Difference between revisions of "Team:Stockholm/Part Collection"

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             <h1 class="post-title">Parts: Part Collection</h1>
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             <h1 class="post-title">Part Collection</h1>
 
         </header>
 
         </header>
  
 
         <section class="post-content">
 
         <section class="post-content">
              
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             <p>The Sortase Package, is a generalized solution, designed to enable conjugation/immobilization of any protein of interest to a fusion partner with an exposed glycine residue. The Sortase A package consists of three key parts:</p>
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<blockquote>
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  <p><em>Sortase A BioBrick</em>: A Biobrick encoding for Sortase-A. </p>
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  <p><em>Linker-tag (LT) sequence</em>: A custom designed linker-tag sequence encoding for the Sortase A recognition Motif, LPETGG, and a Histidine tag for purification purposes (fig.1). </p>
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  <p><em>Protein primer design solution</em>: A Primer designed to anneal downstream the protein coding sequence with a BamHI overhang.</p>
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</blockquote>
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<h5 id="sortaseabiobrickbba_k2144008httppartsigemorgpartbba_k2144008">Sortase A BioBrick - <a href="http://parts.igem.org/Part:BBa_K2144008">BBa_K2144008</a></h5>
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<p>This Biobrick encodes for a truncated version of the transpeptidase Sortase A, fused with the Protein G B1 domain (GB1) acting as a solubility tag.</p>
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<h5 id="linkertagbba_k2144101httppartsigemorgpartbba_k2144101">Linker-Tag - <a href="http://parts.igem.org/Part:BBa_K2144101">BBa_K2144101</a></h5>
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<p>The linker-tag sequence has a BamHI restriction site upstream its sequence. Digesting the BamHI and standard suffix PstI site, enables a compatible ligation of the LT sequence with any protein of interest when used in combination with the <em>&#x201C;protein primer design solution&#x201D;</em> and the vector BackBone suffix PstI site. </p>
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<p></html>[[File:T--Stockholm--2016-10-Aman-sortase2-with-TEXT-5.png|link=]]<html>
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Figure 1. An illustration of the main features in the custom designed linker-tag sequence. </p>
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<h5 id="proteinprimerdesignsolution">Protein Primer Design Solution</h5>
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<p>Designing primers for use with our Vector containing the Linker-Tag Sequence (LT) for Sortase A might be easier with a few pointers:</p>
 +
 
 +
<ul>
 +
<li>The forward strand of your protein should be coding so that the C-terminus of your protein is fused to the linker-tags. Sortase A conjugates C-terminal LPXTG to N-terminal poly-G sequences. </li>
 +
<li>Make sure to avoid including the stop codons or terminators typically used at the C-terminal of coding constructs as they will interrupt translation of the LT downstream of your protein.</li>
 +
<li>The primers have to be carefully tested since some of them require the insertion of an extra base before the BamHI restriction site in order to avoid a frameshift between protein and LT.</li>
 +
<li>Include a few extra bases on the 5&#x2019; end &#x2013; BamHI does not digest efficiently at the very end of DNA molecules. </li>
 +
</ul>
 +
 
 +
<p>A primer we designed for our lysostaphin BioBrick can be observed Below.</p>
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<figure> 
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</html>[[File:T--Stockholm--2016-10-primer-design-1.png|link=]]<html>
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<figcaption>Figure 2: An example for a primer used in our SMITe project</figcaption> 
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</figure>
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 +
<p>By generalizing our Sortase package, we have designed a system in which future iGEM teams can easily utilize Sortase A to conjugate/immobilize any type of fusion partners of interest. </p>
 
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     </article>
 
     </article>
 
</main></div></html>{{Template:Stockholm/Footer}}
 
</main></div></html>{{Template:Stockholm/Footer}}

Revision as of 14:53, 18 October 2016

Part Collection

The Sortase Package, is a generalized solution, designed to enable conjugation/immobilization of any protein of interest to a fusion partner with an exposed glycine residue. The Sortase A package consists of three key parts:

Sortase A BioBrick: A Biobrick encoding for Sortase-A.

Linker-tag (LT) sequence: A custom designed linker-tag sequence encoding for the Sortase A recognition Motif, LPETGG, and a Histidine tag for purification purposes (fig.1).

Protein primer design solution: A Primer designed to anneal downstream the protein coding sequence with a BamHI overhang.

Sortase A BioBrick - BBa_K2144008

This Biobrick encodes for a truncated version of the transpeptidase Sortase A, fused with the Protein G B1 domain (GB1) acting as a solubility tag.

Linker-Tag - BBa_K2144101

The linker-tag sequence has a BamHI restriction site upstream its sequence. Digesting the BamHI and standard suffix PstI site, enables a compatible ligation of the LT sequence with any protein of interest when used in combination with the “protein primer design solution” and the vector BackBone suffix PstI site.

T--Stockholm--2016-10-Aman-sortase2-with-TEXT-5.png Figure 1. An illustration of the main features in the custom designed linker-tag sequence.

Protein Primer Design Solution

Designing primers for use with our Vector containing the Linker-Tag Sequence (LT) for Sortase A might be easier with a few pointers:

  • The forward strand of your protein should be coding so that the C-terminus of your protein is fused to the linker-tags. Sortase A conjugates C-terminal LPXTG to N-terminal poly-G sequences.
  • Make sure to avoid including the stop codons or terminators typically used at the C-terminal of coding constructs as they will interrupt translation of the LT downstream of your protein.
  • The primers have to be carefully tested since some of them require the insertion of an extra base before the BamHI restriction site in order to avoid a frameshift between protein and LT.
  • Include a few extra bases on the 5’ end – BamHI does not digest efficiently at the very end of DNA molecules.

A primer we designed for our lysostaphin BioBrick can be observed Below.

T--Stockholm--2016-10-primer-design-1.png
Figure 2: An example for a primer used in our SMITe project

By generalizing our Sortase package, we have designed a system in which future iGEM teams can easily utilize Sortase A to conjugate/immobilize any type of fusion partners of interest.


iGEM Stockholm is sponsored by
T--Stockholm--assets-Molnlycke.jpg
T--Stockholm--assets-KTH.jpg T--Stockholm--assets-KI-horisontal.png
T--Stockholm--assets-Spiber.png T--Stockholm--assets-GATC.jpg T--Stockholm--assets-QIAGEN.png T--Stockholm--assets-NEB.png T--Stockholm--images-2016-09-bio-techne Bio-T std spot--002-.jpg T--Stockholm--assets-Atlas.png T--Stockholm--assets-Merck.png T--Stockholm--assets-SnapGene.png T--Stockholm--assets-IDT.png