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Recent Publications

       Front Microbiol​(2023)14:1150353.

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​　古細菌型メバロン酸経路は我々が見出した変形代謝経路であり、複数のバリエーションが存在するメバロン酸の祖先型と考えられること、ATP消費が他のメバロン酸経路よりも少なく代謝工学的な利用が期待されることなどから注目を受けています。この論文では、同経路の鍵酵素であるホスホメバロン酸脱水酵素の詳細な酵素学的性質を明らかにしています。特にEPRという手法による分析で、4Fe-4S型の鉄硫黄クラスターの存在を証明したことがポイントです。

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       FEBS J (2023) Jun;290(11):2895-2908.

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　新規なD-アミノ酸生合成酵素の同定は、D-アミノ酸の生理機能を理解する上で重要なステップですが、これまで、D-Ala/D-Glu以外のD-アミノ酸合成酵素のin vivoクローニング系は報告されていませんでした。本論文では、様々なD-アミノ酸合成酵素のin vivoクローニングを可能とする新規プラットフォームの構築を報告しています。

      J Biochem. 2022 Jun 28;172(1):17-28. 

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　動物の生体内にD-アミノ酸が存在し、生合成されることはカイコで一番最初に報告されました。しかしながら、このD-アミノ酸（D-セリン）合成酵素は長らく未同定のまま残されていました。本論文では、カイコのD-セリン合成酵素と予想されるセリンラセマーゼの同定を報告しています。

2020~present

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  1. ​Matsuo H, Yamada N, Hemmi H, Ito T. Identification of YigL as a PLP/PNP phosphatase in Escherichia coli. Appl Environ Microbiol. 2024;90(9):e0127024. doi:10.1128/aem.01270-24

  2. Kanno K, Kuriki R, Yasuno Y, Shinada T, Ito T, Hemmi H. (2024) Archaeal mevalonate pathway in the uncultured bacterium Candidatus Promineifilum breve belonging to the phylum Chloroflexota. Appl Environ Microbiol. Published online July 31, 2024. doi:10.1128/aem.01106-24

  3. Yoshida, R., Motoyama, K., Ito, T., & Hemmi, H. (2024). Effects of producing high levels of hyperthermophile-specific C25,C25-archaeal membrane lipids in Escherichia coli. Biochemical and biophysical research communications, 729, 150349. 

  4. Komeyama, M., Kanno, K., Mino, H., Yasuno, Y., Shinada, T., Ito, T. & Hemmi, H. (2023) A [4Fe-4S] cluster resides at the active center of phosphomevalonate dehydratase, a key enzyme in the archaeal modified mevalonate pathway. Front Microbiol. 2023;14:1150353.

  5. Ito T, Muto N, Sakagami H, Tanaka M, Hemmi H, Yoshimura T (2023) D-amino acid auxotrophic Escherichia coli strain for in vivo functional cloning of novel D-amino acid synthetic enzyme. The FEBS J. 290(11):2895-2908.  

  6. Ito T. (2022). Role of the conserved pyridoxal 5ʹ-phosphate-binding protein YggS/PLPBP in vitamin B6 and amino acid homeostasis. Bioscience, biotechnology, and biochemistry, 86(9):1183-1191 

  7. Yoshimura T. (2022). Molecular basis and functional development of enzymes related to amino acid metabolism. Bioscience, biotechnology, and biochemistry, 86(9):1161-1172 . 

  8. Aoki, M., Vinokur, J., Motoyama, K., Ishikawa, R., Collazo, M., Cascio, D., Sawaya, M. R., Ito, T., Bowie, J. U., & Hemmi, H. (2022). Crystal structure of mevalonate 3,5-bisphosphate decarboxylase reveals insight into the evolution of decarboxylases in the mevalonate metabolic pathways. The Journal of biological chemistry, 98(7):102111 

  9. Tanaka, Y., Yoshimura, T., Hakamata, M., Saito, C., Sumitani, M., Sezutsu, H., Hemmi, H., & Ito, T. (2022). Identification and characterization of a serine racemase in the silkworm Bombyx mori. Journal of biochemistry, 172(1), 17–28. (Front cover of the jornal!)

