Difference between revisions of "Part:BBa K1850005:Design"

 
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<partinfo>BBa_K1850005 short</partinfo>
 
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===Design Notes===
 
===Design Notes===
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We selected a rhamnose-inducible promoter  (<partinfo>BBa_K902065</partinfo>)  with a strong ribosome binding site (<partinfo>BBa_B0034</partinfo>), since this promoter is titratable and would allow for controlled expression of the ''fimH'' adhesin.
  
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We edited out an illegal PstI cut site in ''fimH'' through site-directed mutagenesis.
  
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The SpyTag binding motif was inserted into the fusion site of ''fimH'' via site-directed mutagenesis.
  
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===Source===
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The stainless steel binding Metal Binding Domain (MBD) was inserted into fusion sites of ''fimH'' via site-directed mutagenesis.
  
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We picked sites 225 and 258 since there was strong evidence in the literature that small fusions inserted at these sites such as his-tags were expressed and functional on assembled pili.
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===Source===
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The ''fimH'' gene was amplified from the ''E. coli'' K-12 genome.
  
 
===References===
 
===References===
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Zakeri, Bijan, Jacob O. Fierer, Emrah Celik, Emily C. Chittock, Ulrich Schwarz-Linek, Vincent T. Moy, and Mark Howarth. "Peptide Tag Forming a Rapid Covalent Bond to a Protein, through Engineering a Bacterial Adhesin." <i>Proceedings of the National Academy of the United States of America</i> 109.12 (2012): E690-697. <i>PNAS</i>. National Academy of the Sciences. Web. 18 Sept. 2015.
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Nguyen, P. Q. <i>et al.</i> Programmable biofilm-based materials from engineered curli nanofibres. <i>Nat. Commun.</i> 5:4945 doi: 10.1038/ncomms5945 (2014).
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Pallesen, Lars, Lars K. Poulsen, Gunna Christiansen, and Per Klemm. "Chimeric FimH Adhesin of Type 1 Fimbriae: A Bacterial Surface Display System for Heterologous Sequences." <i>Microbiology</i> 141 (1995): 2839-848. SGM Journals. <i>Society for General Microbiology</i>, 01 Nov. 1995. Web. 18 Sept. 2015.
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Bhomkar, Prasanna, Wayne Materi, Valentyna Semenchenko, and David S. Wishart. "Transcriptional Response Of <i>E. Coli</i> Upon FimH-mediated Fimbrial Adhesion." <i>Gene Regulation and Systems Biology</i> 4 (2010): 1-17. <i>NCBI</i>. Libertas Academica, 24 Mar. 2010. Web. 18 Sept. 2015.

Latest revision as of 21:47, 18 September 2015

pRha - fimH - SpyTag_225 - MBD_258


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal PstI site found at 1184
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal PstI site found at 1184
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal PstI site found at 1184
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal PstI site found at 1184
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

We selected a rhamnose-inducible promoter (BBa_K902065) with a strong ribosome binding site (BBa_B0034), since this promoter is titratable and would allow for controlled expression of the fimH adhesin.

We edited out an illegal PstI cut site in fimH through site-directed mutagenesis.

The SpyTag binding motif was inserted into the fusion site of fimH via site-directed mutagenesis.

The stainless steel binding Metal Binding Domain (MBD) was inserted into fusion sites of fimH via site-directed mutagenesis.

We picked sites 225 and 258 since there was strong evidence in the literature that small fusions inserted at these sites such as his-tags were expressed and functional on assembled pili.

Source

The fimH gene was amplified from the E. coli K-12 genome.

References

Zakeri, Bijan, Jacob O. Fierer, Emrah Celik, Emily C. Chittock, Ulrich Schwarz-Linek, Vincent T. Moy, and Mark Howarth. "Peptide Tag Forming a Rapid Covalent Bond to a Protein, through Engineering a Bacterial Adhesin." Proceedings of the National Academy of the United States of America 109.12 (2012): E690-697. PNAS. National Academy of the Sciences. Web. 18 Sept. 2015.

Nguyen, P. Q. et al. Programmable biofilm-based materials from engineered curli nanofibres. Nat. Commun. 5:4945 doi: 10.1038/ncomms5945 (2014).

Pallesen, Lars, Lars K. Poulsen, Gunna Christiansen, and Per Klemm. "Chimeric FimH Adhesin of Type 1 Fimbriae: A Bacterial Surface Display System for Heterologous Sequences." Microbiology 141 (1995): 2839-848. SGM Journals. Society for General Microbiology, 01 Nov. 1995. Web. 18 Sept. 2015.

Bhomkar, Prasanna, Wayne Materi, Valentyna Semenchenko, and David S. Wishart. "Transcriptional Response Of E. Coli Upon FimH-mediated Fimbrial Adhesion." Gene Regulation and Systems Biology 4 (2010): 1-17. NCBI. Libertas Academica, 24 Mar. 2010. Web. 18 Sept. 2015.