Difference between revisions of "Part:BBa K4165255"

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<partinfo>BBa_K4165255 short</partinfo>
 
<partinfo>BBa_K4165255 short</partinfo>
  
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Long description
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This part consists of the Cohesin 2 module (BBa_K4165003) connected to the tau binding peptide TD28REV (BBa_K4165006) through a flexible linker of GGGGS (BBa_K4165068) repeated 3 times and tagged with a GST tag (BBa_K4165070).
  
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<!-- Add more about the biology of this part here
 
 
===Usage and Biology===
 
===Usage and Biology===
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The part is considered an integral part of the snitch system in which it directs the Trim21 (E3) ligase to the tau protein in order to force the degradation of tau proteins which causes Alzheimer's Diseases via the proteasomal degradation oathway.
 +
  
 
<!-- -->
 
<!-- -->
 
<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K4165255 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4165255 SequenceAndFeatures</partinfo>
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===Dry-Lab Characterization===
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<p style=" font-weight: bold; font-size:14px;"> Modelling </p>
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<html>
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-inhibitors/dry-lab/1n.png" style="margin-left:200px;" alt="" width="500" /></p>
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</html>
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                                Figure 1. A 3D model showing the structure of GST-CoH2-Linker-TD28REV
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                                                                    (Model 3 - TRrosetta)
  
 
===WetLab Results===
 
===WetLab Results===
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/gst-coh-td28-rev.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/gst-coh-td28-rev.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
</html>
 
</html>
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                                 Figure 1. Transformed plate of GST COH (L) TD28 Rev + pGS-21a
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                                 Figure 2. Transformed plate of GST COH (L) TD28 Rev + pGS-21a
 
<p style=" font-weight: bold; font-size:14px;"> Transformation of GST COH (L) TD21 Rev in DH-5 alpha using pJET vector </p>
 
<p style=" font-weight: bold; font-size:14px;"> Transformation of GST COH (L) TD21 Rev in DH-5 alpha using pJET vector </p>
 
<html>
 
<html>
 
<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/gst-coh-td-28-rev-pjet.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/gst-coh-td-28-rev-pjet.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
</html>
 
</html>
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                                 Figure 2. Transformed plate of GST COH (L) TD28 Rev + pJET  
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                                 Figure 3. Transformed plate of GST COH (L) TD28 Rev + pJET  
 
<p style=" font-weight: bold; font-size:14px;"> Comparison between chemical lysis and sonication for GST COH TD28 Rev </p>
 
<p style=" font-weight: bold; font-size:14px;"> Comparison between chemical lysis and sonication for GST COH TD28 Rev </p>
 
<html>
 
<html>
 
<p><img src="https://static.igem.wiki/teams/4165/wiki/data-analysis/sonication-or-chemical/sonication-or-chemical/coh-td28rev.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
<p><img src="https://static.igem.wiki/teams/4165/wiki/data-analysis/sonication-or-chemical/sonication-or-chemical/coh-td28rev.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
</html>
 
</html>
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                       Figure 3. this graph shows a difference between chemical lysis and sonication for GST COH TD28  
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                       Figure 4. this graph shows a difference between chemical lysis and sonication for GST COH TD28  
 
                         Rev, after we had the results we optimized our protocol to use chemical lysis for GST COH (L)  
 
                         Rev, after we had the results we optimized our protocol to use chemical lysis for GST COH (L)  
 
                         TD28 Rev
 
                         TD28 Rev
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/sds-of-gst-td28rev-and-www.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/sds-of-gst-td28rev-and-www.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
</html>
 
</html>
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                       Figure 4. This figure shows the comparison between the induced and non induced samples of GST COH  
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                       Figure 5. This figure shows the comparison between the induced and non induced samples of GST COH  
 
                       TD28Rev, where well no.2 is the induced sample of GST COH TD28 Rev while well no.6 is the non induced  
 
                       TD28Rev, where well no.2 is the induced sample of GST COH TD28 Rev while well no.6 is the non induced  
 
                       sample of GST COH TD28Rev showing that our protein is induced effectively owing to our right choice of  
 
                       sample of GST COH TD28Rev showing that our protein is induced effectively owing to our right choice of  
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/pull-down-trim-doc-vs-www-and-td28rev.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/pull-down-trim-doc-vs-www-and-td28rev.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
</html>
 
</html>
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                       Figure 5. This graph shows the comparison of pull down assay between His Trim21 (L) DOC with GST COH  
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                       Figure 6. This graph shows the comparison of pull down assay between His Trim21 (L) DOC with GST COH  
 
