Difference between revisions of "Team:Worldshaper-Nanjing/Basic Part"

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<div class="column full_width">
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    <section class="nj-box001 animated fadeInLeft" data-wow-duration="700ms" data-wow-delay="100ms">
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        <img src="https://static.igem.org/mediawiki/2017/a/ad/T-Worldshaper-Nanjing-27001.png" alt="" class="bg-stretch" />
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    </section>
  
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    <div class="gradient_bg">
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        <article class="nj-box002 animated fadeInLeft" data-wow-duration="700ms" data-wow-delay="500ms">
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                                <h2>FBPA for Synechococcus sp. PCC 7002</h2>
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                            </div>
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                        </div>
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                            <div class="nj-box4">
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                                <p>
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                                    BBa_K2513032
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                                </p>
 +
                                <p>FBPA for Synechococcus sp. PCC 7002</p>
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                                <div class="nj-box3">
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                                    <img class="img-responsive" alt="" src="https://static.igem.org/mediawiki/2017/a/aa/T-Worldshaper-Nanjing-j2001.jpg" />
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                                </div>
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                                <p>This is an improved version of BBa_K1122702 which encodes a protein capable of binding ferric iron. We optimized its coding sequence according to the favorite codon usage frequency of Synechococcus sp. PCC 7002. Further we added NcoI and BamHI sites at 5 prime end, and added HindIII and BglII sites at 3 prime end. It could be easily fused with INP or SomA which are well verified proteins that used in surface-display in E.coli and Synechococcus sp. PCC 7002, so that the FBPA could be also expressed at the surface of E.coli or Synechococcus sp. PCC 7002.</p>
 +
                                <p>
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                                    FBPA is from Neisseria gonorrhoeae. The whole parts is synthesized by GenScript Corporation.
 +
                                </p>
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                                <p>Because of the special bias of codon usage of Synechococcus sp. PCC 7002, it was necessary to do a codon optimization of FBPA. And in order to express this ferric ion binding protein at the surface of Synechococcus sp. PCC 7002, this part was designed to be fused with other outer membrane proteins like INP or SomA with or without stop codon and with unique restriction sites of BamHI and HindIII at the two sides.</p>
  
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<h1>Basic Parts</h1>
 
  
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<p>
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<h2>cpcBA promoter</h2>
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A <b>basic part</b> is a functional unit of DNA that cannot be subdivided into smaller component parts. <a href="http://parts.igem.org/wiki/index.php/Part:BBa_R0051">BBa_R0051</a> is an example of a basic part, a promoter regulated by lambda cl.
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                                <p>BBa_K2513032</p>
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</p>
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                                <p>cpcBA promoter</p>
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                                <div class="nj-box3">
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                                    <img class="img-responsive" alt="" src="https://static.igem.org/mediawiki/2017/c/c5/T-Worldshaper-Nanjing-j2006.png" />
 +
                                </div>
 +
                                <p>This basic part was designed to be ligated into a basic vector pAQ1Basic3 to make an expression vector pAQ1J2 and functioned as a promoter to driver transcription of the target genes downstream. The cpcBA promoter is originally from Synechocystis sp. PCC 6803 and also works well in Synechococcus sp. PCC 7002.</p>
 +
                                <p>The sequence is from Synechocystis sp. PCC 6803, and synthesized by GenScript Corporation.</p>
 +
                                <p>This promoter region can be easily replace by others by digestion with KpnI and NdeI restriction enzymes. So we can easily compare and measure different promoters in Synechococcus sp. PCC 7002 when inserting a reporter gene like EGFP.</p>
  
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<p>Most genetically-encoded functions have not yet been converted to BioBrick parts. Thus, there are <b>many</b> opportunities to find new, cool, and important genetically encoded functions, and refine and convert the DNA encoding these functions into BioBrick standard biological parts. </p>
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                                <h2>GlgA2</h2>
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<br>
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                                <p>BBa_K2513020</p>
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<h3>Best Basic Part Special Prize</h3>
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                                <p>GlgA2</p>
 +
                                <div class="nj-box3">
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                                    <img class="img-responsive" alt="" src="https://static.igem.org/mediawiki/2017/b/bb/T-Worldshaper-Nanjing-j2007.png" />
 +
                                </div>
  
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<p>Most genetically-encoded functions have not yet been converted to BioBrick parts. Thus, there are *many* opportunities to find new, cool, and important genetically encoded functions, and refine and convert the DNA encoding these functions into BioBrick standard biological parts. To be eligible for this award, this part must adhere to <a href="http://parts.igem.org/DNA_Submission">Registry sample submission guidelines</a> and have been sent to the Registry of Standard Biological Parts. If you have a part you wish to nominate your team for this <a href="https://2017.igem.org/Judging/Awards">special prize</a>, make sure you add your part number to your <a href="https://2017.igem.org/Judging/Judging_Form">judging form</a> and delete the box at the top of this page.
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                                <p>This part encodes a protein GlgA2 of Synechocystis sp. PCC 6803 that involved in the pathway glycogen biosynthesis, which is part of glycan biosynthesis. We want to increase the starch accumulation of Synechococcus sp. PCC 7002 by transferring this gene.</p>
 +
                                <p>The amino acid sequence is according to the GlgA2 gene of Synechocystis sp. PCC 6803, and the DNA fragment is synthesized by GenScript Corporation.</p>
  
