Difference between revisions of "Part:BBa K3634007:Design"

Revision as of 15:29, 5 August 2020

Heme Oxygenase (ho1) (Optimised for E.coli)

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
INCOMPATIBLE WITH RFC[21]
Illegal BglII site found at 390
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

Design Notes

The sequence from BBa_K2328062 was taken and subject to the IDT codon optimisation tool. As a result of optimisation, two illegal restriction sites were introduced to the part. A PstI site at 300bp was removed by in silico site mutagenesis (t297a, TCT (Ser) to TCA (Ser)). The second illegal restriction site, EcoR1, at 469bp was removed also by in silico site mutagenesis (a471g, GAA (Glu) to GAG (Glu)). This allowed for the part to be used at RFC[10] and RFC[1000] standard with codon optimisation.

Source

The ho1 gene is found in Synechocystis sp. PCC 6803 and has been previously categorised in BioBrick form by J.J. Tabor (BBa_I15008). In 2017, TJU China removed the pre-existing barcode attached to the sequence (BBa_K2328062) before codon optimising the part for intestinal bacteria (BBa_K2328003). Although these intestinal bacteria included E.coli, the St Andrews iGEM 2020 team decided to specifically optimise BBa_K2328062 for E.coli only using the IDT codon optimisation tool to allow maximum expression in their chosen E.coli chassis.

References

UTAustin iGEM 2004 - https://parts.igem.org/Part:BBa_I15008

TJU China iGEM 2017 - https://parts.igem.org/Part:BBa_K2328062

IDT Codon Optimisation Tool - https://eu.idtdna.com/CodonOpt

UniProtKB: P72849 (HO1_SYNY3) - https://www.uniprot.org/uniprot/P72849#

@@ Line 13: / Line 13: @@
 ===Source===
-The ho1 is found in Synechocystis sp. PCC 6803 and has been previously categorised in BioBrick form by J.J. Tabor (BBa_I15008). In 2017, TJU China removed the pre-existing barcode attached to the sequence (BBa_K2328062) before codon optimising the part for intestinal bacteria (BBa_K2328003). Although these intestinal bacteria included E.coli, the St Andrews iGEM 2020 team decided to specifically optimise BBa_K2328062 for E.coli only using the IDT codon optimisation tool to allow maximum expression in their chosen E.coli chassis.
+The ho1 gene is found in Synechocystis sp. PCC 6803 and has been previously categorised in BioBrick form by J.J. Tabor (BBa_I15008). In 2017, TJU China removed the pre-existing barcode attached to the sequence (BBa_K2328062) before codon optimising the part for intestinal bacteria (BBa_K2328003). Although these intestinal bacteria included E.coli, the St Andrews iGEM 2020 team decided to specifically optimise BBa_K2328062 for E.coli only using the IDT codon optimisation tool to allow maximum expression in their chosen E.coli chassis.
 ===References===