Difference between revisions of "Part:BBa K4201007:Design"
 
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===Design Notes===
 
===Design Notes===
 
Codon optimization for <i>Glycine max</i> (soybean) is a unique design consideration for all of CU Boulder’s coding sequences including the cytosolic region of T5αOH. The membrane associated region of the protein was left unchanged. Codon optimization is the intentional use of specific codons for specific amino acids, dependent on what tRNAs are most abundant in the organism. While codon optimization is a common consideration for synthetic biologists, our sequences are unique for iGEM because they are intended for expression in soybeans.
 
Codon optimization for <i>Glycine max</i> (soybean) is a unique design consideration for all of CU Boulder’s coding sequences including the cytosolic region of T5αOH. The membrane associated region of the protein was left unchanged. Codon optimization is the intentional use of specific codons for specific amino acids, dependent on what tRNAs are most abundant in the organism. While codon optimization is a common consideration for synthetic biologists, our sequences are unique for iGEM because they are intended for expression in soybeans.
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[[File:T5αOH paclitaxel.png|400px|thumb|right|A diagram of the metabolic pathway for the synthesis of paclitaxel. T5αOH converts taxadiene into taxadiene-5α-ol, outlined in red. ]]
  
  

Latest revision as of 00:10, 12 October 2022


T5αOH


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal EcoRI site found at 184
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal EcoRI site found at 184
  • 21
    INCOMPATIBLE WITH RFC[21]
    Unknown
  • 23
    INCOMPATIBLE WITH RFC[23]
    Unknown
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal EcoRI site found at 184
    Illegal NgoMIV site found at 333
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 1
    Illegal BsaI.rc site found at 1517


Design Notes

Codon optimization for Glycine max (soybean) is a unique design consideration for all of CU Boulder’s coding sequences including the cytosolic region of T5αOH. The membrane associated region of the protein was left unchanged. Codon optimization is the intentional use of specific codons for specific amino acids, dependent on what tRNAs are most abundant in the organism. While codon optimization is a common consideration for synthetic biologists, our sequences are unique for iGEM because they are intended for expression in soybeans.

A diagram of the metabolic pathway for the synthesis of paclitaxel. T5αOH converts taxadiene into taxadiene-5α-ol, outlined in red.


Source

This T5αOH, or CYP725A-4 sequence originates from Taxus baccata2. All of our DNA fragments are obtained via de novo synthesis by iGEM sponsors Twist Bioscience and Integrated DNA technologies.

References

1. Wang, T. et al. Recent Research Progress in Taxol Biosynthetic Pathway and Acylation Reactions Mediated by Taxus Acyltransferases. Molecules 26, 2855 (2021).
2. Edgar, S. et al. Mechanistic Insights into Taxadiene Epoxidation by Taxadiene-5α-Hydroxylase. ACS Chem. Biol. 11, 460–469 (2016).