                       WWW and GST COH TD28Rev showing that the interaction between His Trim21 (L) DOC and GST COH WWW is  
 
                       WWW and GST COH TD28Rev showing that the interaction between His Trim21 (L) DOC and GST COH WWW is  
 
                       better than that of His Trim21 (L) DOC with GAT COH TD28Rev as the concentration of elution of His  
 
                       better than that of His Trim21 (L) DOC with GAT COH TD28Rev as the concentration of elution of His  
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/pull-down-of-tau-against-www-and-td28rev.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/wetlab-results/pull-down-of-tau-against-www-and-td28rev.jpg" style="margin-left:200px;" alt="" width="500" /></p>
 
</html>
 
</html>
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                     Figure 6. This graph shows the comparison of pull down assay between Tau aggregates with GST COH WWW and  
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                     Figure 7. This graph shows the comparison of pull down assay between Tau aggregates with GST COH WWW and  
 
                       Tau aggregates with GST COH TD28Rev, showing that the interaction between Tau aggregates with GST COH  
 
                       Tau aggregates with GST COH TD28Rev, showing that the interaction between Tau aggregates with GST COH  
 
                       WWW is better than that of Tau aggregates with GST COH TD28rev as the concentration of elution of Tau  
 
                       WWW is better than that of Tau aggregates with GST COH TD28rev as the concentration of elution of Tau  

Revision as of 11:04, 12 October 2022


GST-Coh2-G4S- TD28REV

This part consists of the Cohesin 2 module (BBa_K4165003) connected to the tau binding peptide TD28REV (BBa_K4165006) through a flexible linker of GGGGS (BBa_K4165068) repeated 3 times and tagged with a GST tag (BBa_K4165070).

Usage and Biology

The part is considered an integral part of the snitch system in which it directs the Trim21 (E3) ligase to the tau protein in order to force the degradation of tau proteins which causes Alzheimer's Diseases via the proteasomal degradation oathway.


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
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 689
    Illegal SapI.rc site found at 85

Dry-Lab Characterization

Modelling 

                                Figure 1. A 3D model showing the structure of GST-CoH2-Linker-TD28REV

                                                                    (Model 3 - TRrosetta)

WetLab Results

Transformation of GST COH (L) TD28 Rev in BL-21 using pGS-21a vector 

                                Figure 2. Transformed plate of GST COH (L) TD28 Rev + pGS-21a

Transformation of GST COH (L) TD21 Rev in DH-5 alpha using pJET vector 

                               Figure 3. Transformed plate of GST COH (L) TD28 Rev + pJET

Comparison between chemical lysis and sonication for GST COH TD28 Rev 

                      Figure 4. this graph shows a difference between chemical lysis and sonication for GST COH TD28 
                       Rev, after we had the results we optimized our protocol to use chemical lysis for GST COH (L) 
                       TD28 Rev

SDS PAGE of induced and non induced samples of GST COH TD28 Rev 

                     Figure 5. This figure shows the comparison between the induced and non induced samples of GST COH 
                      TD28Rev, where well no.2 is the induced sample of GST COH TD28 Rev while well no.6 is the non induced 
                      sample of GST COH TD28Rev showing that our protein is induced effectively owing to our right choice of 
                      IPTG, time interval and concentration

Pull down assay His Trim (L) DOC against GST COH WWW and GST COH TD28Rev 

                     Figure 6. This graph shows the comparison of pull down assay between His Trim21 (L) DOC with GST COH 
                      WWW and GST COH TD28Rev showing that the interaction between His Trim21 (L) DOC and GST COH WWW is 
                      better than that of His Trim21 (L) DOC with GAT COH TD28Rev as the concentration of elution of His 
                      Trim21 (L) DOC with GST COH WWW is more than that of His trim21 (L) DOC with GST COH TD28Rev

Pull down assay of Tau aggregates against GST COH WWW and GST COH TD28Rev 

                    Figure 7. This graph shows the comparison of pull down assay between Tau aggregates with GST COH WWW and 
                     Tau aggregates with GST COH TD28Rev, showing that the interaction between Tau aggregates with GST COH 
                     WWW is better than that of Tau aggregates with GST COH TD28rev as the concentration of elution of Tau 
                     aggregates with GST COH WWW is more than that of Tau aggregates with GST COH TD28Rev, illustrating that 
                     WWW could be a better candidate for binding to the Tau aggregates