Difference between revisions of "Team:ETH Zurich/Parts"

(Fix wrong table tags; fix bad HTML; delete some boilerplate;tidy.)
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<main>
 
<main>
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<h1 class="headline">Parts</h1>
 
<h1 class="headline">Parts</h1>
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<figure class="biobrick">
 
<figure class="biobrick">
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     <img src="https://static.igem.org/mediawiki/2017/7/7e/T--ETH_Zurich--basicparts.png">
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     <img src="https://static.igem.org/mediawiki/2017/7/7e/T--ETH_Zurich--basicparts.png" alt="FIXME">
 
</figure>
 
</figure>
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<section class="overview">
 
<section class="overview">
−
<h1> Overview </h1>
+
    <h1> Overview </h1>
 
     <p>We submitted in total 14 new BioBricks to the iGEM registry! You can find all parts and their design below.</p>
 
     <p>We submitted in total 14 new BioBricks to the iGEM registry! You can find all parts and their design below.</p>
 
</section>
 
</section>
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−
 
  
 
<section>
 
<section>
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     <table width="100%">
 
     <table width="100%">
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  <tr>
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        <tr>
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    <!--<th>Design</th>-->
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            <!--<th>Design</th>-->
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    <th>Part</th>
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            <th>Part</th>
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    <th>Description</th>
+
            <th>Description</th>
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    <th>BioBrick</th>
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            <th>BioBrick</th>
−
  </tr>
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        </tr>
−
  <tr>
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        <tr>
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    <!--<td>Image</td>-->
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            <!--<td>Image</td>-->
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    <td>Bacterioferritin</td>
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            <td>Bacterioferritin</td>
−
    <td>Heme-deletion mutant of bacterial iron storage protein functioning as MRI contrast agent</td>
+
            <td>Heme-deletion mutant of bacterial iron storage protein functioning as MRI contrast agent</td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500000">BBa_K2500000</a></td>
+
            <td><a href="http://parts.igem.org/Part:BBa_K2500000">BBa_K2500000</a></td>
−
  </tr>
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        </tr>
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  <tr>
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        <tr>
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    <!--<td>Image</td>-->
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            <!--<td>Image</td>-->
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    <td>Azurin</td>
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            <td>Azurin</td>
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    <td>Mature cytotoxic copper protein</td>
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            <td>Mature cytotoxic copper protein</td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500001">BBa_K2500001</a></td>
+
            <td><a href="http://parts.igem.org/Part:BBa_K2500001">BBa_K2500001</a></td>
−
  </tr>
+
        </tr>
−
  <tr>
+
        <tr>
−
    <!--<td>Image</td>-->
+
            <!--<td>Image</td>-->
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    <td>p28</td>
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            <td>p28</td>
−
    <td>Effector domain of Azurin</td>
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            <td>Effector domain of Azurin</td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500002">BBa_K2500002</a></td>
+
            <td><a href="http://parts.igem.org/Part:BBa_K2500002">BBa_K2500002</a></td>
−
  </tr>
+
        </tr>
−
  <tr>
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        <tr>
−
    <!--<td>Image</td>-->
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            <!--<td>Image</td>-->
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    <td>PtlpA</td>
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            <td>PtlpA</td>
−
    <td><b>Best Basic Part:</b> Temperature-responsive promoter TlpA optimized for slight activation above 37°C and full activation at 45 °C</td>
+
            <td><b>Best Basic Part:</b> Temperature-responsive promoter TlpA optimized for slight activation above 37°C and full activation at 45 °C</td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500003">BBa_K2500003</a></td>
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            <td><a href="http://parts.igem.org/Part:BBa_K2500003">BBa_K2500003</a></td>
−
  </tr>
+
        </tr>
−
  <tr>
+
        <tr>
−
    <!--<td>Image</td>-->
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            <!--<td>Image</td>-->
−
    <td>TlpA</td>
+
            <td>TlpA</td>
−
    <td>Protein reversibly inhibiting the pTlpA promoter at temperatures below 37 °C</td>
+
            <td>Protein reversibly inhibiting the pTlpA promoter at temperatures below 37 °C</td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500004">BBa_K2500004</a></td>
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            <td><a href="http://parts.igem.org/Part:BBa_K2500004">BBa_K2500004</a></td>
−
  </tr>
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        </tr>
−
<tr>
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        <tr>
−
  <!--<td>Image</td>-->
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            <!--<td>Image</td>-->
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    <td>AND gate a</td>
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            <td>AND gate a</td>
−
    <td>Synthetic promoter responsive to LldR and luxR </td>
+
            <td>Synthetic promoter responsive to LldR and luxR </td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500010">BBa_K2500010</a></td>
+
            <td><a href="http://parts.igem.org/Part:BBa_K2500010">BBa_K2500010</a></td>
−
  </tr>
+
        </tr>
−
  <tr>
+
        <tr>
−
    <!--<td>Image</td>-->
+
            <!--<td>Image</td>-->
−
    <td>AND gate b</td>
+
            <td>AND gate b</td>
−
    <td>Synthetic promoter responsive to LldR and luxR </td>
+
            <td>Synthetic promoter responsive to LldR and luxR </td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500011">BBa_K2500011</a></td>
+
            <td><a href="http://parts.igem.org/Part:BBa_K2500011">BBa_K2500011</a></td>
−
  </tr>
+
        </tr>
−
  <tr>
+
        <tr>
−
    <!--<td>Image</td>-->
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            <!--<td>Image</td>-->
−
    <td>AND gate c</td>
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            <td>AND gate c</td>
−
    <td>Synthetic promoter responsive to LldR and luxR </td>
+
            <td>Synthetic promoter responsive to LldR and luxR </td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500012">BBa_K2500012</a></td>
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            <td><a href="http://parts.igem.org/Part:BBa_K2500012">BBa_K2500012</a></td>
−
  </tr>
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        </tr>
−
</table>
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    </table>
 
