Difference between revisions of "Part:BBa K4165200"
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the sequence was optimized for <i>E.coli</i> expression  
 
the sequence was optimized for <i>E.coli</i> expression  
 
<partinfo>BBa_K4165200 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4165200 SequenceAndFeatures</partinfo>
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===Dry Lab===
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<p style=" font-weight: bold; font-size:14px;"> Modeling </p>
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MM2 is modeled by AlphaFold2, ITASSER and TrRosetta, best model obtained from TrRosetta.
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/switches/trim-g4s3-coh.png" style="margin-left:150px;" alt="" width="500" /></p>
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</html>
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                            Figure 1.: Predicted 3D structure of our fusion protein tTrim21-(G<sub>4</sub>S)<sub>3</sub>-Coh2.
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<p style=" font-weight: bold; font-size:13px;"> Table 1: Quality assessment parameters of MM2 model. </p>
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<html>
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<p><img src="https://static.igem.wiki/teams/4165/wiki/parts-registry/switches/trim-g4s3-cohqa.png" style="margin-left:75px;" alt="" width="700"
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/></p>
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===References===
 
===References===

Revision as of 19:25, 11 October 2022


Trim21-(GGGGS)3-Coh2

This parts code for the trim21 E3 ligase having his PRYSPRY domain truncated (BBa_K3396007), fused to type 1 Cohesin module derived from Clostridium thermocellum cellulosome scaffoldin using Glycine serine flexible linker repeated three times to maintain part flexibility needed during target ubiquitination

Source

Synthetic Fusion protein

Sequence and Features

the sequence was optimized for E.coli expression


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 225
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 182
  • 1000
    COMPATIBLE WITH RFC[1000]

Dry Lab

Modeling

MM2 is modeled by AlphaFold2, ITASSER and TrRosetta, best model obtained from TrRosetta. 


                            Figure 1.: Predicted 3D structure of our fusion protein tTrim21-(G4S)3-Coh2.


Table 1: Quality assessment parameters of MM2 model.


References

1- Carvalho AL, Dias FM, Nagy T, Prates JA, Proctor MR, Smith N, Bayer EA, Davies GJ, Ferreira LM, Romão MJ, Fontes CM, Gilbert HJ. Evidence for a dual binding mode of dockerin modules to cohesins. Proc Natl Acad Sci U S A. 2007 Feb 27;104(9):3089-94. doi: 10.1073/pnas.0611173104. Epub 2007 Feb 20. PMID: 17360613; PMCID: PMC1805526.