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Tokushima UniversityGraduate School of Technology, Industrial and Social SciencesDivision of Science and TechnologyNatural ScienceBiological Sciences
Tokushima UniversityFaculty of Science and TechnologyDepartment of Science and Technology自然科学コースBiological Sciences
Tokushima UniversityGraduate School of Sciences and Technology for InnovationScience and TechnologyNatural ScienceBiological Sciences
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Research

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Field of Study

Structural Biology, Molecular Biology, Biological Chemistry, Environmental Microbiology, Enzyme Chemistry

Subject of Study

核酸関連タンパク質の構造生命科学, 超好熱菌を用いた生命起源の研究, 構造解析を利用した機能化酵素の開発, 産業利用のための環境微生物探索 (アーキア(古細菌), 好熱菌, transcription, 転写後修飾, RNA, enzyme catalysis, protein, environmental biotechnology)

Book / Paper

Book:

1. Akira Hirata :
アーキア生物学 第5章「アーキアの遺伝情報伝達」,
KYORITSU SHUPPAN.CO.,LTD, Oct. 2017.

Academic Paper (Judged Full Paper):

1. Akira Hirata and Bunzo Mikami :
Structural insight into sugar-binding modes of microbial ß-amylase,
Biochemical and Biophysical Research Communications, Vol.733, No.12, 150695, 2024.
(Tokushima University Institutional Repository: 119614,   DOI: 10.1016/j.bbrc.2024.150695)
2. Shu Fujita, Yuzuru Sugio, Takuya Kawamura, Ryota Yagamai, Natsuhisa Oka, Akira Hirata, Takashi Yokogawa and Hiroyuki Hori :
ArcS from Thermococcus kodakarensis transfers L-lysine to preQ0 nucleoside derivatives as minimum substrate RNAs.,
The Journal of Biological Chemistry, Vol.300, No.8, 107505, 2024.
(Tokushima University Institutional Repository: 119492,   DOI: 10.1016/j.jbc.2024.107505,   PubMed: 38944122,   CiNii: 1050019590267928320,   Elsevier: Scopus)
3. Yoh Kohno, Asako Ito, Aya Okamoto, Ryota Yamagami, Akira Hirata and Hiroyuki Hori :
Escherichia coli tRNA (Gm18) methyltransferase (TrmH) requires the correct localization of its methylation site (G18) in the D-loop for efficient methylation.,
The Journal of Biochemistry, Vol.175, No.1, 43-56, 2024.
(DOI: 10.1093/jb/mvad076,   PubMed: 37844264)
4. Yu Nishida, Shiho Ohmori, Risa Kakizono, Kunpei Kawai, Miyu Namba, Kazuki Okada, Ryota Yamagami, Akira Hirata and Hiroyuki Hori :
Required Elements in tRNA for Methylation by the Eukaryotic tRNA (Guanine- N2-) Methyltransferase (Trm11-Trm112 Complex),
International Journal of Molecular Sciences, Vol.23, No.7, 2022.
(Tokushima University Institutional Repository: 116918,   DOI: 10.3390/ijms23074046,   PubMed: 35409407)
5. Yancheng Liu, Yuko Takagi, Milyadi Sugijanto, Kieu My Duong Nguyen, Akira Hirata, Hiroyuki Hori and C. Kiong Ho :
Genetic and Functional Analyses of Archaeal ATP-Dependent RNA Ligase in C/D Box sRNA Circularization and Ribosomal RNA Processing,
Frontiers in Molecular Biosciences, Vol.9, No.8, 811548, 2022.
(Tokushima University Institutional Repository: 116915,   DOI: 10.3389/fmolb.2022.811548,   PubMed: 35445080)
6. T Yokogawa, Y Nomura, A Yasuda, H Ogino, K Hiura, S Nakada, N Oka, K Ando, T Kawamura, Akira Hirata, H Hori and S Ohno :
Identification of a radical SAM enzyme involved in the synthesis of archaeosine,