</section>
 
</section>
−
 
−
 
  
 
<section>
 
<section>
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     <table width="100%">
 
     <table width="100%">
−
  <tr>
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        <tr>
−
    <th>Part</th>
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            <th>Part</th>
−
    <th>Description</th>
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            <th>Description</th>
−
    <th>BioBrick</th>
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            <th>BioBrick</th>
−
  </tr>
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        </tr>
−
  <tr>
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        <tr>
−
    <td>Pconst_RBSeng_TlpA</th>
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            <td>Pconst_RBSeng_TlpA</td>
−
    <td><b>Best Composite Part:</b>Temperature-dependent transcriptional repressor TlpA regulated by constant promoter and engineered RBS</th>
+
            <td><b>Best Composite Part:</b>Temperature-dependent transcriptional repressor TlpA regulated by constant promoter and engineered RBS</td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500008">BBa_K2500008</a></th>
+
            <td><a href="http://parts.igem.org/Part:BBa_K2500008">BBa_K2500008</a></td>
−
  </tr>
+
        </tr>
−
  <tr>
+
        <tr>
−
    <td>pTlpA_Protein E</th>
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            <td>pTlpA_Protein E</td>
−
    <td>Bacterial cell lysing protein E regulated by heat-inducible promoter pTlpA and synthetic RBS </th>
+
            <td>Bacterial cell lysing protein E regulated by heat-inducible promoter pTlpA and synthetic RBS </td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500009">BBa_K2500009</a></th>
+
            <td><a href="http://parts.igem.org/Part:BBa_K2500009">BBa_K2500009</a></td>
−
  </tr>
+
        </tr>
−
  <tr>
+
        <tr>
−
    <td>Pconst_RBS_LldP/<br>LldR_Pconst_RBS_LuxR</td>
+
            <td>Pconst_RBS_LldP/<br>LldR_Pconst_RBS_LuxR</td>
−
    <td>Expression cassette consisting of LuxR and LldP/LldR</td>
+
            <td>Expression cassette consisting of LuxR and LldP/LldR</td>
−
    <td><a href="http://parts.igem.org/Part:BBa_K2500013">BBa_K2500013</a></td>
+
            <td><a href="http://parts.igem.org/Part:BBa_K2500013">BBa_K2500013</a></td>
−
  </tr>
+
        </tr>
−
</table>
+
    </table>
−
<section>
+
</section>
−
 
+
−
<br>
+
  
 
<section class="design">
 
<section class="design">
 
     <h1>Design</h1>
 
     <h1>Design</h1>
  
 +
    <div class="multi-summary">
 +
        <details>
 +
            <summary>BBa_K2500008: Pconst_RBSeng_TlpA</summary>
  
