Biosynthetic mechanism of the wobble modified uridines in tRNA

• Project/Area Number: 23710265
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Multi-year Fund
• Research Field: Chemical biology
• Research Institution: The University of Tokyo
• Principal Investigator: SUZUKI Takeo 東京大学, 大学院・工学系研究科, 講師 (90533125)
• Project Period (FY): 2011 – 2012
• Project Status: Completed (Fiscal Year 2012)
• Budget Amount: ¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000); Fiscal Year 2012: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000); Fiscal Year 2011: ¥2,860,000 (Direct Cost: ¥2,200,000、Indirect Cost: ¥660,000)
• Keywords: 細胞内化学反応 / tRNA / 転写後修飾 / ミトコンドリア / デコーディング / 生合成 / ウォブル位 / ウリジン / LC/MS

Research Abstract

We investigated two human gene products, hGTPBP3 and hMTO1, which modify the wobble uridine of human mitochondrial tRNAs. They localized in mitochondria and interacted each other. Replacement of each of these genes from yeast homologues to human genes did not complement modification activity, and the C-terminal region of hGTPBP3 was suggested to be required for the wobble modification.

Research Products

• [Journal Article] Decoding mechanism of non-universal genetic codes in Loligo bleekeri mitochondria (2013)
  • Author(s): Ohira T, Suzuki T (第2著者), 他5名
  • Journal Title: J . Biol. Chem Volume: 288 Issue: 11 Pages: 7645-7652
  • DOI: 10.1074/jbc.m112.439554
  • Peer Reviewed
• [Journal Article] Crystal structure of a putative methyltransferase SAV1081 from Staphylococcus aureus (2013)
  • Author(s): Kita, S., Tanaka, Y., Hirano, N., Kimura, S., Suzuki, T., Suzuki, T., Yao, M. and Tanaka, I.
  • Journal Title: Protein & Peptide Letters Volume: 20 Issue: 5 Pages: 530-537
  • DOI: 10.2174/0929866511320050006
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Base methylations in the double-stranded RNA by a fused methyltransferase bearing unwinding activity (2012)
  • Author(s): Kimura S., Ikeuchi Y., Kitahara K., Sakaguchi Y., Suzuki T., Suzuki T.
  • Journal Title: Nucleic Acids Research Volume: (掲載確定)(印刷中) Issue: 9 Pages: 4071-4085
  • DOI: 10.1093/nar/gkr1287
  • Peer Reviewed
• [Journal Article] Molecular basis of dihydrouridine formation on tRNA (2011)
  • Author(s): Yu F, Tanaka Y, Yamashita K, Suzuki T (第4著者), 他4名
  • Journal Title: Proc Natl Acad Sci U S A Volume: 108 Issue: 49 Pages: 19593-19598
  • DOI: 10.1073/pnas.1112352108
  • Peer Reviewed
• [Journal Article] Taurine-containing uridine modifications in tRNA anticodons are required to decipher non-universal genetic codes in ascidian mitochondria (2011)
  • Author(s): Suzuki T (第1著者), 他8名
  • Journal Title: J. Biol. Chem Volume: 286 Issue: 41 Pages: 35494
  • DOI: 10.1074/jbc.m111.279810
  • Peer Reviewed
• [Journal Article] Loss of ribosomal RNA modification causes developmental defects in zebrafish (2011)
  • Author(s): Higa-Nakamine S, Suzuki T (第2著者) 他7名
  • Journal Title: Nucleic Acids Research Volume: 40 Issue: 1 Pages: 391-398
  • DOI: 10.1093/nar/gkr700
  • Peer Reviewed
• [Journal Article] Human Mitochondrial tRNAs : Biogenesis, Function, Structural Aspects, and Diseases (2011)
  • Author(s): Suzuki T, Nagao A and Suzuki T
  • Journal Title: Annu. Rev. Genet Volume: 45 Issue: 1 Pages: 299-329
  • DOI: 10.1146/annurev-genet-110410-132531
  • Peer Reviewed
• [Journal Article] Deficit of tRNA(Lys) modification by Cdkall causes the development of type 2 diabetes in mice (2011)
  • Author(s): Wei FY., Suzuki T., Watanabe S., Kimura S., Kaitsuka T., Fujimura A., Matsui H., Atta M., Michiue H., Fontecave M., Yamagata K., Suzuki T., Tomizawa K.
  • Journal Title: The Journal of Clinical Investigation Volume: 121 Issue: 9 Pages: 3598-3608
  • DOI: 10.1172/jci58056
