Difference between revisions of "Team:UCSC/Parts"

 
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<!-- {{UCSC}} -->
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{{UCSC-Header}}
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<!-- {{UCSC-Header}} -->
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{{HEADER-FINAL}}
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 +
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−
<h1>Parts</h1>
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#page {
 +
  background: honeydew;
 +
}
  
−
<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>
+
.proj-button {
−
<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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−
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<div class="column half_size">
+
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−
<div class="highlight">
+
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−
<h5>Note</h5>
+
}
−
<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>
+
−
</div>
+
−
</div>
+
  
 +
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 +
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 +
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 +
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 +
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 +
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 +
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 +
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 +
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−
<div class="column half_size">
+
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 +
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 +
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 +
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 +
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 +
  line-height: 130%;
 +
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−
<h5>Adding parts to the registry</h5>
+
.quote-person {
−
<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>
+
  font-family: 'objektiv-mk1' !important;
−
<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>
+
  font-size: 22px;
−
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+
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 +
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 +
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 +
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 +
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 +
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 +
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 +
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 +
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+
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 +
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 +
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 +
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 +
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−
<h5>What information do I need to start putting my parts on the Registry?</h5>
+
figcaption {
−
<p>The information needed to initially create a part on the Registry is:</p>
+
  font-family: 'objektiv-mk1';
−
<ul>
+
  font-style: italic;
−
<li>Part Name</li>
+
  font-size: 13px;
−
<li>Part type</li>
+
}
−
<li>Creator</li>
+
−
<li>Sequence</li>
+
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<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>
+
.diagram-image-right-1 {
−
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>
+
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 +
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 +
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 +
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 +
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−
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−
<div class="column half_size">
+
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 +
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 +
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 +
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−
<h5>Inspiration</h5>
+
.diagram-image-center-large-1 {
−
<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>
+
  width: 100%;
 +
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 +
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 +
  padding-bottom: 15px;
 +
  padding-top: 15px;
 +
    margin-right: 100px;
 +
}
  
−
<p> You can also take a look at how other teams have documented their parts in their wiki:</p>
+
.row-3 {
−
<ul>
+
  font-family: 'objektiv-mk1';
−
<li><a href="https://2014.igem.org/Team:MIT/Parts"> 2014 MIT </a></li>
+
  font-size: inherit;
−
<li><a href="https://2014.igem.org/Team:Heidelberg/Parts"> 2014 Heidelberg</a></li>
+
}
−
<li><a href="https://2014.igem.org/Team:Tokyo_Tech/Parts">2014 Tokyo Tech</a></li>
+
−
</ul>
+
−
</div>
+
  
−
<div class="column full_size">
+
@media (min-width: 1450px) {
−
<h5>Part Table </h5>
+
  .diagram-image-left-1 {
 +
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 +
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 +
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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>
+
}
  