−
<details>
+
            <figure>
−
<summary>BBa_K2500008: Pconst_RBSeng_TlpA</summary>
+
                <img src="#" alt="FIXME">
 +
            </figure>
  
−
<br>
+
            <p>Description.</p>
−
<br>
+
  
−
<figure>
+
            <p> Registry: <a href="http://parts.igem.org/Part:BBa_K2500008">BBa_K2500008</a></p>
−
  <img src="#">
+
        </details>
−
</figure>
+
  
 +
        <details>
 +
            <summary>BBa_K2500010: AND gate a</summary>
  
−
<p>Description.</p>
+
            <figure>
 +
                <img src="https://static.igem.org/mediawiki/2017/7/72/T--ETH_Zurich--ANDgateA.png" alt="FIXME">
 +
            </figure>
  
−
<p> Registry: <a href="http://parts.igem.org/Part:BBa_K2500008">BBa_K2500008</a></p>
+
            <p>In absence of high concentrations of L-lactate, LldR inhibitor proteins bind to the binding sites O1 and O2 surrounding the pLux promoter leading to the formation of a DNA loop. The pLux promoter is sequestered and inaccessible for transcription. In design a, the distances between the intercalated promoter and the binding sites were adapted from <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a>.</p>
−
</details>
+
  
 +
            <p> Registry: <a href="http://parts.igem.org/Part:BBa_K2500010">BBa_K2500010</a></p>
 +
        </details>
  
−
<details>
 
−
<summary>BBa_K2500010: AND gate a</summary>
 
  
−
<br>
+
        <details>
−
<br>
+
            <summary>BBa_K2500011: AND gate b</summary>
  
−
<figure>
+
            <br>
−
  <img src="https://static.igem.org/mediawiki/2017/7/72/T--ETH_Zurich--ANDgateA.png">
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            <br>
−
</figure>
+
  
 +
            <figure class="B">
 +
                <img src="https://static.igem.org/mediawiki/2017/6/6a/T--ETH_Zurich--ANDgateB.png" alt="FIXME">
 +
            </figure>
  
−
<p>In absence of high concentrations of L-lactate, LldR inhibitor proteins bind to the binding sites O1 and O2 surrounding the pLux promoter leading to the formation of a DNA loop. The pLux promoter is sequestered and inaccessible for transcription. In design a, the distances between the intercalated promoter and the binding sites were adapted from <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a>.</p>
+
            <p>In design b, each binding site was duplicated in order to achieve a potential zipper mechanism and stronger inhibition due to binding more LldR inhibitor proteins.</p>
  
−
<p> Registry: <a href="http://parts.igem.org/Part:BBa_K2500010">BBa_K2500010</a></p>
+
            <p> Registry: <a href="http://parts.igem.org/Part:BBa_K2500011">BBa_K2500011</a></p>
−
</details>
+
        </details>
  
 +
        <details>
 +
            <summary>BBa_K2500012: AND gate c</summary>
  
−
<details>
+
            <figure class="C">
−
        <summary>BBa_K2500011: AND gate b</summary>
+
                <img src="https://static.igem.org/mediawiki/2017/c/c2/T--ETH_Zurich--ANDgateC.png" alt="FIXME">
 +
            </figure>
  
−
<br>
+
            <p>In design c, an artificial spacer was embedded between the pLux promoter and the O2 binding site in order to influence the looping dynamics.</p>
−
<br>
+
            <p> Registry: <a href="http://parts.igem.org/Part:BBa_K2500012">BBa_K2500012</a></p>
 +
        </details>
 +
    </div>
 +
</section>
  
−
<figure class="B">
+
<!--
−
  <img src="https://static.igem.org/mediawiki/2017/6/6a/T--ETH_Zurich--ANDgateB.png">
+
−
</figure>
+
−
 
+
−
<p>In design b, each binding site was duplicated in order to achieve a potential zipper mechanism and stronger inhibition due to binding more LldR inhibitor proteins.</p>
+
−
 
+
−
<p> Registry: <a href="http://parts.igem.org/Part:BBa_K2500011">BBa_K2500011</a></p>
+
−
</details>
+
−
 
