Difference between revisions of "Team:TU Darmstadt/Composite Part"

 
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{{TU_Darmstadt|breadcrumbs=Parts}}
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===Best Composite Part Special Prize===
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For this award we nominate our part [//parts.igem.org/Part:BBa_K2770002 BBa_K2770002]. This part is our favorite, as we were able to show functionality of all relevant steps, and could characterize our part accordingly. Transcription and translation of its encoded gene ycdW was shown by western blot. We could purify His-tagged YcdW using an Äkta, could prove YcdWs function by an <i>in vitro</i> glycolate production assay and were able to show product yield using HPLC. For detailed information please visit the respective pages on our [https://2018.igem.org/Team:TU_Darmstadt/Project/Glycolic_acid/E_coli wiki] and the [//parts.igem.org/Part:BBa_K2770002 registry].
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<h3>★  ALERT! </h3>
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<p>This page is used by the judges to evaluate your team for the <a href="https://2018.igem.org/Judging/Medals">medal criterion</a> or <a href="https://2018.igem.org/Judging/Awards"> award listed below</a>. </p>
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<p> Delete this box in order to be evaluated for this medal criterion and/or award. See more information at <a href="https://2018.igem.org/Judging/Pages_for_Awards"> Instructions for Pages for awards</a>.</p>
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<h1>Composite Parts</h1>
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<p>
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A composite part is a functional unit of DNA consisting of two or more basic parts assembled together. <a href="http://parts.igem.org/wiki/index.php/Part:BBa_I13507">BBa_I13507</a> is an example of a composite part, consisting of an RBS, a protein coding region for a red fluorescent protein, and a terminator.
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</p>
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<p>New composite BioBrick devices can be made by combining existing BioBrick Parts (like Inverters, Amplifiers, Smell Generators, Protein Balloon Generators, Senders, Receivers, Actuators, and so on).</p>
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<h3>Note</h3>
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<p>This page should list all the composite 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 Composite Part award, so put your best part first!</p>
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<h3>Best Composite Part Special Prize</h3>
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<p>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://2018.igem.org/Judging/Awards">special prize</a>, make sure you add your part number to your <a href="https://2018.igem.org/Judging/Judging_Form">judging form</a> and delete the box at the top of this page.
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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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==Composite Parts==
 
==Composite Parts==
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In the following table are all composite parts listed that we produced this year and submitted to the registry.
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Listed in the following table are all composite parts that we produced this year and submitted to the registry. The part we nominated for best composite part is BBa_K2770002, it is marked with a star in the table.
 
{|class="wikitable"
 
{|class="wikitable"
 
|-
 
|-
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! production organism
 
! production organism
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770002 BBa_K2770002]
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| &#10022;&nbsp;[//parts.igem.org/Part:BBa_K2770002 BBa_K2770002]  
 
| Generator
 
| Generator
 
| YcdW - <i>E.&nbsp;coli</i> glyoxylate reductase
 
| YcdW - <i>E.&nbsp;coli</i> glyoxylate reductase
 
| <i>E.&nbsp;coli</i>
 
| <i>E.&nbsp;coli</i>
 
|-
 
|-
−
| [https://parts.igem.org/Part:BBa_K2770003 BBa_K2770003]
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| &nbsp;&nbsp;&nbsp;&nbsp;[//parts.igem.org/Part:BBa_K2770003 BBa_K2770003]
 
| Generator
 
| Generator
 
| AceA - <i>E.&nbsp;coli</i> isocitrate lyase
 
| AceA - <i>E.&nbsp;coli</i> isocitrate lyase
 
| <i>E.&nbsp;coli</i>
 
| <i>E.&nbsp;coli</i>
 
|-
 
|-
−
| [https://parts.igem.org/Part:BBa_K2770006 BBa_K2770006]
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| &nbsp;&nbsp;&nbsp;&nbsp;[//parts.igem.org/Part:BBa_K2770006 BBa_K2770006]
 
