
 
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https://alphafold.ebi.ac.uk/entry/A8MTL9
 
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Q_Mean =
 
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Ramachandran Favoured =
 
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Ramachandran Outliers =
 
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Clash Score =
 
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C-beta Deviation =
 
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Rotamers outliers =
 
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Total Score =
 
  
  
  
 
<html>
 
<html>
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/14-alphafold.png" style="margin-left:200px;" alt="" width="500" /></p>
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/switches/14-alphafold.png" style="margin-left:200px;" alt="" width="500" /></p>
 
</html>
 
</html>
  
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                  Figure 1.: A graphical illustration showing the structure of theinhibitor.
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                          Figure 1.: A graphical illustration showing the structure of the inhibitor.
  
 
===References===
 
===References===
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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.
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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.<br>
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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.
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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.<br>
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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.
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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.<br>
  
  
 
<partinfo>BBa_K4165093 parameters</partinfo>
 
<partinfo>BBa_K4165093 parameters</partinfo>
 
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Latest revision as of 11:44, 13 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 a 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% Isoelectric point (PI) Charge at pH 7 Molecular Weight (Protein)
60.9% 4.993 -2.188 15.535 kDa


Modeling

The predicted structure (AlphaFold) is present. 


                         Figure 1.: A graphical illustration showing the structure of the inhibitor.

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.