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

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<h1>Parts</h1>
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<p>Each team will make new parts during iGEM and will submit them to the Registry of Standard Biological Parts. The iGEM software provides an easy way to present the parts your team has created. The <code>&lt;groupparts&gt;</code> tag (see below) will generate a table with all of the parts that your team adds to your team sandbox.</p>
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$(document).ready(function(){
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<p>Remember that the goal of proper part documentation is to describe and define a part, so that it can be used without needing to refer to the primary literature. Registry users in future years should be able to read your documentation and be able to use the part successfully. Also, you should provide proper references to acknowledge previous authors and to provide for users who wish to know more.</p>
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<h3>Note</h3>
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<p>Note that parts must be documented on the <a href="http://parts.igem.org/Main_Page"> Registry</a>. This page serves to <i>showcase</i> the parts you have made. Future teams and other users and are much more likely to find parts by looking in the Registry than by looking at your team wiki.</p>
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<body>
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<div class="highlight decoration_B_full">
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  <header>
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        <nav>
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            <div class="container">
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                <ul class="front">
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                    <div id="home_button" style="cursor:pointer;"  onclick="location.href=
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'https://2018.igem.org/Team:CCU_Taiwan';"> <img src="https://static.igem.org/mediawiki/2018/0/08/T--CCU_Taiwan--home_button.png"></img></div>
  
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<h3>Adding parts to the registry</h3>
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                    <li class="title" style="cursor:pointer;" id="Home"><img class="img_title" src="https://static.igem.org/mediawiki/2018/2/24/T--CCU_Taiwan--aboutus.png"></img><a>About Us</a>
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<p>You can add parts to the Registry at our <a href="http://parts.igem.org/Add_a_Part_to_the_Registry">Add a Part to the Registry</a> link.</p>
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                        <ul class="sub" id="sub_home" style="cursor:default;">
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                            <a href="https://2018.igem.org/Team:CCU_Taiwan/Team"><li class="list" id="home1">Team</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Attributions"><li class="list" id="home2">Attributions</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Medal"><li class="list" id="home3">Medals</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Judge"><li class="list" id="home4">For Judges</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Achievements"><li class="list" id="home5">Achievements</li></a>
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                        </ul>
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                    </li>
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                    <li class="title" style="cursor:pointer;" id="Project"><img class="img_title" src="https://static.igem.org/mediawiki/2018/6/6f/T--CCU_Taiwan--project.png"></img><a>Project</a>
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<ul class="sub" id="sub_project" style="cursor:default;">
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    <a href="https://2018.igem.org/Team:CCU_Taiwan/Description"><li class="list" id="project1">Description</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Applied_Design"><li class="list" id="project2">Design</li></a>
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<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="project4">Demonstration</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/InterLab"><li class="list" id="project5">InterLab</li></a>
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</ul>
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</li>
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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>
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                        <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/Composite_Part"><li class="list" id="parts2">Composite Part</li></a>
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                        </ul>
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                    </li>
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                    <li class="title" style="cursor:pointer;" id="Modeling"><img class="img_title" src="https://static.igem.org/mediawiki/2018/0/09/T--CCU_Taiwan--model.png"></img><a>Modeling</a>
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                        <ul class="sub" id="sub_modeling" style="cursor:default;">
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                            <a href="https://2018.igem.org/Team:CCU_Taiwan/Model"><li class="list" id="model1">Overview</li></a>
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                            <a href="https://2018.igem.org/Team:CCU_Taiwan/Binding"><li class="list" id="model2">Binding Model</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Polymer"><li class="list" id="model3">Polymer Model</li></a>
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                        </ul>
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                    </li>
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                    <li class="title" style="cursor:pointer;" id="Drylab"><img class="img_title" src="https://static.igem.org/mediawiki/2018/f/fc/T--CCU_Taiwan--Dry_lab.png"></img><a>Product</a>
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                        <ul class="sub" id="sub_drylab" style="cursor:default;">
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                            <a href="https://2018.igem.org/Team:CCU_Taiwan/Our_Plan"><li class="list" id="drylab1">Analysis</li></a>
 +
<a href="https://2018.igem.org/Team:CCU_Taiwan/Engineering"><li class="list" id="drylab2">Production Line</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Safety"><li class="list" id="drylab3">Safety</li></a>
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                        </ul>
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                    </li>
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    <li class="title" style="cursor:pointer;" id="Human_Practice"><img class="img_title" src="https://static.igem.org/mediawiki/2018/9/96/T--CCU_Taiwan--humanpractice.png"></img><a>HP</a>
 +
                        <ul class="sub" id="sub_human_practice" style="cursor:default;">
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                            <a href="https://2018.igem.org/Team:CCU_Taiwan/Human_Practices"><li class="list" id="human_practice1">Human Practice</li></a>
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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/Entrepreneurship"><li class="list" id="human_practice3">Entrepreneurship</li></a>
 +
<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/Integrate"><li class="list" id="human_practice5">Integrated HP</li></a>
 +
                        </ul>
 +
                    </li>
 +
    <li class="title" style="cursor:pointer;" id="Notebook"><img class="img_title" src="https://static.igem.org/mediawiki/2018/c/c9/T--CCU_Taiwan--notebook.png"></img><a>Notebook</a>
 +
                        <ul class="sub" id="sub_notebook" style="cursor:default;">
 +
                            <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/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="notebook4">Experiments</li></a>
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<a href="https://2018.igem.org/Team:CCU_Taiwan/Materials"><li class="list" id="notebook5">Materials</li></a>
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                        </ul>
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                    </li>
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                </ul>
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            </div>
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        </nav>
  