  10. Abe, T., Hakamata, M., Nishiyama, A., Tateishi, Y., Matsumoto, S., Hemmi, H., Ueda, D., & Sato, T. (2022). Identification and functional analysis of a new type of Z,E-mixed prenyl reductase from mycobacteria. The FEBS journal, 10.1111/febs.16412. 

  11. Sompiyachoke, K., Nagasaka, A., Ito, T., & Hemmi, H. (2022). Identification and biochemical characterization of a heteromeric cis-prenyltransferase from the thermophilic archaeon Archaeoglobus fulgidus. Journal of biochemistry, 171(6), 641–651. 

  12. Ashida, H., Murakami, K., Inagaki, K., Sawa, Y., Hemmi, H., Iwasaki, Y., & Yoshimura, T. (2022). Evolution and properties of alanine racemase from Synechocystis sp. PCC6803. Journal of biochemistry, 171(4), 421–428. 

  13. Ito, T., Ogawa, H., Hemmi, H., Downs, D. M., & Yoshimura, T. (2022). Mechanism of Pyridoxine 5'-Phosphate Accumulation in Pyridoxal 5'-Phosphate-Binding Protein Deficiency. Journal of bacteriology, 204(3), e0052121.     

  14. Ishibashi, Y., Matsushima, N., Ito, T., & Hemmi, H. (2021). Isopentenyl diphosphate/dimethylallyl diphosphate-specific Nudix hydrolase from the methanogenic archaeon Methanosarcina mazei. Bioscience, biotechnology, and biochemistry, 86, 246-253. 

  15. Yasuno, Y., Nakayama, A., Saito, K., Kitsuwa, K., Okamura, H., Komeyama, M., Hemmi, H., & Shinada, T. (2021). Total Synthesis and Structure Confirmation of trans-Anhydromevalonate-5-phosphate, a Key Biosynthetic Intermediate of the Archaeal Mevalonate Pathway. Journal of natural products, 84(10), 2749–2754. 

  16. Ashida, H., Sawa, Y., & Yoshimura, T. (2021). Enzymatic determination of d-alanine with l-alanine dehydrogenase and alanine racemase. Bioscience, biotechnology, and biochemistry, 85(11), 2221–2223. 

  17. Okada M., Unno H., Emi K.-i., Matsumoto M., Hemmi, H. (2021) A versatile cis-prenyltransferase from Methanosarcina mazei catalyzes both C- and O-prenylations. Journal of Biological Chemistry. 296:100679. 

  18. Ito T., Tono M., Kitaura Y., Hemmi H., Yoshimura T. (2021) Urinary L-erythro-β-hydroxyasparagine - a novel serine racemase inhibitor and substrate of the Zn2+-dependent D-serine dehydratase Bioscience Reports 41 (4): BSR20210260. 

  19. Yoshida R., Hemmi H. (2020) Construction of an artificial biosynthetic pathway for hyperextended archaeal membrane lipids in the bacterium Escherichia coli. Synthetic Biology. 5:ysaa018. 

  20. Vu H, Ito T, Downs DM (2020) The role of YggS in vitamin B6 homeostasis in Salmonella enterica is informed by heterologous expression of yeast SNZ3. Journal of Bacteriology. 202(22):e00383-20.  Selected as a Spotlight!

  21. Ito T, Matsuoka M, Goto M, Watanabe S, Mizobuchi T, Matsushita K, Nasu R, Hemmi H, Yoshimura T. (2020) Mechanism of eukaryotic serine racemase-catalyzed serine dehydration. Biochim Biophys Acta Proteins Proteom. 2020 May 28:140460. 

  22. Ito T & Downs DM (2020) Pyridoxal reductase, PdxI, is critical for salvage of pyridoxal in Escherichia coli . Journal of Bacteriology. 202. e00056-20. 

  23. Yoshida R, Yoshimura T, Hemmi H. (2020) Reconstruction of the "Archaeal" Mevalonate Pathway from the Methanogenic Archaeon Methanosarcina mazei in Escherichia coli Cells.  Appl Environ Microbiol. 86. e02889-19. 

  24. Ito T, Hori R, Hemmi H, Downs DM, Yoshimura T. (2020) Inhibition of glycine cleavage system by pyridoxine 5'-phosphate causes synthetic lethality in glyA yggS and serA yggS in Escherichia coli.  Molecular Microbiology.  2020 113, 270-284.

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