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<br><br>
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                                <h2>SmtA-out</h2>
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<b>Please note:</b> Judges will only look at the first part number you list, so please only enter ONE (1) part number in the judging form for this prize. </p>
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                                <p>BBa_K2513031</p>
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<br>
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                                <p>SmtA-out</p>
 +
                                <div class="nj-box3">
 +
                                    <img class="img-responsive" alt="" src="https://static.igem.org/mediawiki/2017/c/c0/T-Worldshaper-Nanjing-j2008.png" />
 +
                                </div>
  
 +
                                <p>This encodes a protein SmtA from Synechococcus sp.PCC7942 which may play a role in essential metal ion homeostasis (especially zinc homeostasis) and resistance to certain non-essential metal ions. Metallothioneins have a high content of cysteine residues that bind various heavy metals. It was designed to be fused with INP or SomA which are well verified proteins that used in surface-display in E.coli and Synechococcus sp. PCC 7002, so that it can be also expressed at the surface of E.coli or Synechococcus sp. PCC 7002 to help the transgenetic hosts to absorbing metal irons.</p>
  
 +
                                <p>This part can be easily fused with other outer membrane proteins like INP or SomA with or without stop codon using unique restriction sites of BamHI and HindIII at the two sides.</p>
  
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<div class="highlight">
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                                <p>The amino sequence is according to the SmtA gene of Synechococcus sp.PCC7942, and DNA fragment is synthesized by GenScript Corporation.</p>
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<h4>Note</h4>
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<p>This page should list all the basic parts your team has made during your project. You must add all characterization information for your parts on the Registry. You should not put characterization information on this page. Remember judges will only look at the first part in the list for the Best Basic Part award, so put your best part first!</p>
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Latest revision as of 03:24, 2 November 2017

FBPA for Synechococcus sp. PCC 7002

BBa_K2513032

FBPA for Synechococcus sp. PCC 7002

This is an improved version of BBa_K1122702 which encodes a protein capable of binding ferric iron. We optimized its coding sequence according to the favorite codon usage frequency of Synechococcus sp. PCC 7002. Further we added NcoI and BamHI sites at 5 prime end, and added HindIII and BglII sites at 3 prime end. It could be easily fused with INP or SomA which are well verified proteins that used in surface-display in E.coli and Synechococcus sp. PCC 7002, so that the FBPA could be also expressed at the surface of E.coli or Synechococcus sp. PCC 7002.

FBPA is from Neisseria gonorrhoeae. The whole parts is synthesized by GenScript Corporation.

Because of the special bias of codon usage of Synechococcus sp. PCC 7002, it was necessary to do a codon optimization of FBPA. And in order to express this ferric ion binding protein at the surface of Synechococcus sp. PCC 7002, this part was designed to be fused with other outer membrane proteins like INP or SomA with or without stop codon and with unique restriction sites of BamHI and HindIII at the two sides.

cpcBA promoter

BBa_K2513032

cpcBA promoter

This basic part was designed to be ligated into a basic vector pAQ1Basic3 to make an expression vector pAQ1J2 and functioned as a promoter to driver transcription of the target genes downstream. The cpcBA promoter is originally from Synechocystis sp. PCC 6803 and also works well in Synechococcus sp. PCC 7002.

The sequence is from Synechocystis sp. PCC 6803, and synthesized by GenScript Corporation.

This promoter region can be easily replace by others by digestion with KpnI and NdeI restriction enzymes. So we can easily compare and measure different promoters in Synechococcus sp. PCC 7002 when inserting a reporter gene like EGFP.

GlgA2

BBa_K2513020

GlgA2

This part encodes a protein GlgA2 of Synechocystis sp. PCC 6803 that involved in the pathway glycogen biosynthesis, which is part of glycan biosynthesis. We want to increase the starch accumulation of Synechococcus sp. PCC 7002 by transferring this gene.

The amino acid sequence is according to the GlgA2 gene of Synechocystis sp. PCC 6803, and the DNA fragment is synthesized by GenScript Corporation.

SmtA-out

BBa_K2513031

SmtA-out

This encodes a protein SmtA from Synechococcus sp.PCC7942 which may play a role in essential metal ion homeostasis (especially zinc homeostasis) and resistance to certain non-essential metal ions. Metallothioneins have a high content of cysteine residues that bind various heavy metals. It was designed to be fused with INP or SomA which are well verified proteins that used in surface-display in E.coli and Synechococcus sp. PCC 7002, so that it can be also expressed at the surface of E.coli or Synechococcus sp. PCC 7002 to help the transgenetic hosts to absorbing metal irons.

This part can be easily fused with other outer membrane proteins like INP or SomA with or without stop codon using unique restriction sites of BamHI and HindIII at the two sides.

The amino sequence is according to the SmtA gene of Synechococcus sp.PCC7942, and DNA fragment is synthesized by GenScript Corporation.

Copyright © 2017 Team: worldshaper-nanjing All Rights Reserved.