Nature Chemical Biology, Vol.15, No.12, 1148-1155, 2019.
(DOI: 10.1038/s41589-019-0390-7,   PubMed: 31740832,   Elsevier: Scopus)
7. Akira Hirata, Keisuke Okada, Kazuaki Yoshii, Hiroyuki Shiraishi, Shinya Saijo, Kento Yonezawa, Nobutaka Shimizu and Hiroyuki Hori :
Structure of tRNA methyltransferase complex of Trm7 and Trm734 reveals a novel binding interface for tRNA recognition.,
Nucleic Acids Research, Vol.47, No.20, 10942-10955, 2019.
(DOI: 10.1093/nar/gkz856,   PubMed: 31586407,   Elsevier: Scopus)
8. Akira Hirata, Takeo Suzuki, Tomoko Nagano, Daijiro Fujii, Mizuki Okamoto, Manaka Sora, Todd M. Lowe, Tamotsu Kanai, Haruyuki Atomi, Tsutomu Suzuki and H Hori :
Distinct Modified Nucleosides in tRNATrp from the Hyperthermophilic Archaeon Thermococcus kodakarensis and Requirement of tRNA m2G10/m22G10 Methyltransferase (Archaeal Trm11) for Survival at High Temperatures,
Journal of Bacteriology, Vol.201, No.21, 2019.
(DOI: 10.1128/JB.00448-19,   PubMed: 31405913)
9. Ayano Kaneta, Kosuke Fujishima, Wataru Morikazu, Hiroyuki Hori and Akira Hirata :
The RNA-splicing endonuclease from the euryarchaeaon Methanopyrus kandleri is a heterotetramer with constrained substrate specificity.,
Nucleic Acids Research, Vol.46, No.4, 1958-1972, 2018.
(DOI: 10.1093/nar/gky003,   PubMed: 29346615,   Elsevier: Scopus)
10. Hirotaka Sugino, Takanori Usui, Tomohiro Shimada, Masahiro Nakano, Hiroshi Ogasawara, Akira Ishihama and Akira Hirata :
A structural sketch of RcdA, a transcription factor controlling the master regulator of biofilm formation.,
FEBS Letters, Vol.591, No.13, 2019-2031, 2017.
(DOI: 10.1002/1873-3468.12713,   PubMed: 28608551,   Elsevier: Scopus)
11. H Putra, H Yasuhara, N Kinoshita and Akira Hirata :
Optimization of Enzyme-Mediated Calcite Precipitation as a Soil-Improvement Technique: The Effect of Aragonite and Gypsum on the Mechanical Properties of Treated Sand,
Crystals, Vol.7, No.2, 59, 2017.
(Tokushima University Institutional Repository: 117737,   DOI: 10.3390/cryst7020059,   Elsevier: Scopus)
12. H Putra, H Yasuhara, N Kinoshita and Akira Hirata :
Application of magnesium to improve uniform distribution of precipitated minerals in 1-m column specimens,
Geomechanics and Engineering, Vol.12, No.5, 803-813, 2017.
(DOI: 10.12989/gae.2017.12.5.803,   Elsevier: Scopus)
13. Akira Hirata, Seiji Nishiyama, Toshihiro Tamura, Ayano Yamauchi and Hiroyuki Hori :
Structural and functional analyses of the archaeal tRNA m2G/m22G10 methyltransferase aTrm11 provide mechanistic insights into site specificity of a tRNA methyltransferase that contains common RNA-binding modules.,
Nucleic Acids Research, Vol.44, No.13, 6377-6390, 2016.
(DOI: 10.1093/nar/gkw561,   PubMed: 27325738,   Elsevier: Scopus)
14. Ryota Yamagami, Chie Tomikawa, Naoki Shigi, Ai Kazayama, Shin-Ichi Asai, Hiroyuki Takuma, Akira Hirata, Dominique Fourmy, Haruichi Asahara, Kimitsuna Watanabe, Satoko Yoshizawa and Hiroyuki Hori :
Folate-/FAD-dependent tRNA methyltransferase from Thermus thermophilus regulates other modifications in tRNA at low temperatures.,
Genes to Cells, Vol.21, No.7, 740-754, 2016.
(DOI: 10.1111/gtc.12376,   PubMed: 27238446,   Elsevier: Scopus)
