Translational_Unit
XimE

Part:BBa_K4179018

Designed by: Amit Nelkin   Group: iGEM22_Technion-Israel   (2022-10-06)


SnoaL-like cyclase - XimE

Figure 1: Decursinol and mamesin synthesis pathway
.
Figure 2: PDB file of XimE taken from the work of He et al.[4] and visualized in ChimeraX[5]
.

XimE is part of the xiamenmycin biosynthesis gene cluster in addition to XimA, XimB, XimC, and XimD[1]. Xiamenmycin is a benzopyran compound that was shown as having anti fibrotic and anti-inflammatory activity[1]. XimE is an SnoaL-like cyclase that catalyzes the formation of a pyran product from an epoxide intermediate generated by XimD (Part:BBa_K4179016)[2].

Use and purpose

The team of Technion 2022 used this part in a construct (Part:BBa_K4179019). The purpose of the composite part is to introduce XimD and XimE into E. coli to allow the formation of decursinol (a pyran) from 7-methyldesuberosin. To ensure more of the pyran product (decursinol) in comparison with the furan product (marmesin), the team constrained a surplus of XimE via genetic manipulations.








Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal EcoRI site found at 160
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal EcoRI site found at 160
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal EcoRI site found at 160
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal EcoRI site found at 160
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal EcoRI site found at 160
    Illegal AgeI site found at 139
  • 1000
    COMPATIBLE WITH RFC[1000]


References

1. Yang, Y., Fu, L., Zhang, J., Hu, L., Xu, M., & Xu, J. (2014). Characterization of the xiamenmycin biosynthesis gene cluster in Streptomyces xiamenensis 318. PLoS One, 9(6), e99537.

2. He, B. B., Zhou, T., Bu, X. L., Weng, J. Y., Xu, J., Lin, S., ... & Xu, M. J. (2019). Enzymatic pyran formation involved in xiamenmycin biosynthesis. ACS Catalysis, 9(6), 5391-5399.

3. Bu, X. L., He, B. B., Weng, J. Y., Jiang, C. C., Zhao, Y. L., Li, S. M., ... & Xu, M. J. (2020). Constructing microbial hosts for the production of benzoheterocyclic derivatives. ACS Synthetic Biology, 9(9), 2282-2290.

4. He, B., Zhou, T., Bu, X., Weng, J., Xu, J., Lin, S., Zheng, J., Zhao, Y., & Xu, M. (2019). Snoal-like cyclase xime. https://doi.org/10.2210/pdb6isk/pdb

5. Pettersen, Eric F., et al. “UCSF Chimerax: Structure Visualization for Researchers, Educators, and Developers.” Protein Science, vol. 30, no. 1, 2020, pp. 70–82., https://doi.org/10.1002/pro.3943.

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