−
<div class="highlight">
+
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−
<groupparts>iGEM17 UCSC</groupparts>
+
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    font-family: 'objektiv-mk1' !important;
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 +
 +
  h1 {
 +
    font-size: 140%;
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 +
 +
  .quote {
 +
    font-family: 'objektiv-mk1' !important;
 +
    font-style: italic !important;
 +
    font-size: 17px;
 +
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 +
  .quote-person {
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    font-family: 'objektiv-mk1' !important;
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    font-size: 12px;
 +
    text-align: right !important;
 +
    margin-right: -120px !important;
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 +
  .paragraph-left {
 +
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 +
 +
  .text-container {
 +
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 +
    padding-left: 0px;
 +
    padding-right: 0px;
 +
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 +
 +
  .metabolic-pathway {
 +
      margin: auto;
 +
      background: honeydew;
 +
      width: 110%;
 +
      margin-left: -20px;
 +
      margin-right: -20px;
 +
  }
 +
 +
  figcaption {
 +
    font-size: 12px;
 +
    line-height: 130%;
 +
  }
 +
 +
  .reference-list {
 +
    font-family: 'objektiv-mk1';
 +
    font-size: 12px;
 +
    text-align: left;
 +
    list-style-type: none;
 +
    line-height: 100%;
 +
    margin-bottom: 80px;
 +
    margin-right: -50px;
 +
    margin-left: -50px;
 +
  }
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}
 +
 +
@media (max-width: 400px) {
 +
  .quote {
 +
    font-size: 15px;
 +
  }
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}
 +
 +
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</style>
 +
 +
<body style="background-color: honeydew;">
 +
<div id="page">
 +
<center>
 +
<br>
 +
<br>
 +
 +
<img class="titleimg" src="https://static.igem.org/mediawiki/2017/7/79/Parts.png">
 +
 +
<h1>PARTS</h1>
 +
 +
<br>
 +
 +
<div class="text-container">
 +
 +
  <br>
 +
 +
  <h2 style="text-align: left; font-weight: 500;">BBa_k2223000: <i>4abh</i></h2>
 +
 +
  <br>
 +
 +
  <p>The <i>4abh</i> gene, native to <i>A. bisporus</i>, allows the conversion of molecules like anthranilate and para-aminobenzoic acid to 4-aminophenol.</p>
 +
 +
  <br>
 +
  <br>
 +
 +
  <h2 style="text-align: left; font-weight: 500;">BBa_k2223001: <i>nhoA</i></h2>
 +
 +
  <br>
 +
 +
  <p>The <i>nhoA</i> gene is native to <i>E. coli</i> and allows for the conversion of 4-aminophenol to acetaminophen.</p>
 +
 +
  <br>
 +
  <br>
 +
 +
  <h2 style="text-align: left; font-weight: 500;">BBa_k2223002: <i>ssuE</i></h2>
 +
 +
  <br>
 +
 +
  <p>The enzyme created by the gene <i>ssuE</i> catalyzes activity that reduces the Flavin mononucleotide (FMN) by using NADH dehydrogenase as a reducing agent. This gene sequenced was optimized from <i>S. elonagtus</i> PCC 7002 sequence.</p>
 +
 +
  <br>
 +
  <br>
 +
 +
  <h2 style="text-align: left; font-weight: 500;">BBa_k2223003: <i>bluB</i></h2>
 +
 +
  <br>
 +
 +
  <p>The gene <i>bluB</i>  encodes an enzyme that catalyzes an oxidized reaction that cleaves the reduced Flavin mononucleotide (FMNH<sub>2</sub>) transforming to 5,6-dimethylbenzimidazole (5,6-DMB). The <i>bluB</i> sequence was optimized for PCC 7942 using the reference genome sequence from <i>Sinorhizobium meliloti</i> 1021.</p>
 +
 +
  <br>
 +
  <br>
 +
 +
  <h2 style="text-align: left; font-weight: 500;">BBa_k2223004: riboswitch</h2>
 +
 +
  <br>
 +
 +
  <p>The riboswitch part contains a psbAI promoter which transcribes an mRNA strand consisting of a riboswitch and repressor gene, TetR. The riboswitch binds to vitamin B<sub>12</sub> and regulates the expression of the downstream repressor gene. In the presence of vitamin B<sub>12</sub>, the riboswitch specifically anneals onto the cobalamin molecule inducing a conformational change within the mRNA sequestering the riboswitch binding site upstream of TetR. However, in the absence of vitamin B<sub>12</sub>, TetR is continuously expressed.</p>
 +
 +
  <br>
 +
  <br>
 +
 +
  <h2 style="text-align: left; font-weight: 500;">BBa_k2223005: riboswitch_reporter</h2>
 +
 +
  <br>
 +
 +
  <p>The riboswitch_reporter part contains a psbAI promoter which transcribes an mRNA strand consisting of a Tet operator, TetO, upstream of the reporter gene, mRFP. The reporter is trans-regulated by a Tet repressor protein bound to the Tet operator hindering translation. In the presence of vitamin B<sub>12</sub> the Tet systems renders useless thus, mRFP is expressed.</p>
 +
 +
  <br>
 +
  <br>
 +
  <br>
 +
  <br>
 +
 +
  <div class="container" style="width: 100%">
 +
    <div class="row">
 +
      <div class="col-md-4">
 +
        <h3>P R O J E C T</h3>
 +
        <hr>
 +
        <a href="https://2017.igem.org/Team:UCSC/Project" class="proj-button">
 +
          <img src="https://static.igem.org/mediawiki/2017/6/64/UCSCproject.png" class="proj-button-image-solo" alt="https://m.signalvnoise.com/depend-less-on-each-other-507fe0e23e4b">
 +
          <div class="proj-button-desc">
 +
            <div class="overlap-button-text">HOMEPAGE</div>
 +
          </div>
 +
        </a>
 +
      </div>
 +
 +
      <div class="col-md-8">
 +
        <h3>Click here to learn more!</h3>
 +
        <hr>
 +
        <div class="row">
 +
 +
        <a href="https://2017.igem.org/Team:UCSC/Acetaminophen" class="proj-button">
 +
              <img src="https://static.igem.org/mediawiki/2017/6/6c/Acetaminophenicon.png" class="proj-button-image">
 +
              <div class="proj-button-desc">
 +
                <div class="overlap-button-text">ACETAMINOPHEN</div>
 +
              </div>
 +
          </a>
 +
 +
        <a href="https://2017.igem.org/Team:UCSC/B-12" class="proj-button">
 +
              <img src="https://static.igem.org/mediawiki/2017/8/89/B12_title.png" class="proj-button-image">
 +
              <div class="proj-button-desc">
 +
                <div class="overlap-button-text">VITAMIN B<sub>12</sub></div>
 +
              </div>
 +
          </a>
 +
 +
          <a href="https://2017.igem.org/Team:UCSC/Model" class="proj-button">
 +
              <img src="https://static.igem.org/mediawiki/2017/b/be/Modeling_button.png" class="proj-button-image">
 +
            <div class="proj-button-desc">
 +
                <div class="overlap-button-text">MODELING</div>
 +
              </div>
 +
          </a>
 +
          </div>
 +
          <div class="row">
 +
 +
          <a href="https://2017.igem.org/Team:UCSC/Demonstrate" class="proj-button">
 +
            <img src="https://static.igem.org/mediawiki/2017/a/ad/Resulticon.png" class="proj-button-image">
 +
            <div class="proj-button-desc">
 +
              <div class="overlap-button-text">RESULTS</div>
 +
            </div>
 +
        </a>
 +
 +
        <a href="https://2017.igem.org/Team:UCSC/Target-Organism" class="proj-button">
 +
            <img src="https://static.igem.org/mediawiki/2017/8/84/Spirulinaicon.png" class="proj-button-image">
 +
            <div class="proj-button-desc">
 +
              <div class="overlap-button-text">TARGET ORGANISM</div>
 +
            </div>
 +
        </a>
 +
      </div>
 +
    </div>
 +
  </div>
 +
<br>
 +
<br>
 +
 +
</div>
 +
</div>
 +
</center>
 +
</div>
 
