Difference between revisions of "Part:BBa K3408004"

Latest revision as of 01:35, 28 October 2020

Optimized CⅠ

It is a protein which could suppress P_CⅠ so that our switch RNA couldn't be transcribed without oxygen.

We designed it under the control of P_nar.

We have optimized the CⅠ protein on ThermoFisher SCIENTIFIC (https://www.thermofisher.com/cn/zh/home/life-science/cloning/gene-synthesis/geneart-gene-synthesis/geneoptimizer.html) to use it better in our engineered bacteria.

Fig.1. Codon quality distribution Fig.2. Optimized codon quality distribution

The histograms show the percentage of sequence codons which fall into a certain quality class. The quality value of the most frequently used codon for a given amino acid in the desired expression system is set to 100, the remaining codons are scaled accordingly (Sharp, P.M., Li, W.H., Nucleic Acids Res. 15 (3),1987).

Fig.3. Codon quality plot Fig.4. Optimized codon quality plot

The plots show the quality of the used codon at the indicated codon position.

Sequence and Features

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
COMPATIBLE WITH RFC[21]
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

@@ Line 3: / Line 3: @@
 <partinfo>BBa_K3408004 short</partinfo>
-It is a protein which could suppress P<sub>CI</sub> so that our switch couldn't be transcribed without oxygen. It is also under the control of P<sub>nar</sub>.
+It is a protein which could suppress P<sub>CⅠ</sub> so that our switch RNA couldn't be transcribed without oxygen.
-We have optimized the CI protein on ThermoFisher SCIENTIFIC(https://www.thermofisher.com/cn/zh/home/life-science/cloning/gene-synthesis/geneart-gene-synthesis/geneoptimizer.html) to use it better in our engineered bacteria.
+We designed it under the control of P<sub>nar</sub>.
+We have optimized the CⅠ protein on ThermoFisher SCIENTIFIC (https://www.thermofisher.com/cn/zh/home/life-science/cloning/gene-synthesis/geneart-gene-synthesis/geneoptimizer.html) to use it better in our engineered bacteria.
 https://2020.igem.org/wiki/images/4/43/T--NAU-CHINA--basic-parts3.png
 https://2020.igem.org/wiki/images/5/5e/T--NAU-CHINA--basic-parts4.png
-The histograms show the percentage of sequence codons which fall into a certain quality class. The quality value of the most frequently used codon for a given amino acid in the desired expression system is set to 100, the remaining codons are scaled accordingly (see also Sharp, P.M., Li, W.H., Nucleic Acids Res. 15 (3),1987).
+&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;&nbsp; &nbsp;&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;Fig.1. Codon quality distribution         &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;&nbsp; &nbsp; &nbsp;         Fig.2. Optimized codon quality distribution
+The histograms show the percentage of sequence codons which fall into a certain quality class. The quality value of the most frequently used codon for a given amino acid in the desired expression system is set to 100, the remaining codons are scaled accordingly (Sharp, P.M., Li, W.H., <i>Nucleic Acids Res</i>. 15 (3),1987).
 https://2020.igem.org/wiki/images/b/bf/T--NAU-CHINA--basic-parts5.png
 https://2020.igem.org/wiki/images/7/77/T--NAU-CHINA--basic-parts6.png
+&nbsp; &nbsp; &nbsp; &nbsp;&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;Fig.3. Codon quality plot               &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;          Fig.4. Optimized codon quality plot
 The plots show the quality of the used codon at the indicated codon position.