15. Takuya Kawamura, Akira Hirata, Satoshi Ohno, Yuichiro Nomura, Tomoko Nagano, Nobukazu Nameki, Takashi Yokogawa and Hiroyuki Hori :
Multisite-specific archaeosine tRNA-guanine transglycosylase (ArcTGT) from Thermoplasma acidophilum, a thermo-acidophilic archaeon.,
Nucleic Acids Research, Vol.44, No.4, 1894-1908, 2015.
(DOI: 10.1093/nar/gkv1522,   PubMed: 26721388,   Elsevier: Scopus)
16. Hiroaki Kusuba, Takeshi Yoshida, Eri Iwasaki, Takako Awai, Ai Kazayama, Akira Hirata, Chie Tomikawa, Ryota Yamagami and Hiroyuki Hori :
In vitro dihydrouridine formation by tRNA dihydrouridine synthase from Thermus thermophilus, an extreme-thermophilic eubacterium,
The Journal of Biochemistry, Vol.158, No.6, 513-521, 2015.
(DOI: 10.1093/jb/mvv066,   PubMed: 26112661,   Elsevier: Scopus)
17. Hiroyuki Takuma, Natsumi Ushio, Masayuki Minoji, Ai Kazayama, Naoki Shigi, Akira Hirata, Chie Tomikawa, Anna Ochi and Hiroyuki Hori :
Substrate tRNA recognition mechanism of eubacterial tRNA (m1A58) methyltransferase (TrmI).,
The Journal of Biological Chemistry, Vol.290, No.9, 5912-5925, 2015.
(DOI: 10.1074/jbc.M114.606038,   PubMed: 25593312,   Elsevier: Scopus)
18. Sung-Hoon Jun, Akira Hirata, Tamotsu Kanai, Thomas J. Santangelo, Tadayuki Imanaka and Katsuhiko S. Murakami :
The X-ray crystal structure of the euryarchaeal RNA polymerase in an open-clamp configuration.,
Nature Communications, Vol.5, 5132, 2014.
(DOI: 10.1038/ncomms6132,   PubMed: 25311937,   Elsevier: Scopus)
19. Anna Ochi, Koki Makabe, Ryota Yamagami, Akira Hirata, Reiko Sakaguchi, Ya-Ming Hou, Kazunori Watanabe, Osamu Nureki, Kunihiro Kuwajima and Hiroyuki Hori :
The catalytic domain of topological knot tRNA methyltransferase (TrmH) discriminates between substrate tRNA and nonsubstrate tRNA via an induced-fit process.,
The Journal of Biological Chemistry, Vol.288, No.35, 25562-25574, 2013.
(DOI: 10.1074/jbc.M113.485128,   PubMed: 23867454,   Elsevier: Scopus)
20. Ryota Yamagami, Koki Yamashita, Hiroshi Nishimasu, Chie Tomikawa, Anna Ochi, Chikako Iwashita, Akira Hirata, Ryuichiro Ishitani, Osamu Nureki and Hiroyuki Hori :
The tRNA recognition mechanism of folate/FAD-dependent tRNA methyltransferase (TrmFO).,
The Journal of Biological Chemistry, Vol.287, No.51, 42480-42494, 2012.
(DOI: 10.1074/jbc.M112.390112,   PubMed: 23095745,   Elsevier: Scopus)
21. Akira Hirata, Kosuke Fujishima, Ryota Yamagami, Takuya Kawamura, Jillian F. Banfield, Akio Kanai and Hiroyuki Hori :
X-ray structure of the fourth type of archaeal tRNA splicing endonuclease: insights into the evolution of a novel three-unit composition and a unique loop involved in broad substrate specificity.,
Nucleic Acids Research, Vol.40, No.20, 10554-10566, 2012.
(DOI: 10.1093/nar/gks826,   PubMed: 22941657,   Elsevier: Scopus)
22. Lessner H. Faith, Jennings E. Matthew, Akira Hirata, Duin C. Eduardus and Lessner J. Daniel :
Subunit D of RNA Polymerase from Methanosarcina acetivorans Contains Two Oxygen-labile [4Fe-4S] Clusters IMPLICATIONS FOR OXIDANT-DEPENDENT REGULATION OF TRANSCRIPTION,
The Journal of Biological Chemistry, Vol.287, No.22, 18510-18523, 2012.
(DOI: 10.1074/jbc.M111.331199,   PubMed: 22457356,   Elsevier: Scopus)
23. Akira Hirata, Tsubasa Kitajima and Hiroyuki Hori :
