Difference between revisions of "Team:CCU Taiwan/Model"

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<body>
 
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             <div class="container">
 
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                 <ul class="front">
 
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Applied_Design"><li class="list" id="project2">Design</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/Applied_Design"><li class="list" id="project2">Design</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/Results"><li class="list" id="project3">Results</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/Results"><li class="list" id="project3">Results</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Demonstrate"><li class="list" id="project6">Demonstration</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Demonstrate"><li class="list" id="project4">Demonstration</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/InterLab "><li class="list" id="project5">InterLab</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/InterLab "><li class="list" id="project5">InterLab</li></a>
 
</ul>
 
</ul>
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                     <li class="title" style="cursor:pointer;" id="Parts"><img class="img_title" src="https://static.igem.org/mediawiki/2018/1/17/T--CCU_Taiwan--part.png"></img><a>Parts</a><hr>
 
                     <li class="title" style="cursor:pointer;" id="Parts"><img class="img_title" src="https://static.igem.org/mediawiki/2018/1/17/T--CCU_Taiwan--part.png"></img><a>Parts</a><hr>
 
                         <ul class="sub" id="sub_parts" style="cursor:default;">
 
                         <ul class="sub" id="sub_parts" style="cursor:default;">
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    <a href="https://2018.igem.org/Team:CCU_Taiwan/Parts"><li class="list" id="parts1">Overview</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Basic_Part"><li class="list" id="parts1">Basic Part</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Basic_Part"><li class="list" id="parts2">Basic Part</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Composite_Part"><li class="list" id="parts2">Composite Part</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Composite_Part"><li class="list" id="parts3">Composite Part</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Improve"><li class="list" id="parts3">Improved Part</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Improve"><li class="list" id="parts4">Improved Part</li></a>
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                         </ul>
 
                         </ul>
 
                     </li>
 
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                             <a href="https://2018.igem.org/Team:CCU_Taiwan/Model"><li class="list" id="model1">Overview</li></a>
 
                             <a href="https://2018.igem.org/Team:CCU_Taiwan/Model"><li class="list" id="model1">Overview</li></a>
 
                             <a href="https://2018.igem.org/Team:CCU_Taiwan/Binding"><li class="list" id="model2">Binding</li></a>
 
                             <a href="https://2018.igem.org/Team:CCU_Taiwan/Binding"><li class="list" id="model2">Binding</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Polymer"><li class="list" id="model4">Polymer</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Polymer"><li class="list" id="model3">Polymer</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Degradation"><li class="list" id="model3">Degradation</li></a>
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                         </ul>
 
                         </ul>
 
                     </li>
 
                     </li>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Public_Engagement"><li class="list" id="human_practice2">Public Engagement</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/Public_Engagement"><li class="list" id="human_practice2">Public Engagement</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/Entrepreneurship"><li class="list" id="human_practice3">Entrepreneurship</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/Entrepreneurship"><li class="list" id="human_practice3">Entrepreneurship</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Intergrate"><li class="list" id="human_practice4">Intergrated HP</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/engaging_experts"><li class="list" id="human_practice4">Engaging Experts</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Intergrate"><li class="list" id="human_practice5">Intergrated HP</li></a>
 
                         </ul>
 
                         </ul>
 
                     </li>
 
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                             <a href="https://2018.igem.org/Team:CCU_Taiwan/Notebook"><li class="list" id="notebook1">Overview</li></a>
 
                             <a href="https://2018.igem.org/Team:CCU_Taiwan/Notebook"><li class="list" id="notebook1">Overview</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/Collaborations"><li class="list" id="notebook2">Collaborations</li></a>
 
<a href="https://2018.igem.org/Team:CCU_Taiwan/Collaborations"><li class="list" id="notebook2">Collaborations</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Protocols"><li class="list" id="notebook2">Protocols</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Protocols"><li class="list" id="notebook3">Protocols</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Experiments"><li class="list" id="notebook3">Experiments</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Experiments"><li class="list" id="notebook4">Experiments</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Materials"><li class="list" id="notebook4">Materials</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Materials"><li class="list" id="notebook5">Materials</li></a>
 
                         </ul>
 
                         </ul>
 
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       <div class="content">
 
