Difference between revisions of "Team:Aalto-Helsinki/Results"
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<li><p>Improved our experimental plans according to the modeling results by changing one enzyme to a better homolog and expressing the rate-limiting enzyme from the highest copy number backbone used</p></li> | <li><p>Improved our experimental plans according to the modeling results by changing one enzyme to a better homolog and expressing the rate-limiting enzyme from the highest copy number backbone used</p></li> | ||
<li><p>Found that propane output was sensitive to NADPH/NADH, suggesting their efficient regeneration might be a limiting factor</p></li> | <li><p>Found that propane output was sensitive to NADPH/NADH, suggesting their efficient regeneration might be a limiting factor</p></li> | ||
− | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Parts">Submitted a BioBrick</a> containing three crucial enzymes of the propane pathway</p></li> | + | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Parts#propane_1">Submitted a BioBrick</a> containing three crucial enzymes of the propane pathway</p></li> |
<li><p>Successfully assembled an insert containing the rest of the pathways components, BUT WERE UNABLE TO… [how do I express this? Petra, Anna?]</p></li> | <li><p>Successfully assembled an insert containing the rest of the pathways components, BUT WERE UNABLE TO… [how do I express this? Petra, Anna?]</p></li> | ||
</ul> | </ul> | ||
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<h3>Background</h3> | <h3>Background</h3> | ||
− | <p>Amphiphilic proteins are synthetic proteins consisting of a hydrophilic and a hydrophobic domain that have been shown to spontaneously form micellar and vesicular structures. We were interested whether these structures could be used as scaffolds to have subsequent enzymes of the propane pathway in close proximity. | + | <p>Amphiphilic proteins are synthetic proteins consisting of a hydrophilic and a hydrophobic domain that have been shown to spontaneously form micellar and vesicular structures. We were interested whether these structures could be used as scaffolds to have subsequent enzymes of the propane pathway in close proximity. We wanted to model whether fusing enzymes to the proteins would disrupt micelle formation and whether our idea could enhance propane output.</p> |
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<ul style="list-style-type:disc"> | <ul style="list-style-type:disc"> | ||
− | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Modeling_synergy">Built a stochastic synergy model</a> in Python, simulating enzyme function in cases where two subsequent enzymes stay in close proximity to each other as opposed to moving around | + | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Modeling_synergy">Built a stochastic synergy model</a> in Python, simulating enzyme function in cases where two subsequent enzymes stay in close proximity to each other as opposed to moving around independently in a cell</p></li> |
<li><p>The synergy model predicts a 200-400 % increase in product output if enzymes stay in close proximity to each other</p></li> | <li><p>The synergy model predicts a 200-400 % increase in product output if enzymes stay in close proximity to each other</p></li> | ||
<li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Modeling_micelle">Constructed a geometrical micelle model</a> based on the sizes and structures of the micelle-forming proteins, indicating that it is indeed possible for micellar structures to form even as enzymes are fused to them</p></li> | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Modeling_micelle">Constructed a geometrical micelle model</a> based on the sizes and structures of the micelle-forming proteins, indicating that it is indeed possible for micellar structures to form even as enzymes are fused to them</p></li> | ||
− | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Parts">Submitted a BioBrick</a> encoding the amphiphilic protein to the registry</p></li> | + | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Parts#amphiphilic">Submitted a BioBrick</a> encoding the amphiphilic protein to the registry</p></li> |
<li><p>Due to time restraints, we were unable to experimentally validate the idea by fusing either two subsequent enzymes of the propane pathway or components of the violacein pathway to the amphiphilic proteins</p></li> | <li><p>Due to time restraints, we were unable to experimentally validate the idea by fusing either two subsequent enzymes of the propane pathway or components of the violacein pathway to the amphiphilic proteins</p></li> | ||
</ul> | </ul> | ||
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<h3>Outcome</h3> | <h3>Outcome</h3> | ||
<ul style="list-style-type:disc"> | <ul style="list-style-type:disc"> | ||
− | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Parts">Submitted a BioBrick</a> encoding GFP with an extra nucleotide prior to the suffix, ensuring that it can be fused to the N-terminal end of a protein using BioBrick assembly methods while maintaining the reading frame</p></li> | + | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Parts#gfp">Submitted a BioBrick</a> encoding GFP with an extra nucleotide prior to the suffix, ensuring that it can be fused to the N-terminal end of a protein using BioBrick assembly methods while maintaining the reading frame</p></li> |
<li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Collaborations">Collaborated</a> with team HS Slovenia to validate the brick</p></li> | <li><p><a href="https://2015.igem.org/Team:Aalto-Helsinki/Collaborations">Collaborated</a> with team HS Slovenia to validate the brick</p></li> | ||
</ul> | </ul> |
Revision as of 16:36, 16 September 2015