</html>
 
</html>
 
{{UCSC-Footer}}
 
{{UCSC-Footer}}

Latest revision as of 04:28, 1 November 2017



PARTS



BBa_k2223000: 4abh


The 4abh gene, native to A. bisporus, allows the conversion of molecules like anthranilate and para-aminobenzoic acid to 4-aminophenol.



BBa_k2223001: nhoA


The nhoA gene is native to E. coli and allows for the conversion of 4-aminophenol to acetaminophen.



BBa_k2223002: ssuE


The enzyme created by the gene ssuE catalyzes activity that reduces the Flavin mononucleotide (FMN) by using NADH dehydrogenase as a reducing agent. This gene sequenced was optimized from S. elonagtus PCC 7002 sequence.



BBa_k2223003: bluB


The gene bluB encodes an enzyme that catalyzes an oxidized reaction that cleaves the reduced Flavin mononucleotide (FMNH2) transforming to 5,6-dimethylbenzimidazole (5,6-DMB). The bluB sequence was optimized for PCC 7942 using the reference genome sequence from Sinorhizobium meliloti 1021.



BBa_k2223004: riboswitch


The riboswitch part contains a psbAI promoter which transcribes an mRNA strand consisting of a riboswitch and repressor gene, TetR. The riboswitch binds to vitamin B12 and regulates the expression of the downstream repressor gene. In the presence of vitamin B12, the riboswitch specifically anneals onto the cobalamin molecule inducing a conformational change within the mRNA sequestering the riboswitch binding site upstream of TetR. However, in the absence of vitamin B12, TetR is continuously expressed.



BBa_k2223005: riboswitch_reporter


The riboswitch_reporter part contains a psbAI promoter which transcribes an mRNA strand consisting of a Tet operator, TetO, upstream of the reporter gene, mRFP. The reporter is trans-regulated by a Tet repressor protein bound to the Tet operator hindering translation. In the presence of vitamin B12 the Tet systems renders useless thus, mRFP is expressed.





P R O J E C T

https://m.signalvnoise.com/depend-less-on-each-other-507fe0e23e4b
HOMEPAGE

Click here to learn more!

ACETAMINOPHEN
VITAMIN B12
MODELING
RESULTS
TARGET ORGANISM


S P O N S O R S
S O C I A L
C O N T A C T
Jack Baskin School of Engineering
University of California, Santa Cruz
1156 High Street
Santa Cruz, California, 95064