Difference between revisions of "Team:BCU/Parts"
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<h1>Parts</h1> | <h1>Parts</h1> | ||
<h2>Basic Parts</h2> | <h2>Basic Parts</h2> | ||
| − | <p> | + | <p>BBa_K2567000: nicA (Nicotine oxidoreductase)</p> |
| − | + | ||
| − | (http://parts.igem.org/wiki/index.php?title=Part:BBa_K2567000) | + | <p>(http://parts.igem.org/wiki/index.php?title=Part:BBa_K2567000)</p> |
| − | The part code for the nicA protein. This protein can degrade nicotine. Nicotine oxidoreductase (nicA) from Pseudomonas putida S16 is the first enzyme in the pyrrolidine pathway for nicotine degradation. | + | <p>The part code for the nicA protein. This protein can degrade nicotine. Nicotine oxidoreductase (nicA) from Pseudomonas putida S16 is the first enzyme in the pyrrolidine pathway for nicotine degradation.</p> |
| − | We optimization the nicA in order to express protein successfully. Including but not limited to: | + | <p>We optimization the nicA in order to express protein successfully. Including but not limited to:</p> |
| − | • Codon usage bias | + | <p>• Codon usage bias</p> |
| − | • GC content | + | <p>• GC content</p> |
| − | • CpG dinucleotides content | + | <p>• CpG dinucleotides content</p> |
| − | • mRNA secondary structure | + | <p>• mRNA secondary structure</p> |
| − | • Cryptic splicing sites | + | <p>• Cryptic splicing sites</p> |
| − | • Premature PolyA sites | + | <p>• Premature PolyA sites</p> |
| − | • Internal chi sites and ribosomal binding sites | + | <p>• Internal chi sites and ribosomal binding sites</p> |
| − | • Negative CpG islands | + | <p>• Negative CpG islands</p> |
| − | • RNA instability motif (ARE) | + | <p>• RNA instability motif (ARE)</p> |
| − | • Repeat sequences (direct repeat, reverse repeat, and Dyad repeat) | + | <p>• Repeat sequences (direct repeat, reverse repeat, and Dyad repeat)</p> |
| − | • Restriction sites that may interfere with cloning | + | <p>• Restriction sites that may interfere with cloning</p> |
| − | Additional sequences we propose to improve translational performance | + | <p>Additional sequences we propose to improve translational performance</p> |
| − | (1) To increase the efficiency of translational initiation | + | <p>(1) To increase the efficiency of translational initiation</p> |
| − | • Kozak sequence | + | <p>• Kozak sequence</p> |
| − | • Shine-Dalgarno Sequence | + | <p>• Shine-Dalgarno Sequence</p> |
| − | (2) To increase the efficiency of translational termination | + | <p>(2) To increase the efficiency of translational termination</p> |
| − | • Stop codon(TAA) | + | <p>• Stop codon(TAA)</p> |
| − | + | <br/> | |
| − | Composite Parts | + | <h2>Composite Parts</h2> |
| − | BBa_K2567001: express nicA and degrade nicotine | + | <p>BBa_K2567001: express nicA and degrade nicotine</p> |
| − | (http://parts.igem.org/Part:BBa_K2567001) | + | <p>(http://parts.igem.org/Part:BBa_K2567001)</p> |
| − | Use a promoter (BBa_J23119), ribosome binding site (BBa_B0034), nicA coding region (BBa_K2567000), terminator(BBa_B0015). This part can express nicA, and nicA can degrade nicotine. | + | <p>Use a promoter (BBa_J23119), ribosome binding site (BBa_B0034), nicA coding region (BBa_K2567000), terminator(BBa_B0015). This part can express nicA, and nicA can degrade nicotine. |
</p> | </p> | ||
</div> | </div> | ||
</body> | </body> | ||
</html> | </html> | ||
Revision as of 10:25, 14 October 2018
Parts
Basic Parts
BBa_K2567000: nicA (Nicotine oxidoreductase)
(http://parts.igem.org/wiki/index.php?title=Part:BBa_K2567000)
The part code for the nicA protein. This protein can degrade nicotine. Nicotine oxidoreductase (nicA) from Pseudomonas putida S16 is the first enzyme in the pyrrolidine pathway for nicotine degradation.
We optimization the nicA in order to express protein successfully. Including but not limited to:
• Codon usage bias
• GC content
• CpG dinucleotides content
• mRNA secondary structure
• Cryptic splicing sites
• Premature PolyA sites
• Internal chi sites and ribosomal binding sites
• Negative CpG islands
• RNA instability motif (ARE)
• Repeat sequences (direct repeat, reverse repeat, and Dyad repeat)
• Restriction sites that may interfere with cloning
Additional sequences we propose to improve translational performance
(1) To increase the efficiency of translational initiation
• Kozak sequence
• Shine-Dalgarno Sequence
(2) To increase the efficiency of translational termination
• Stop codon(TAA)
Composite Parts
BBa_K2567001: express nicA and degrade nicotine
(http://parts.igem.org/Part:BBa_K2567001)
Use a promoter (BBa_J23119), ribosome binding site (BBa_B0034), nicA coding region (BBa_K2567000), terminator(BBa_B0015). This part can express nicA, and nicA can degrade nicotine.