  • Peer Reviewed
• [Journal Article] Actin-binding protein ABP140 is a methyltransferase for 3-methylcytidine at position 32 of tRNAs in Saccharomyces cerevisiae (2011)
  • Author(s): Noma A, Yi S, Katoh T, Takai Y, Suzuki T and Suzuki T
  • Journal Title: RNA Volume: 17 Issue: 6 Pages: 1111-1119
  • DOI: 10.1261/rna.2653411
  • Peer Reviewed
• [Journal Article] Human mitochondrial diseases caused by lack of taurine-modification in mitochondrial tRNAs (2011)
  • Author(s): Suzuki T, Nagao A and Suzuki T
  • Journal Title: Wiley Interdiscip Rev RNA Volume: 2 Issue: 3 Pages: 376-386
  • DOI: 10.1002/wrna.65
  • Peer Reviewed
• [Journal Article] Molecular basis of dihydrouridine formation on tRNA (2011)
  • Author(s): Futao Yu, Yoshikazu Tanaka, Keitaro Yamashita, Takeo Suzuki, Akiyoshi Nakamura, Nagisa Hirano, Tsutomu Suzuki, Min Yao, Isao Tanaka
  • Journal Title: Proc Natl Acad Sci U S A. Volume: 108 Pages: 19593-19598
  • Peer Reviewed
• [Journal Article] Taurine-containing uridine modifications in tRNA anticodons are required to decipher non-universal genetic codes in ascidian mitochondria (2011)
  • Author(s): Takeo Suzuki, Kenjyo Miyauchi, Tsutomu Suzuki, Shin-ichi Yokobori, Naoki Shigi, Akiko Kondow, Nono Takeuchi, Akihiko Yamagishi, and Kimitsuna Watanabe
  • Journal Title: J. Biol. Chem. Volume: 286 Pages: 35494-8
  • Peer Reviewed
• [Journal Article] Loss of ribosomal RNA modification causes developmental defects in zebrafish (2011)
  • Author(s): Sayomi Higa-Nakamine, Takeo Suzuki, Tamayo Uechi, Anirban Chakraborty, Yukari Nakajima, Mikako Nakamura, Naoko Hirano, Tsutomu Suzuki and Naoya Kenmochi
  • Journal Title: Nucleic Acids Research. Volume: 40 Pages: 391-8
  • Peer Reviewed
• [Journal Article] Human Mitochondrial tRNAs: Biogenesis, Function, Structural Aspects, and Diseases. (2011)
  • Author(s): Tsutomu Suzuki, Asuteka Nagao and Takeo Suzuki
  • Journal Title: Annu. Rev. Genet. Volume: 45 Pages: 299-329
  • Peer Reviewed
• [Journal Article] Deficit of Lys-tRNA Modification by Cdkal1 Causes the Development of Type 2 Diabetes in Mice (2011)
  • Author(s): FY Wei, T Suzuki, S Watanabe, S Kimura, T Kaitsuka, A Fujimura, H Matsui, M Atta, H Michiue, M Fontecave, K Yamagata, T Suzuki and K Tomizawa
  • Journal Title: J. Clin. Invest. Volume: 121 Pages: 3598-608
  • Peer Reviewed
• [Journal Article] Actin-binding protein ABP140 is a methyltransferase for 3-methylcytidine at position 32 of tRNAs in Saccharomyces cerevisiae (2011)
  • Author(s): Akiko Noma, Sanghyun Yi, Takayuki Katoh, Yoshimi Takai, Takeo Suzuki and Tsutomu Suzuki
  • Journal Title: RNA Volume: 17 Pages: 1111-1119
  • Peer Reviewed
• [Journal Article] Human mitochondrial diseases caused by lack of taurine-modification in mitochondrial tRNAs (2011)
  • Author(s): Tsutomu Suzuki, Asuteka Nagao and Takeo Suzuki
  • Journal Title: WIREs RNA Volume: 2 Pages: 376-386
  • Peer Reviewed
• [Presentation] Characterization of Human Homologues of MnmE and GidA, Required for an xm5U-type Uridine Modification at the Wobble Position of Mitochondrial tRNAs (2011)
  • Author(s): Takeo Suzuki et al
  • Organizer: RNA2011Kyoto
  • Place of Presentation: Kyoto, Japan
• [Presentation] Base methylations in the double-stranded RNA by a fused methyltransferase bearing unwinding activity in ribosome assembly (2011)
  • Author(s): Satoshi Kimura，Yoshiho Ikeuchi，Kei Kitahara，Yuriko Sakaguchi，Takeo Suzuki，Tsutomu Suzuki
  • Organizer: MBSJ2011
  • Place of Presentation: Yokohama, Japan
• [Presentation] Native chemical structures of Escherichia coli tRNAs determined by mass spectrometric analysis (2011)
  • Author(s): Kenjyo Miyauchi，Satoshi Kimura，Yuriko Sakaguchi，Takeo Suzuki，Tsutomu Suzuki
  • Organizer: MBSJ2011