Cleavage of intron from the standard or non-standard position of the precursor tRNA by the splicing endonuclease of Aeropyrum pernix, a hyper-thermophilic Crenarchaeon, involves a novel RNA recognition site in the Crenarchaea specific loop.,
Nucleic Acids Research, Vol.39, No.21, 9376-9389, 2011.
(DOI: 10.1093/nar/gkr615,   PubMed: 21846775,   Elsevier: Scopus)
24. Takako Awai, Anna Ochi, (名) Ihsanawati, Toru Sengoku, Akira Hirata, Yoshitaka Bessho, Shigeyuki Yokoyama and Hiroyuki Hori :
Substrate tRNA recognition mechanism of a multisite-specific tRNA methyltransferase, Aquifex aeolicus Trm1, based on the X-ray crystal structure.,
The Journal of Biological Chemistry, Vol.286, No.40, 35236-35246, 2011.
(DOI: 10.1074/jbc.M111.253641,   PubMed: 21844194,   Elsevier: Scopus)
25. Kazuo Ishida, Takashi Kunibayashi, Chie Tomikawa, Anna Ochi, Tamotsu Kanai, Akira Hirata, Chikako Iwashita and Hiroyuki Hori :
Pseudouridine at position 55 in tRNA controls the contents of other modified nucleotides for low-temperature adaptation in the extreme-thermophilic eubacterium Thermus thermophilus.,
Nucleic Acids Research, Vol.39, No.6, 2304-2318, 2010.
(DOI: 10.1093/nar/gkq1180,   PubMed: 21097467,   Elsevier: Scopus)
26. Hiroshi Nishimasu, Ryuichiro Ishitani, Koki Yamashita, Chikako Iwashita, Akira Hirata, Hiroyuki Hori and Osamu Nureki :
Atomic structure of a folate/FAD-dependent tRNA T54 methyltransferase.,
Proceedings of the National Academy of Sciences of the United States of America, Vol.106, No.20, 8180-8185, 2009.
(DOI: 10.1073/pnas.0901330106,   PubMed: 19416846,   Elsevier: Scopus)
27. Akira Hirata, Tamotsu Kanai, Thomas T Santangelo, Momoko Tajiri, kenji Manabe, John N. Reeve, Tadayuki Imanaka and Katsuhiko S. Murakami :
Archaeal RNA polymerase subunits E and F are not required for transcription in vitro, but a Thermococcus kodakarensis mutant lacking subunit F is temperaturesensitive,
Molecular Microbiology, Vol.70, No.3, 623-633, 2008.
(DOI: 10.1111/j.1365-2958.2008.06430.x,   PubMed: 18786148,   Elsevier: Scopus)
28. Akira Hirata, Brianna J. Klein and Katsuhiko S. Murakami :
The X-ray crystal structure of RNA polymerase from Archaea.,
Nature, Vol.451, No.7180, 851-854, 2008.
(DOI: 10.1038/nature06530,   PubMed: 18235446,   Elsevier: Scopus)
29. Akira Hirata, Motoyasu Adachi, Shigeru Utsumi and Bunzo Mikami :
Engineering of the pH optimum of Bacillus cereus beta-amylase: conversion of the pH optimum from a bacterial type to a higher-plant type.,
Biochemistry, Vol.43, No.39, 12523-12531, 2004.
(DOI: 10.1021/bi049173h,   PubMed: 15449941,   Elsevier: Scopus)
30. Akira Hirata, Motoyasu Adachi, Atsushi Sekine, You-Na Kang, Shigeru Utsumi and Bunzo Mikami :
Structural and enzymatic analysis of soybean beta-amylase mutants with increased pH optimum.,
The Journal of Biological Chemistry, Vol.279, No.8, 7287-7295, 2003.
(DOI: 10.1074/jbc.M309411200,   PubMed: 14638688,   Elsevier: Scopus)
31. HJ Yoon, Akira Hirata, M Adachi, A Sekine, S Utsumi and B Mikami :
Structure of the Starch-Binding Domain of Bacillus cereus β-Amylase,
Journal of Microbiology and Biotechnology, Vol.9, No.5, 619-623, 1999.
(Elsevier: Scopus)