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<p>We encourage teams to start completing documentation for their parts on the Registry as soon as you have it available. The sooner you put up your parts, the better you will remember all the details about your parts. Remember, you don't need to send us the DNA sample before you create an entry for a part on the Registry. (However, you <b>do</b> need to send us the DNA sample before the Jamboree. If you don't send us a DNA sample of a part, that part will not be eligible for awards and medal criteria.)</p>
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    </header>
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<div class="button_link">
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<div class="indicator">
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<a href="http://parts.igem.org/Add_a_Part_to_the_Registry">
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ADD PARTS
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</a>
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</div>
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</div>
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<div class="pointerProject" id="2"><a href="#ca1">Background</a></div>
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</div>
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<div class="pointerProject" id="3"><a href="#ca2">Basic Parts</a></div>
 +
<div class="pointerProject" id="4"><a href="#ca3">Composite Parts</a></div>
  
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</div>
  
  
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<div class="column third_size">
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<body>
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<div class="highlight decoration_A_full">
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<h3>Inspiration</h3>
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<p>We have a created  a <a href="http://parts.igem.org/Well_Documented_Parts">collection of well documented parts</a> that can help you get started.</p>
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<p> You can also take a look at how other teams have documented their parts in their wiki:</p>
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<div class="backgroundParts">
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<ul>
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<li><a href="https://2014.igem.org/Team:MIT/Parts"> 2014 MIT </a></li>
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<li><a href="https://2014.igem.org/Team:Heidelberg/Parts"> 2014 Heidelberg</a></li>
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<li><a href="https://2014.igem.org/Team:Tokyo_Tech/Parts">2014 Tokyo Tech</a></li>
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</ul>
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</div>
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</div>
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  <div class="photoParts"><h1 class="bigtitle">PARTS OVERVIEW<h1></div>
  
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<br>
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            <p class="first" id="ca1">Background</p> 
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                <p class="description">&emsp;&emsp; “LIGGREEN” is composed of monolignols. We have produced three enzymes to catalyze the polymerization. Laccase 1 from Pinus taeda can catalyze the dehydrogenation of monolignols , which leads to free radical addition of dehydrogenated monolignols. However, after the monolignols become dimers or oligomers, it will be hard for them to bind onto the active site of laccase 1 and stop the dehydrogenation reaction of monolignols.
 +
In this case, we choose the others enzymes-peroxidase 16 and peroxidase 18. Those are isoenzymes from Picea abies, have the ability to bind onto oligomers and directly catalyze polymerization.<br><br>
 +
&emsp;&emsp;All the enzymes above can function in the same pH value and buffer, which  is critical to our design for co-reaction in production line.
  