  • Place of Presentation: Yokohama, Japan
• [Presentation] The third pathway of tRNA export requires the retrograde import of precursor tRNA from cytoplasm to nucleus for its maturation in Saccharomyces cerevisiae (2011)
  • Author(s): Takayuki Ohira，Kenjyo Miyauchi，Yuriko Sakaguchi，Takeo Suzuki，Tsutomu Suzuki
  • Organizer: MBSJ2011
  • Place of Presentation: Yokohama, Japan
• [Presentation] The acetylation of 18S rRNA is an essential modification to synthesize the small subunit of ribosome in Saccharomyces cerevisiae (2011)
  • Author(s): Satoshi Ito，Yu Akamatsu，Akiko Noma，Satoshi Kimura，Yoshiho Ikeuchi，Kenjyo Miyauchi，Yoshikazu Tanaka，Isao Tanaka，Takeo Suzuki，Tsutomu Suzuki
  • Organizer: MBSJ2011
  • Place of Presentation: Yokohama, Japan
• [Presentation] Biochemical characterization of 40S intermediate in the assembly of 50S ribosomal subunit in Escherichia coli (2011)
  • Author(s): Taiga Arai, Satishi Kimura, Yuriko Sakaguchi, Takeo Suzuki and Tsutomu Suzuki
  • Organizer: MBSJ2011
  • Place of Presentation: Yokohama, Japan
• [Presentation] Crystal structure of dihydrouridine synthase in complex with RNA reveals its tRNA recognition and reaction mechanisms (2011)
  • Author(s): Yoshikazu Tanaka, Futao Yu, Keitaro Yamashita, Akiyoshi Nakamura, Takeo Suzuki, Nagisa Hirano, Tsutomu Suzuki, Min Yao, Isao Tanaka
  • Organizer: RNA2011Kyoto
  • Place of Presentation: Kyoto, Japan
• [Presentation] Base Methylations in the Double-stranded RNA by a Fused Methyltransferase Bearing Unwinding Activity (2011)
  • Author(s): Satoshi Kimura, Yoshiho Ikeuchi, Kei Kitahara, Yuriko Sakaguchi, Takeo Suzuki, Tsutomu Suzuki
  • Organizer: RNA2011Kyoto
  • Place of Presentation: Kyoto, Japan
• [Presentation] Necessity of tRNA introns for yeast growth (2011)
  • Author(s): Shunsuke Mori, Toshiya Endo, Takeo Suzuki, Tsutomu Suzuki, Tohru Yoshihisa
  • Organizer: RNA2011Kyoto
  • Place of Presentation: Kyoto, Japan
• [Presentation] In Vivo Reversal of a UV-induced Lesion on Mouse 28S rRNA (2011)
  • Author(s): Atsumi Miyata, Makoto Kitabatake, Takeo Suzuki, Tsutomu Suzuki, Tomoko Sakata, Yohei Kobayashi, Shin Yonehara, Mutsuhito Ohno
  • Organizer: RNA2011Kyoto
  • Place of Presentation: Kyoto, Japan
• [Presentation] Unique characteristics of ascidian mitochondrial tRNAs: Existence of 5-taurinomethyluridine-containing tRNAs involved in deciphering the non-universal genetic codes and an initiator tRNA corresponding to AUG codon (2011)
  • Author(s): Takeo Suzuki, Kenjyo Miyauchi, Shin-ichi Yokobori, Naoki Shigi, Akiko Kondow, Nono Takeuchi, Tsutomu Suzuki, Akihiko Yamagishi, Kimitsuna Watanabe
  • Organizer: RNA2011Kyoto
  • Place of Presentation: Kyoto, Japan
• [Presentation] Alternative pathway of tRNA maturation in Saccharomyces cerevisiae
  • Author(s): Takayuki Ohira, Kenjyo Miyauchi, Yuriko Sakaguchi, Takeo Suzuki, Tsutomu Suzuki
  • Organizer: The 24th tRNA conference
  • Place of Presentation: Olmue, Chile
• [Presentation] The acetylation of 18S rRNA is an essential modification to synthesize the small subunit of ribosome in Saccharomyces cerevisiae
  • Author(s): Satoshi Ito, Yu Akamatsu, Akiko Noma, Satoshi Kimura, Yoshiho Ikeuchi, Kenjyo Miyauchi, Yoshikazu Tanaka, Isao Tanaka, Takeo Suzuki, Tsutomu Suzuki
  • Organizer: The 9th International Conference on Ribosome Synthesis
  • Place of Presentation: Banff, Canada
• [Presentation] Insights into the functional role of the RlmE-mediated Um2552 formation in the late assembly of 50S subunit in Escherichia coli
  • Author(s): Taiga Arai, Satoshi Kimura, Yuriko Sakaguchi, Takeo Suzuki, Tsutomu Suzuki
  • Organizer: The 9th International Conference on Ribosome Synthesis
  • Place of Presentation: Banff, Canada