| Generator
 
| Generator
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| Glyr1 - <i>A.&nbsp;thaliana</i> glyoxylate reductase 1
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| GLYR1 - <i>A.&nbsp;thaliana</i> glyoxylate reductase 1
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| <i>S.&nbsp;cerevisae</i>
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| <i>S.&nbsp;cerevisiae</i>
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770007 BBa_K2770007]
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| &nbsp;&nbsp;&nbsp;&nbsp;[//parts.igem.org/Part:BBa_K2770007 BBa_K2770007]
 
| Generator
 
| Generator
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| ICL1 - <i>S.&nbsp;cerevisae</i> isocitrate lyase 1
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| ICL1 - <i>S.&nbsp;cerevisiae</i> isocitrate lyase 1
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|<i>S.&nbsp;cerevisae</i>
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|<i>S.&nbsp;cerevisiae</i>
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770010 BBa_K2770010]
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| &nbsp;&nbsp;&nbsp;&nbsp;[//parts.igem.org/Part:BBa_K2770010 BBa_K2770010]
 
| Generator
 
| Generator
 
| CHMO - <i>A.&nbsp;calcoaceticus</i> cyclohexanone monooxygenase
 
| CHMO - <i>A.&nbsp;calcoaceticus</i> cyclohexanone monooxygenase
 
| <i>E.&nbsp;coli</i>
 
| <i>E.&nbsp;coli</i>
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770011 BBa_K2770011]
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| &nbsp;&nbsp;&nbsp;&nbsp;[//parts.igem.org/Part:BBa_K2770011 BBa_K2770011]
 
| Generator
 
| Generator
 
| ADH - <i>L.&nbsp;kefiri</i> alcohol dehydrogenase
 
| ADH - <i>L.&nbsp;kefiri</i> alcohol dehydrogenase
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<br>
 
<br>
 
<br>
 
<br>
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Additionally, here are the basic parts listed, which have been used for correct assembly of the composite parts. Therefore, none of these basic parts has been submitted to the registry by us. Some of them are designed by other teams as indicated in the table.
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Below we listed the basic parts we used for correct assembly of the above-mentioned composite parts. Therefore, none of these basic parts have been submitted to the registry by our team. Some of them have previously been designed by other iGEM teams, as indicated in the table . All sequences of parts from previous iGEM teams were taken form the part registry and our assembled composite parts have been synthesized by IDT. [//2018.igem.org/Team:TU_Darmstadt/FUN &#9996;]
 
{|class=="wikitable"
 
{|class=="wikitable"
 
! part number
 
! part number
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! designed by
 
! designed by
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770000 BBa_K2770000]
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| [//parts.igem.org/Part:BBa_K2770000 BBa_K2770000]
 
| cds
 
| cds
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| ycdW - glyoxylate reductase
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| <i>ycdW</i> - glyoxylate reductase
 
| <i>E.&nbsp;coli</i>
 
| <i>E.&nbsp;coli</i>
 
| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770001 BBa_K2770001]
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| [//parts.igem.org/Part:BBa_K2770001 BBa_K2770001]
 
| cds
 
| cds
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| aceA - isocitrate lyase
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| <i>aceA</i> - isocitrate lyase
 
| <i>E.&nbsp;coli</i>
 
| <i>E.&nbsp;coli</i>
 
| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770004 BBa_K2770004]
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| [//parts.igem.org/Part:BBa_K2770004 BBa_K2770004]
 
| cds
 
| cds
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| glyr1 - glyoxylate reductase
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| <i>GLYR1</i> - glyoxylate reductase
 
| <i>A.&nbsp;thaliana</i>
 
| <i>A.&nbsp;thaliana</i>
 
| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770005 BBa_K2770005]
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| [//parts.igem.org/Part:BBa_K2770005 BBa_K2770005]
 
| cds
 
| cds
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| icl1 - isocitrate lyase
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| <i>ICL1</i> - isocitrate lyase
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| <i>S.&nbsp;cerevisae</i>
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| <i>S.&nbsp;cerevisiae</i>
 
| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770008 BBa_K2770008]
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| [//parts.igem.org/Part:BBa_K2770008 BBa_K2770008]
 
| cds
 
| cds
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| chmo - cyclohexanone monooxygenase
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| <i>chmo</i> - cyclohexanone monooxygenase
 
| <i>A.&nbsp;calcoaceticus</i>
 
| <i>A.&nbsp;calcoaceticus</i>
 
| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770009 BBa_K2770009]
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| [//parts.igem.org/Part:BBa_K2770009 BBa_K2770009]
 
| cds
 
| cds
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| adh - alcohol dehydrogenase
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| <i>adh</i> - alcohol dehydrogenase
 
| <i>L.&nbsp;kefiri</i>
 
| <i>L.&nbsp;kefiri</i>
 
| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770012 BBa_K2770012]
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| [//parts.igem.org/Part:BBa_K2770012 BBa_K2770012]
 
| protein domain
 
| protein domain
 
| GS-Linker GGSGG
 
| GS-Linker GGSGG
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| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770013 BBa_K2770013]
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| [//parts.igem.org/Part:BBa_K2770013 BBa_K2770013]
 
| Affinity-Tag
 
| Affinity-Tag
 
| 10x His-Tag
 
| 10x His-Tag
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| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770014 BBa_K2770014]
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| [//parts.igem.org/Part:BBa_K2770014 BBa_K2770014]
 
| Linker
 
| Linker
 
| SA Linker
 
| SA Linker
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| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770015 BBa_K2770015]
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| [//parts.igem.org/Part:BBa_K2770015 BBa_K2770015]
 
| Affinity-Tag
 
| Affinity-Tag
 
| Strep-Tag II
 
| Strep-Tag II
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| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2770016 BBa_K2770016]
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| [//parts.igem.org/Part:BBa_K2770016 BBa_K2770016]
 
| DNA
 
| DNA
 
| AAA sequence for correct assembly
 
| AAA sequence for correct assembly
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| TU_Darmstadt 2018
 
| TU_Darmstadt 2018
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_J70593 BBa_J70593 ]
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| [//parts.igem.org/Part:BBa_J70593 BBa_J70593 ]
 
| DNA
 
| DNA
 
| Startcodon
 
| Startcodon
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| Knight Lab 2010
 
| Knight Lab 2010
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K2389005 BBa_K2389005]
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| [//parts.igem.org/Part:BBa_K2389005 BBa_K2389005]
 
| Restriction Site
 
| Restriction Site
 
| Kpn1 restriction site
 
| Kpn1 restriction site
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| UAlberta 2017
 
| UAlberta 2017
 
|-
 
|-
−
| [https://parts.igem.org/Part:BBa_M31383 BBa_KM31383]
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| [//parts.igem.org/Part:BBa_M31383 BBa_KM31383]
 
| Restriction Site
 
| Restriction Site
 
| Nco1 restriction site
 
| Nco1 restriction site
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| Instructors MIT 2007
 
| Instructors MIT 2007
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_G0000 BBa_G0000]
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| [//parts.igem.org/Part:BBa_G0000 BBa_G0000]
 
| DNA
 
| DNA
 
| SpeI/XbaI Scar
 
| SpeI/XbaI Scar
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| iGEM 2007
 
| iGEM 2007
 
|-
 
|-
−
| [https://parts.igem.org/Part:BBa_M36117 BBa_M36117]
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| [//parts.igem.org/Part:BBa_M36117 BBa_M36117]
 
| DNA
 
| DNA
 
| Stop-Codon
 
| Stop-Codon
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| Stanford 2012
 
| Stanford 2012
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_K921000 BBa_K921000]
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| [//parts.igem.org/Part:BBa_K921000 BBa_K921000]
 
| Promotor
 
| Promotor
 
| T7/Lac Promotor
 
| T7/Lac Promotor
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| Carnegie_Mellon 2012
 
| Carnegie_Mellon 2012
 
|-
 
|-
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| [https://parts.igem.org/Part:BBa_B0034 BBa_B0034]
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| [//parts.igem.org/Part:BBa_B0034 BBa_B0034]
 
| RBS
 
| RBS
 
| RBS
 
| RBS
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| Antiquity 2003
 
| Antiquity 2003
 
|}
 
|}
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<a href="parts.igem.org/Part:BBa_K2770002> BBa_K2770002 Testlink </a>
 