       <div class="content">
 
<p class="first">Modeling Overview</p>
 
<p class="first">Modeling Overview</p>
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<p class="description">&emsp;&emsp;In the future, there will be fewer and fewer petrochemical resources on the planet, and plastic waste will accumulate. When things change, what should we do? To solve the problem, we use Liggreen. We hope to establish a new production line of laminating coating through biological methods. First of all, we use natural enzyme to synthesize the material. Through the synthetic reaction of enzyme and monolignols, we make our Liggreen structure be close to natural vegetation. Then, we could create a biological coating which will not require petrochemicals and high energy consumption. Our modeling is mainly divided into three parts to prove our project – Enzyme production, Monomer polymerization, Molecular prediction.</p>
+
<p class="description">&emsp;&emsp;In the future, there will be fewer and fewer petrochemical resources on the planet, and plastic waste will accumulate. When things change, what should we do? To solve the problem, we use Liggreen. We hope to establish a new production line for laminating paper products using biological materials. First, we use natural enzymes to synthesize the material. Through the synthetic reaction of enzymes and monolignols, we ensure our Liggreen structure is similar to natural compounds. This allows us to create a biological laminate which will not require petrochemicals and high energy consumption. Our modeling is mainly divided into two parts to prove the feasibility of our project: binding model and polymer model.</p>
−
<p class="second">Enzyme production:</p>
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<p class="second">Binding model:</p>
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<p class="description">&emsp;&emsp;Transforming p.pastoris by synthetic biology. We want to make yeast produce the required enzymes – Lac1, Px16, Px18<br>Modeling: Proving the experiment by measuring the growth curve of p. pastoris and auto selection. Then using the different tag genes to design for western blot, proving the success of our overall enzyme production system.</p>
+
<p class="description">&emsp;&emsp;In our experiment, coniferyl alcohol would become resonance structure after create a free radical, and two specific resonance structures would form a dimer (β-5, β-O-4, β-β). It is changed into a dimer by the action of the enzyme and the addition of water.<br>
−
<p class="second">Monomer polymerization:</p>
+
<strong>Modeling:</strong> we decided to confirm the feasibility of the reaction through Gibbs free energy calculation. (Calculation method using Spartan 16, DFT B3LYP-D3/def2-SVP at 25 ° C)
−
<p class="description"> &emsp;&emsp;The three enzymes are added into the monolignols. And the monolignols will generate free radicals and bond to each other.<br>Modeling: We use Spartan to simulate the monolignol and the primary product, and then the free energy is obtained. The experiment was used to verify the spontaneity of the reaction.</p>
+
</p>
 +
<p class="second">Polymer model: </p>
 +
<p class="description"> &emsp;&emsp;We produce three enzymes,Px16,Px18 and Lac1 .Then, Liggreen will be produced by coniferyl alcohol and enzymes. Polymer model wants to estimate the polymerization between coniferyl alcohol and enzymes.<br>
 +
<strong>Modeling:</strong> We use Flory-Stockmayer theory to estimate the polymerization. Through the theory, we can control some conditions to do the oligomerization and let Liggreen be more biodegradation and chain-like.
 +
</p>
 
<p class="second">Molecular prediction: </p>
 
<p class="second">Molecular prediction: </p>
−
<p class="description">&emsp;&emsp;When the polymerization reaction is carried out to a certain extent, we would measure the physicochemical properties and carry out the modification. So that lignin can be better used in the coating industry.<br>Modeling: In this part, because we can't complete the all of polymerization reaction, we refer to paper for the estimation of molecular polymerization products. The estimation is mainly based on three parts – monomer, bond and product molecular weight. Since we mainly use the monolignol G for the reaction first, the structural estimation is mainly based on the Epoxy Resin.</p>
 
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Revision as of 11:09, 14 October 2018

Modeling Overview

  In the future, there will be fewer and fewer petrochemical resources on the planet, and plastic waste will accumulate. When things change, what should we do? To solve the problem, we use Liggreen. We hope to establish a new production line for laminating paper products using biological materials. First, we use natural enzymes to synthesize the material. Through the synthetic reaction of enzymes and monolignols, we ensure our Liggreen structure is similar to natural compounds. This allows us to create a biological laminate which will not require petrochemicals and high energy consumption. Our modeling is mainly divided into two parts to prove the feasibility of our project: binding model and polymer model.

Binding model:

  In our experiment, coniferyl alcohol would become resonance structure after create a free radical, and two specific resonance structures would form a dimer (β-5, β-O-4, β-β). It is changed into a dimer by the action of the enzyme and the addition of water.
Modeling: we decided to confirm the feasibility of the reaction through Gibbs free energy calculation. (Calculation method using Spartan 16, DFT B3LYP-D3/def2-SVP at 25 ° C)

Polymer model:

  We produce three enzymes,Px16,Px18 and Lac1 .Then, Liggreen will be produced by coniferyl alcohol and enzymes. Polymer model wants to estimate the polymerization between coniferyl alcohol and enzymes.
Modeling: We use Flory-Stockmayer theory to estimate the polymerization. Through the theory, we can control some conditions to do the oligomerization and let Liggreen be more biodegradation and chain-like.

Molecular prediction: