Difference between revisions of "Team:Macquarie Australia/Parts"

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<h2> Part Documentation</h2>
 
<h2> Part Documentation</h2>
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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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<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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<h4>Note</h4>
 
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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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<h4>Adding parts to the registry</h4>
 
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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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<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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<h4>What information do I need to start putting my parts on the Registry?</h4>
 
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<p>The information needed to initially create a part on the Registry is:</p>
 
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<ul>
 
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<li>Part Name</li>
 
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<li>Part type</li>
 
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<li>Creator</li>
 
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<li>Sequence</li>
 
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<li>Short Description (60 characters on what the DNA does)</li>
 
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<li>Long Description (Longer description of what the DNA does)</li>
 
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<li>Design considerations</li>
 
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</ul>
 
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<p>We encourage you to put up much more information as you gather it. If you have images, plots, characterization data and other information, please also put it up on the part page.</p>
 
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<h4>Inspiration</h4>
 
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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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<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>
 
  
 
<h4>Part Table </h4>
 
<h4>Part Table </h4>
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<p>Table goes here</p>
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<table class="regularTable" style="width:98%" cellpadding="0">
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<tr class="regularTable" style="height:24px">
 +
<th class="regularCol10" style="text-align:center">Part number / name</th>
 +
<th class="regularCol40" style="text-align:center">Natural function of part</th>
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<th class="regularCol20" style="text-align:center">How will we use it?</th>
 +
<th class="regularCol20" style="text-align:center">Notes</th>
 +
</tr>
 +
<tr>
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<td><a href="http://parts.igem.org/Part:BBa_K1640000" target="_blank">BBa_K1640000</a></td>
 +
<td>ChlI1 and ChlD genes transcibe proteins that self-assemble to form a functional ChlI1:ChlD complex. The protein transcribed by the gene ChlH inserts magnesium into protoporphyrin IX. ChlI1 and ChlD genes transcibe proteins that self-assemble to form a functional ChlI1:ChlD complex. The protein transcribed by the gene ChlH inserts magnesium into protoporphyrin IX.</td>
 +
<td>We will use this part to form part of the chlorophyll biosynthesis pathway.</td>
 +
<td>Composed of Lac promoter (<a href="http://parts.igem.org/Part:BBa_R0010" target="_blank">BBa_R0010</a>), ChlI1 (<a href="http://parts.igem.org/Part:BBa_K1080000" target="_blank">BBa_K1080000</a>), ChlD (<a href="http://parts.igem.org/Part:BBa_K1080002" target="_blank">BBa_K1080002</a>), Gun 4 (<a href="http://parts.igem.org/Part:BBa_K1080003" target="_blank">BBa_K1080003</a>) and ChlH (<a href="http://parts.igem.org/Part:BBa_K1080001" target="_blank">BBa_K1080001</a>) parts.</td>
 +
</tr>
 +
<tr>
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<td><a href="http://parts.igem.org/Part:BBa_K1640001" target="_blank">BBa_K1640001</a></td>
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<td>CTH1, Plastocyanin, and YCF54 are involved in the oxidative cyclase pathway. ChlM methylates Mg-protoporphyrin IX, facilitating the highly-regulated catalysis of Mg-chelatase. CTH1 catalyses the conversion of Mg-protoporphyrin IX monomethyl into divinyl protochlorophyllide, interacting with YCF54 and Plastocyanin. ChlH inserts magnesium into protoporphyrin IX.</td>
 +
<td>We will use this part to form part of the chlorophyll biosynthesis pathway.</td>
 +
<td>Composed of the lac promoter (<a href="http://parts.igem.org/Part:BBa_R0010" target="_blank">BBa_R0010</a>), CTH1 (<a href="http://parts.igem.org/Part:BBa_K1080020" target="_blank">BBa_K1080020</a>), YCF54 (<a href="http://parts.igem.org/Part:BBa_K1080023" target="_blank">BBa_K1080023</a>), Plasto (<a href="http://parts.igem.org/Part:BBa_K1080014" target="_blank">BBa_K1080014</a>), and ChlM (<a href="http://parts.igem.org/Part:BBa_K1326001" target="_blank">BBa_K1326001</a>).</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640002" target="_blank">BBa_K1640002</a></td>
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<td>DVR1 reduces divinyl protochlorophyllide, POR converts protochlorophyllide to chlorophyllide, ChlG adds the geranylgeranyl pyrophosphate chain to the chlorophyllide molecule, and ChlP reduces the double bonds on GGPP. The final product is chlorophyll-<i>a</i>.</td>
 +
<td>We will use this part to form part of the chlorophyll biosynthesis pathway.</td>
 +
<td>Composed of the lac promoter (<a href="http://parts.igem.org/Part:BBa_R0010" target="_blank">BBa_R0010</a>), POR (<a href="http://parts.igem.org/Part:BBa_K1080015" target="_blank">BBa_K1080015</a>), DVR1 (<a href="http://parts.igem.org/Part:BBa_K1080012" target="_blank">BBa_K1080012</a>), ChlP (<a href="http://parts.igem.org/Part:BBa_K1080008" target="_blank">BBa_K1080008</a>), and ChlG (<a href="http://parts.igem.org/Part:BBa_K1080009" target="_blank">BBa_K1080009</a>).</td>
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</tr>
 +
<tr>
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<td><a href="http://parts.igem.org/Part:BBa_K1640003" target="_blank">BBa_K1640003</a></td>
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<td>The psbD gene that comprises this part encodes the D2 protein, which is one of the two proteins that comprise the Photosystem II reaction centre core.</td>
 +
<td>We will use this part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640004" target="_blank">BBa_K1640004</a></td>
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<td>The psbC gene that comprises this part codes a subunit that makes up the Photosystem II protein P680. The P680 complex is photosystem II primary electron donor.</td>
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<td>We will use this part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640020" target="_blank">BBa_K1640020</a></td>
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<td>The psbA gene that comprises this part encodes the D2 protein, which is one of the two proteins that comprise the Photosystem II reaction centre core.</td>
 +
<td>We will use this part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640006" target="_blank">BBa_K1640006</a></td>
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<td>This part is composed of psbE, psbL and psbJ genes. The protein encoded by psbE binds heme. The psbJ protein subunit is required for correct Photosystem II assembly. The psbJ protein is required for the stability of the Mn cluster in the Oxygen Evolution Complex.</td>
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<td>We will use this part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640007" target="_blank">BBa_K1640007</a></td>
 +
<td>This part is composed of the psbT and psbB genes. The psbT protein's function is not well known however it appears to be involved in the dimerization of Photosystem II and is essential for photosynthetic activity.</td>
 +
<td>We will use this part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640008" target="_blank">BBa_K1640008</a></td>
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<td>This part is composed of the psbM, psbZ, and psbH genes. The psbM protein subunit is positioned at the monomer-monomer interface. The psbZ protein controls the interaction of Photosystem II cores with the light-harvesting antenna. The psbH protein is required for stability and assembly of the photosystem II complex.</td>
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<td>We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640009" target="_blank">BBa_K1640009</a></td>
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<td>This part is composed of psbW and psbK genes. The psbW protein stabilizes dimeric Photosystem II. The psbK protein is also required for stability and assembly of Photosystem II.</td>
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<td>We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640010" target="_blank">BBa_K1640010</a></td>
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<td>The psbO gene that comprises this part encodes a manganese stabilising protein.</td>
 +
<td>We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640011" target="_blank">BBa_K1640011</a></td>
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<td>The psbP gene that comprises this part transcribes a protein that optimizes the availability of Ca<sub>2</sub><sup>+</sup> and Cl<sup>-</sup> cofactors in the Oxygen Evolving Complex in PSII to maintain the active Manganese cluster.</td>
 +
<td>We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640012" target="_blank">BBa_K1640012</a></td>
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<td>This part is composed of the psbQ and psbR genes. The psbQ protein is an oxygen enhancer protein. The psbR protein is an important link in the Photosystem II core complex for stable assembly of the Oxygen Evolving Complex.</td>
 +
<td>We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>As of 27 August 2015 this part has been ordered but the sequence not confirmed.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640013" target="_blank">BBa_K1640013</a></td>
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<td>Encodes the PSII reaction centre D2 (Psb-D), PSII reaction centre D1 (Psb-A), and the PSII core monomer CP43 subunit (Psb-C).</td>
 +
<td>We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>PSII Operon 1.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640014" target="_blank">BBa_K1640014</a></td>
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<td>Encodes &Alpha;-subunit of the PSII cytochrome b559 (Psb-E), and subunits L (Psb-L), and J (Psb-J) of the CP43-less PSII core monomer.</td>
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<td>We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>PSII Operon 2.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640015" target="_blank">BBa_K1640015</a></td>
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<td>Encodes subunit T of the CP43-less PSII core monomer (Psb-T) and CP47 subunit of the PSII reaction centre (Psb-B).</td>
 +
<td>We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>PSII Operon 3.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640016" target="_blank">BBa_K1640016</a></td>
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<td>Encodes subunits M (Psb-M), Z (Psb-Z), H (psb-H), W (Psb-W), K (Psb-K) of the CP43-less PSII core monomer.</td>
 +
<td>We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>PSII Operon 4.</td>
 +
</tr>
 +
<tr>
 +
<td><a href="http://parts.igem.org/Part:BBa_K1640017" target="_blank">BBa_K1640017</a></td>
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<td>Encodes subunits O (Psb-O), P (Psb-P), Q (Psb-Q) of the PSII oxygen evolving complex, and subunit R of the CP43-less PSII core monomer (Psb-R).</td>
 +
<td>We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway.</td>
 +
<td>PSII Operon 5.</td>
 +
</tr>
 +
</table>
  
 
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Revision as of 06:57, 17 September 2015

Parts
Link to Parts page
Team Parts page
Link to Basic Parts page
Link to Composite Parts page
Link to Part Collection page

Part Documentation

Part Table

Part number / name Natural function of part How will we use it? Notes
BBa_K1640000 ChlI1 and ChlD genes transcibe proteins that self-assemble to form a functional ChlI1:ChlD complex. The protein transcribed by the gene ChlH inserts magnesium into protoporphyrin IX. ChlI1 and ChlD genes transcibe proteins that self-assemble to form a functional ChlI1:ChlD complex. The protein transcribed by the gene ChlH inserts magnesium into protoporphyrin IX. We will use this part to form part of the chlorophyll biosynthesis pathway. Composed of Lac promoter (BBa_R0010), ChlI1 (BBa_K1080000), ChlD (BBa_K1080002), Gun 4 (BBa_K1080003) and ChlH (BBa_K1080001) parts.
BBa_K1640001 CTH1, Plastocyanin, and YCF54 are involved in the oxidative cyclase pathway. ChlM methylates Mg-protoporphyrin IX, facilitating the highly-regulated catalysis of Mg-chelatase. CTH1 catalyses the conversion of Mg-protoporphyrin IX monomethyl into divinyl protochlorophyllide, interacting with YCF54 and Plastocyanin. ChlH inserts magnesium into protoporphyrin IX. We will use this part to form part of the chlorophyll biosynthesis pathway. Composed of the lac promoter (BBa_R0010), CTH1 (BBa_K1080020), YCF54 (BBa_K1080023), Plasto (BBa_K1080014), and ChlM (BBa_K1326001).
BBa_K1640002 DVR1 reduces divinyl protochlorophyllide, POR converts protochlorophyllide to chlorophyllide, ChlG adds the geranylgeranyl pyrophosphate chain to the chlorophyllide molecule, and ChlP reduces the double bonds on GGPP. The final product is chlorophyll-a. We will use this part to form part of the chlorophyll biosynthesis pathway. Composed of the lac promoter (BBa_R0010), POR (BBa_K1080015), DVR1 (BBa_K1080012), ChlP (BBa_K1080008), and ChlG (BBa_K1080009).
BBa_K1640003 The psbD gene that comprises this part encodes the D2 protein, which is one of the two proteins that comprise the Photosystem II reaction centre core. We will use this part to test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640004 The psbC gene that comprises this part codes a subunit that makes up the Photosystem II protein P680. The P680 complex is photosystem II primary electron donor. We will use this part to test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640020 The psbA gene that comprises this part encodes the D2 protein, which is one of the two proteins that comprise the Photosystem II reaction centre core. We will use this part to test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640006 This part is composed of psbE, psbL and psbJ genes. The protein encoded by psbE binds heme. The psbJ protein subunit is required for correct Photosystem II assembly. The psbJ protein is required for the stability of the Mn cluster in the Oxygen Evolution Complex. We will use this part to test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640007 This part is composed of the psbT and psbB genes. The psbT protein's function is not well known however it appears to be involved in the dimerization of Photosystem II and is essential for photosynthetic activity. We will use this part to test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640008 This part is composed of the psbM, psbZ, and psbH genes. The psbM protein subunit is positioned at the monomer-monomer interface. The psbZ protein controls the interaction of Photosystem II cores with the light-harvesting antenna. The psbH protein is required for stability and assembly of the photosystem II complex. We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640009 This part is composed of psbW and psbK genes. The psbW protein stabilizes dimeric Photosystem II. The psbK protein is also required for stability and assembly of Photosystem II. We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640010 The psbO gene that comprises this part encodes a manganese stabilising protein. We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640011 The psbP gene that comprises this part transcribes a protein that optimizes the availability of Ca2+ and Cl- cofactors in the Oxygen Evolving Complex in PSII to maintain the active Manganese cluster. We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640012 This part is composed of the psbQ and psbR genes. The psbQ protein is an oxygen enhancer protein. The psbR protein is an important link in the Photosystem II core complex for stable assembly of the Oxygen Evolving Complex. We will use this part to form a composite and test a minimal Photosystem 2 biosynthesis pathway. As of 27 August 2015 this part has been ordered but the sequence not confirmed.
BBa_K1640013 Encodes the PSII reaction centre D2 (Psb-D), PSII reaction centre D1 (Psb-A), and the PSII core monomer CP43 subunit (Psb-C). We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway. PSII Operon 1.
BBa_K1640014 Encodes Α-subunit of the PSII cytochrome b559 (Psb-E), and subunits L (Psb-L), and J (Psb-J) of the CP43-less PSII core monomer. We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway. PSII Operon 2.
BBa_K1640015 Encodes subunit T of the CP43-less PSII core monomer (Psb-T) and CP47 subunit of the PSII reaction centre (Psb-B). We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway. PSII Operon 3.
BBa_K1640016 Encodes subunits M (Psb-M), Z (Psb-Z), H (psb-H), W (Psb-W), K (Psb-K) of the CP43-less PSII core monomer. We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway. PSII Operon 4.
BBa_K1640017 Encodes subunits O (Psb-O), P (Psb-P), Q (Psb-Q) of the PSII oxygen evolving complex, and subunit R of the CP43-less PSII core monomer (Psb-R). We will use this composite part to test a minimal Photosystem 2 biosynthesis pathway. PSII Operon 5.