Team:Aix-Marseille/Parts

From 2014.igem.org

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        <i>The list will be updated each time we'll create or modify a part</i>
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         <div class="project-section">
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           <span class="project-tag" id="details"></span>
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           <span class="project-tag" id="fav_parts"></span>
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           <h1>Part BBa_K1349000</h1>
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           <h1>Favorite parts</h1>
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           <div class="project-subsection">
           <div class="project-subsection">
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             <span class="project-tag" id="serine_part"></span>
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             <span class="project-tag" id="part001"></span>
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             <h3 class="subtitle">Short description</h3>
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             <h2 class="subtitle">Part BBa_K1349001</h3>
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             <p>SerA_mut</p>
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             <p><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1349001" target="_blank">Link to registry</a></p>
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            <div class="parts-subsection">
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              <h3><i>relA</i></h3>
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            </div>
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            <h4>Description</h4>
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            <p>The <i>relA</i> gene encodes a ppGpp synthetase. In bacteria, ppGpp (guanosine 3'-diphosphate 5-' diphosphate) acts as a signaling molecule that regulates a variety of cellular metabolisms in response to changes in the nutritional state of the cells. The relA sequence amplified from <i>E. coli</i> W3110 was mutated by site-directed mutagenesis to remove the PstI site.</p>
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           <div class="project-subsection">
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             <span class="project-tag" id="serine_part"></span>
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             <span class="project-tag" id="part002"></span>
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             <h3 class="subtitle">DNA Sequence</h3>
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             <h2 class="subtitle">Part BBa_K1349002</h3>
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             <p>ATGGCAAAGGTATCGCTGGAGAAAGACAAGATTAAGTTTCTGCTGGTAGAAGGCGTGCACCAAAAGGCGC TGGAAAGCCTTCGTGCAGCTGGTTACACCAACATCGAATTTCACAAAGGCGCGCTGGATGATGAACAATT AAAAGAATCCATCCGCGATGCCCACTTCATCGGCCTGCGATCCCGTACCCATCTGACTGAAGACGTGATC AACGCCGCAGAAAAACTGGTCGCTATTGGCTGTTTCTGTATCGGAACAAACCAGGTTGATCTGGATGCGG CGGCAAAGCGCGGGATCCCGGTATTTAACGCACCGTTCTCAAATACGCGCTCTGTTGCGGAGCTGGTGAT TGGCGAACTGCTGCTGCTATTGCGCGGCGTGCCGGAAGCCAATGCTAAAGCGCACCGTGGCGTGTGGAAC AAACTGGCGGCGGGTTCTTTTGAAGCGCGCGGCAAAAAGCTGGGTATCATCGGCTACGGTCATATTGGTA CGCAATTGGGCATTCTGGCTGAATCGCTGGGAATGTATGTTTACTTTTATGATATTGAAAATAAACTGCC GCTGGGCAACGCCACTCAGGTACAGCATCTTTCTGACCTGCTGAATATGAGCGATGTGGTGAcgctGCAT GTACCAGAGAATCCGTCCACCAAAAATATGATGGGCGCGAAAGAAATTTCACTAATGAAGCCCGGCTCGC TGCTGATTAATGCTTCGCGCGGTACTGTGGTGGATATTCCGGCGCTGTGTGATGCGCTGGCGAGCAAACA TCTGGCGGGGGCGGCAATCGACGTATTCCCGACGGAACCGGCGACCAATAGCGATCCATTTACCTCTCCG CTGTGTGAATTCGACAACGTCCTTCTGACGCCACACATTGGCGGTTCGACTCAGGAAGCGCAGGAGAATA TCGGCCTGGAAGTTGCGGGTAAATTGATCAAGTATTCTGACAATGGCTCAACGCTCTCTGCGGTGAACTT CCCGGAAGTCTCGCTGCCACTGCACGGT</p>
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             <p><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1349002" target="_blank">Link to registry</a></p>
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            <div class="parts-subsection">
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              <h3>CusR box</h3>
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            </div>
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            <h4>Description</h4>
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            <p>The CusR box allow the binding of the CusR regulator. In <i>E. coli</i>, the CusR/CusS two-component system induces expression of genes involved in metal efflux under condition of elevated Cu concentration. Phosphorylated CusR specifically bind to CusR-dependent promoters.</p>
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           <div class="project-subsection">
           <div class="project-subsection">
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             <span class="project-tag" id="serine_part"></span>
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             <span class="project-tag" id="part003"></span>
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             <h3 class="subtitle">Logic and explanation for part and construction</h3>
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             <h2 class="subtitle">Part BBa_K1349004</h3>
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             <p>This construct encodes a truncated version of E. coli W3110 SerA ( D-3-phosphoglycerate dehydrogenase), missing the last 75 aa of the full sequence, and without stop codon. SerA is requiered for serine biosynthesis. Following the work of Peters-Wendisch et al. 2005, this mutated version of the enzyme is expected to be no-longer inhibited by Serine, and to allow the production of a high serine concentration. </p>
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             <p><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1349004" target="_blank">Link to registry</a></p>
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          </div>
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             <div class="parts-subsection">
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              <h3><i>mesh1</i></h3>
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          <div class="project-subsection">
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             </div>
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            <span class="project-tag" id="serine_part"></span>
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            <h3 class="subtitle">Purpose</h3>
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             <h4>Description</h4>
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            <p>This part is designed to allow the synthesis of serine in E. coli without the normal feedback inhibition, thus permitting the accumulation of high concentrations.</p>
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             <p>Mesh1 is a SpoT orthologs in metazoa. It catalyzes hydrolysis of ppGpp (guanosine 3'-diphosphate 5-' diphosphate).</p>
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          <div class="project-subsection">
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            <span class="project-tag" id="serine_part"></span>
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            <h3 class="subtitle">Origin and method of construction</h3>
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             <p>The part was obtained by PCR from E.coli strain W3110 and SLIC assembly. The construction removed the EcoR1 restriction site in the gene by the silent mutations of a GAA codon to a GAG codon.</p>
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          </div>
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          <div class="project-subsection">
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            <span class="project-tag" id="serine_part"></span>
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            <h3 class="subtitle">Propreties expected and validation</h3>
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             <p>We designed this sequence that in an E.coli mutant strain unable to catabolise serine correctly and without a serine import system, production of this coding sequence will lead to serine secretion into the growth media. The sequence does not contain a stop codon so it should be incorporated into composite bricks for testing synthesis and activity.</p>
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          </div>
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          <div class="project-subsection">
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             <span class="project-tag" id="serine_part"></span>
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             <h3 class="subtitle">Current backbone</h3>
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             <p>pSB1C3</p>
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          </div>
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          <div class="project-subsection">
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            <span class="project-tag" id="serine_part"></span>
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            <h3 class="subtitle">Sequenced clone</h3>
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            <p>ok SerA Cm1</p>
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           </div>
           </div>
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        </div>
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        <div class="project-section">
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          <span class="project-tag" id="o_parts"></span>
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          <h1>Other parts</h1>
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          <h3 class="subtitle">Part BBa_K1349000  -  <i>serA_troncated</i>(1-->1008nt)</h3>
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          <p class="parts-subsection"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1349000" target="_blank">Link to registry</a></p>
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          <h3 class="subtitle">Part BBa_K1349003  -  P<i>cusC</i></h3>
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          <p class="parts-subsection"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1349003" target="_blank">Link to registry</a></p>
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          <h3 class="subtitle">Part BBa_K1349005  -  (SH3)x1</h3>
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          <p class="parts-subsection"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1349005" target="_blank">Link to registry</a></p>
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          <h3 class="subtitle">Part BBa_K1349006  -  <i>cheA</i></h3>
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          <p class="parts-subsection"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1349006" target="_blank">Link to registry</a></p>
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          <h3 class="subtitle">Part BBa_K1349007  -  CusR-L-LZA</h3>
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          <p class="parts-subsection"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1349007" target="_blank">Link to registry</a></p>
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          <h3 class="subtitle">Part BBa_K1349008  -  (SH3pep)-L-LZA</h3>
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          <p class="parts-subsection"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1349008" target="_blank">Link to registry</a></p>
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           <ul class="nav">
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               <a data-scroll href="#intro">Introduction</a>
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               <a data-scroll href="#fav_parts">Favorite parts</a>
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              <ul class="nav">
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                <li><a data-scroll href="#part001">BBa_K1349001</a></li>
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                <li><a data-scroll href="#part002">BBa_K1349002</a></li>
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                <li><a data-scroll href="#part003">BBa_K1349004</a></li>
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              </ul>
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               <a data-scroll href="#mod_sys">Model system</a>
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               <a data-scroll href="#o_parts">Other parts</a>
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              <a data-scroll href="#simplify">Simplifying assumptions</a>
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              <a data-scroll href="#diff_equa">Differential equations</a>
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              <a data-scroll href="#init_val">Initial values</a>
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              <a data-scroll href="#resolv_sys">Resolution of the system</a>
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                <li><a data-scroll href="#case1">First case</a></li>
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                <li><a data-scroll href="#case2">Second case</a></li>
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                <li><a data-scroll href="#case3">Third case</a></li>
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                <li><a data-scroll href="#case4">Fourth case</a></li>
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              </ul>
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             </li>
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Latest revision as of 12:03, 16 October 2014