+
−
 
+
−
<details>
+
−
<summary>BBa_K2500012: AND gate c</summary>
+
−
 
+
−
<br>
+
−
<br>
+
−
 
+
−
<figure class="C">
+
−
  <img src="https://static.igem.org/mediawiki/2017/c/c2/T--ETH_Zurich--ANDgateC.png">
+
−
</figure>
+
−
 
+
−
<p>In design c, an artificial spacer was embedded between the pLux promoter and the O2 binding site in order to influence the looping dynamics.</p>
+
−
 
+
−
<p> Registry: <a href="http://parts.igem.org/Part:BBa_K2500012">BBa_K2500012</a></p>
+
−
</details>
+
−
 
+
−
 
+
−
<!-- ------------------------------------------------------------------------------------------------------------------------------
+
−
    <h1>What information do I need to start putting my parts on the Registry?</h1>
+
−
    <p>The information needed to initially create a part on the Registry is:</p>
+
−
    <ul>
+
−
        <li>Part Name</li>
+
−
        <li>Part type</li>
+
−
        <li>Creator</li>
+
−
        <li>Sequence</li>
+
−
        <li>Short Description (60 characters on what the DNA does)</li>
+
−
        <li>Long Description (Longer description of what the DNA does)</li>
+
−
        <li>Design considerations</li>
+
−
    </ul>
+
−
 
+
−
    <p>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>
+
−
</section>
+
 
<section>
 
<section>
 
     <h1>Inspiration</h1>
 
     <h1>Inspiration</h1>
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     <groupparts>iGEM17 ETH_Zurich</groupparts>
 
     <groupparts>iGEM17 ETH_Zurich</groupparts>
 
</section>
 
</section>
−
 
 
-->  
 
-->  
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</main>
 
</main>
 
</html>
 
</html>
 
{{ETH_Zurich/Footer_N}}
 
{{ETH_Zurich/Footer_N}}

Revision as of 00:34, 28 October 2017

Parts

FIXME

Overview

We submitted in total 14 new BioBricks to the iGEM registry! You can find all parts and their design below.

Basic Parts

Part Description BioBrick
Bacterioferritin Heme-deletion mutant of bacterial iron storage protein functioning as MRI contrast agent BBa_K2500000
Azurin Mature cytotoxic copper protein BBa_K2500001
p28 Effector domain of Azurin BBa_K2500002
PtlpA Best Basic Part: Temperature-responsive promoter TlpA optimized for slight activation above 37°C and full activation at 45 °C BBa_K2500003
TlpA Protein reversibly inhibiting the pTlpA promoter at temperatures below 37 °C BBa_K2500004
AND gate a Synthetic promoter responsive to LldR and luxR BBa_K2500010
AND gate b Synthetic promoter responsive to LldR and luxR BBa_K2500011
AND gate c Synthetic promoter responsive to LldR and luxR BBa_K2500012

Composite Parts

Part Description BioBrick
Pconst_RBSeng_TlpA Best Composite Part:Temperature-dependent transcriptional repressor TlpA regulated by constant promoter and engineered RBS BBa_K2500008
pTlpA_Protein E Bacterial cell lysing protein E regulated by heat-inducible promoter pTlpA and synthetic RBS BBa_K2500009
Pconst_RBS_LldP/
LldR_Pconst_RBS_LuxR		 Expression cassette consisting of LuxR and LldP/LldR BBa_K2500013

Design

BBa_K2500008: Pconst_RBSeng_TlpA
FIXME

Description.

Registry: BBa_K2500008

BBa_K2500010: AND gate a
FIXME

In absence of high concentrations of L-lactate, LldR inhibitor proteins bind to the binding sites O1 and O2 surrounding the pLux promoter leading to the formation of a DNA loop. The pLux promoter is sequestered and inaccessible for transcription. In design a, the distances between the intercalated promoter and the binding sites were adapted from BBa_K1847007.

Registry: BBa_K2500010

BBa_K2500011: AND gate b

FIXME

In design b, each binding site was duplicated in order to achieve a potential zipper mechanism and stronger inhibition due to binding more LldR inhibitor proteins.

Registry: BBa_K2500011

BBa_K2500012: AND gate c
FIXME

In design c, an artificial spacer was embedded between the pLux promoter and the O2 binding site in order to influence the looping dynamics.

Registry: BBa_K2500012