Latest revision as of 12:12, 17 October 2018


Best Composite Part Special Prize

For this award we nominate our part BBa_K2770002. This part is our favorite, as we were able to show functionality of all relevant steps, and could characterize our part accordingly. Transcription and translation of its encoded gene ycdW was shown by western blot. We could purify His-tagged YcdW using an Äkta, could prove YcdWs function by an in vitro glycolate production assay and were able to show product yield using HPLC. For detailed information please visit the respective pages on our wiki and the registry.

Composite Parts

Listed in the following table are all composite parts that we produced this year and submitted to the registry. The part we nominated for best composite part is BBa_K2770002, it is marked with a star in the table.

part number part type produced enzyme production organism
✦ BBa_K2770002 Generator YcdW - E. coli glyoxylate reductase E. coli
    BBa_K2770003 Generator AceA - E. coli isocitrate lyase E. coli
    BBa_K2770006 Generator GLYR1 - A. thaliana glyoxylate reductase 1 S. cerevisiae
    BBa_K2770007 Generator ICL1 - S. cerevisiae isocitrate lyase 1 S. cerevisiae
    BBa_K2770010 Generator CHMO - A. calcoaceticus cyclohexanone monooxygenase E. coli
    BBa_K2770011 Generator ADH - L. kefiri alcohol dehydrogenase E. coli



Below we listed the basic parts we used for correct assembly of the above-mentioned composite parts. Therefore, none of these basic parts have been submitted to the registry by our team. Some of them have previously been designed by other iGEM teams, as indicated in the table . All sequences of parts from previous iGEM teams were taken form the part registry and our assembled composite parts have been synthesized by IDT. ✌

part number part type short description source organism designed by
BBa_K2770000 cds ycdW - glyoxylate reductase E. coli TU_Darmstadt 2018
BBa_K2770001 cds aceA - isocitrate lyase E. coli TU_Darmstadt 2018
BBa_K2770004 cds GLYR1 - glyoxylate reductase A. thaliana TU_Darmstadt 2018
BBa_K2770005 cds ICL1 - isocitrate lyase S. cerevisiae TU_Darmstadt 2018
BBa_K2770008 cds chmo - cyclohexanone monooxygenase A. calcoaceticus TU_Darmstadt 2018
BBa_K2770009 cds adh - alcohol dehydrogenase L. kefiri TU_Darmstadt 2018
BBa_K2770012 protein domain GS-Linker GGSGG - TU_Darmstadt 2018
BBa_K2770013 Affinity-Tag 10x His-Tag - TU_Darmstadt 2018
BBa_K2770014 Linker SA Linker - TU_Darmstadt 2018
BBa_K2770015 Affinity-Tag Strep-Tag II - TU_Darmstadt 2018
BBa_K2770016 DNA AAA sequence for correct assembly - TU_Darmstadt 2018
BBa_J70593 DNA Startcodon - Knight Lab 2010
BBa_K2389005 Restriction Site Kpn1 restriction site - UAlberta 2017
BBa_KM31383 Restriction Site Nco1 restriction site - Instructors MIT 2007
BBa_G0000 DNA SpeI/XbaI Scar - iGEM 2007
BBa_M36117 DNA Stop-Codon - Stanford 2012
BBa_K921000 Promotor T7/Lac Promotor T7 bacteriophage Carnegie_Mellon 2012
BBa_B0034 RBS RBS E. coli Antiquity 2003