 +
</p><br>
  
 +
<div class="parttable">
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            <p class="first" id="ca2">Basic Parts</p> 
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<table class="table" border="1.5" style="width:60vw;">
 +
  <tr style="background:#92cd7e">
 +
    <th>Part Name</th>
 +
    <th>Part type</th>
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    <th>Description</th>
 +
    <th>Lenght</th>
 +
  </tr>
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  <tr>
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    <td><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2809001">BBa_K2809001</a></td>
 +
    <td>Ribosome binding site</td>
 +
    <td>Kozak sequence (<I>Pichia pastoris</I>)</td>
 +
    <td>7</td>
 +
  </tr>
 +
  <tr>
 +
    <td><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2809002">BBa_K2809002</a></td>
 +
    <td>Tag</td>
 +
    <td>Prepro-alpha-factor (codon modified for <I>Pichia pastoris</I>)</td>
 +
    <td>267</td>
 +
  </tr>
 +
    <tr>
 +
    <td><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2809010">BBa_K2809010</a></td>
 +
    <td>Protein_Domain</td>
 +
    <td>Mature Lac 1(laccase)</td>
 +
    <td>1719</td>
 +
  </tr>
 +
    <tr>
 +
    <td><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2809020">BBa_K2809020</a></td>
 +
    <td>Protein_Domain</td>
 +
    <td>Mature Px18(peroxidase)</td>
 +
    <td>954</td>
 +
  </tr>
 +
    <tr>
 +
    <td><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2809030">BBa_K2809030</a></td>
 +
    <td>Protein_Domain</td>
 +
    <td>Mature Px16(peroxidase)</td>
 +
    <td>972</td>
 +
  </tr>
 +
</table>
  
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            <p class="first" id="ca3">Composite Parts</p>
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<div class="column full_size">
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<table class="table" border="1.5" style="width:60vw;">
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  <tr style="background:#92cd7e;">
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<h3>What information do I need to start putting my parts on the Registry?</h3>
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    <th>Part Name</th>
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<p>The information needed to initially create a part on the Registry is:</p>
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    <th>Part type</th>
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<ul>
+
    <th>Description</th>
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<li>Part Name</li>
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    <th>Lenght</th>
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<li>Part type</li>
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  </tr>
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<li>Creator</li>
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  <tr>
−
<li>Sequence</li>
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    <td><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2809011">BBa_K2809011</a></td>
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<li>Short Description (60 characters on what the DNA does)</li>
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    <td rowspan="3" style="align:center;vertical-align: middle;">Composite</td>
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<li>Long Description (Longer description of what the DNA does)</li>
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    <td>Laccase 1</td>
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<li>Design considerations</li>
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    <td>1993</td>
−
</ul>
+
  </tr>
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+
  <tr>
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<p>
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    <td><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2809021">BBa_K2809021</a></td>
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We encourage you to put up <em>much more</em> information as you gather it over the summer. If you have images, plots, characterization data and other information, please also put it up on the part page. </p>
+
    <td>Peroxidase 18</td>
−
 
+
    <td>1228</td>
 +
  </tr>
 +
  <tr>
 +
    <td><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2809031">BBa_K2809031</a></td>
 +
    <td>Peroxidase 16</td>
 +
    <td>1246</td>
 +
  </tr>
 +
</table><br><br><br>
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<h3>Part Table </h3>
 
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<p>Please include a table of all the parts your team has made during your project on this page. Remember part characterization and measurement data must go on your team part pages on the Registry. </p>
 
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</html>
 
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<groupparts>iGEM18 CCU_Taiwan</groupparts>
 
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<footer class="footer">
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              <img  id="BSlogo" src="https://static.igem.org/mediawiki/2018/0/07/T--CCU_Taiwan--CCUP1.png" align="bottom">
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Latest revision as of 08:47, 1 December 2018

PARTS OVERVIEW


Background

   “LIGGREEN” is composed of monolignols. We have produced three enzymes to catalyze the polymerization. Laccase 1 from Pinus taeda can catalyze the dehydrogenation of monolignols , which leads to free radical addition of dehydrogenated monolignols. However, after the monolignols become dimers or oligomers, it will be hard for them to bind onto the active site of laccase 1 and stop the dehydrogenation reaction of monolignols. In this case, we choose the others enzymes-peroxidase 16 and peroxidase 18. Those are isoenzymes from Picea abies, have the ability to bind onto oligomers and directly catalyze polymerization.

  All the enzymes above can function in the same pH value and buffer, which is critical to our design for co-reaction in production line.


Basic Parts

Part Name Part type Description Lenght
BBa_K2809001 Ribosome binding site Kozak sequence (Pichia pastoris) 7
BBa_K2809002 Tag Prepro-alpha-factor (codon modified for Pichia pastoris) 267
BBa_K2809010 Protein_Domain Mature Lac 1(laccase) 1719
BBa_K2809020 Protein_Domain Mature Px18(peroxidase) 954
BBa_K2809030 Protein_Domain Mature Px16(peroxidase) 972

Composite Parts

Part Name Part type Description Lenght
BBa_K2809011 Composite Laccase 1 1993
BBa_K2809021 Peroxidase 18 1228
BBa_K2809031 Peroxidase 16 1246