Our parts

Favorite parts

Part BBa_K1349001

Link to registry

relA

Description

The relA gene encodes a ppGpp synthetase. In bacteria, ppGpp (guanosine 3'-diphosphate 5-' diphosphate) acts as a signaling molecule that regulates a variety of cellular metabolisms in response to changes in the nutritional state of the cells. The relA sequence amplified from E. coli W3110 was mutated by site-directed mutagenesis to remove the PstI site.

Part BBa_K1349002

Link to registry

CusR box

Description

The CusR box allow the binding of the CusR regulator. In E. coli, the CusR/CusS two-component system induces expression of genes involved in metal efflux under condition of elevated Cu concentration. Phosphorylated CusR specifically bind to CusR-dependent promoters.

Part BBa_K1349004

Link to registry

mesh1

Description

Mesh1 is a SpoT orthologs in metazoa. It catalyzes hydrolysis of ppGpp (guanosine 3'-diphosphate 5-' diphosphate).

Other parts

Part BBa_K1349000 - serA_troncated(1-->1008nt)

Link to registry

Part BBa_K1349003 - PcusC

Link to registry

Part BBa_K1349005 - (SH3)x1

Link to registry

Part BBa_K1349006 - cheA

Link to registry

Part BBa_K1349007 - CusR-L-LZA

Link to registry

Part BBa_K1349008 - (SH3pep)-L-LZA

Link to registry

Contact us

Email : equipe.igem.amu@gmail.com

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Retrieved from "http://2014.igem.org/Team:Aix-Marseille/Parts"