Academic Paper (Unrefereed Paper):

1. T Kitajima, Akira Hirata and H Hori :
Enzymatic and Crystallographic Characterization of Archaeal tRNA Splicing Endonuclease,
IEEE: Micro-NanoMechatronics and Human Science, 231-236, 2009.
(DOI: 10.1109/MHS.2009.5352027)
2. B Mikami, YN Kang, Akira Hirata and S Utsumi :
Distored sugar ring in the active site of β-amylase.,
Acta Crystallographica Section A Foundations of Crystallography, Vol.60, No.a1, 171, 2004.
(DOI: 10.1107/S0108767304096618)

Review, Commentary:

1. Hori Hiroyuki, Akira Hirata, Ueda Takuya, Watanabe Kimitsuna, Tomikawa Chie and Tomita Kozo :
Transfer RNA Synthesis and Regulation,
Encyclopedia of Life Sciences, Nov. 2021.
(DOI: 10.1002/9780470015902.a0029358)
2. 三上 文三, 安達 基泰, 水谷 公彦, 高橋 延行, 姜 有那, Akira Hirata, 山根 愛子, 坂 直樹, 河村 広和, 候 雪妮 and 森 湖太郎 :
[Review] Crystal Structure Analysis of β-Amylase/Saccharide Complexes Measured at Different pH and Room Temperature.,
Bulletin of Applied Glycoscience, Vol.11, No.2, 79-86, May 2021.
(DOI: 10.5458/bag.11.2_79,   CiNii: 1390854717506689280)
3. Akira Hirata :
X-Ray Structure of the tRNA Methyltransferase Complex of Trm7 and Trm734 from Saccharomyces cerevisiae,
Photon Factory Highlights 2019, 48-49, Oct. 2020.
4. Akira Hirata :
Recent Insights Into the Structure, Function, and Evolution of the RNA-Splicing Endonucleases.,
Frontiers in Genetics, Vol.10, 103, Feb. 2019.
(Tokushima University Institutional Repository: 115256,   DOI: 10.3389/fgene.2019.00103,   PubMed: 30809252,   Elsevier: Scopus)
5. Hiroyuki Hori, Takuya Kawamura, Takako Awai, Anna Ochi, Ryota Yamagami, Chie Tomikawa and Akira Hirata :
Transfer RNA Modification Enzymes from Thermophiles and Their Modified Nucleosides in tRNA.,
Microorganisms, Vol.6, No.4, Oct. 2018.
(Tokushima University Institutional Repository: 117745,   DOI: 10.3390/microorganisms6040110,   PubMed: 30347855)
6. Akira Hirata :
Elucidation of structural basis for the molecular machineries responsible for RNA synthesis and processing from Archaea,
極限環境生物学会誌 = Journal of Japanese Society for Extremophiles, Vol.14, No.1, 3-8, Sep. 2015.
(CiNii: 1520290884802088960)
7. Hori Hiroyuki, Tomikawa Chie, Akira Hirata, Toh Yukimatsu, Tomita Kozo, Ueda Takuya and Watanabe Kimitsuna :
Transfer RNA Synthesis and Regulation.'' Encyclopedia in Life Science,
Wiley Inter-express, Sep. 2014.
(DOI: 10.1002/9780470015902.a0000529.pub3)
8. Akira Hirata :
微生物も免疫力がつく,
Seibutsu-kogaku Kaishi, Vol.92, 29, Jan. 2014.
(CiNii: 1540572720312134784)
9. Akira Hirata and Katsuhiko S. Murakami :
Archaeal RNA polymerase.,
Current Opinion in Structural Biology, Vol.19, No.6, 724-731, Oct. 2009.
(DOI: 10.1016/j.sbi.2009.10.006,   PubMed: 19880312,   Elsevier: Scopus)
10. Akira Hirata :
Archaeal transcriptional machinery,
Seikagaku, Vol.81, No.5, 377-381, May 2009.
(PubMed: 19522293,   CiNii: 1520572358500453120,   Elsevier: Scopus)

Proceeding of International Conference:

1. Hori Hiroyuki, Yamagami Ryota, Ishida Kazuo, Takuma Hiroyuki, Kusuba Hiroaki, Akira Hirata, Ochi Anna, Iwashita Chikako and Tomikawa Chie :
Regulatory Factors for tRNA modifications in Thermus thermophilus,
International Workshop on Neotechnologies for ThermusQ initiative, Oct. 2023.
2. Akira Hirata, T Suzuki, T Nagano, D Fuji, M Okamoto, M Sora, T M. Lowe, T Kanai, H Atomi, T Suzuki and H Hori :
Analysis of distinct modified nucleosides in tRNA from the hyperthermophilic archaeon Thermococcous kodakarensis provides insight into the requirement of specific tRNA modifications and their responsible genes for survival at high temperatures,
Thrmophiles2019, Fukuoka, Sep. 2019.
3. A Kaneta, K Fujishima, W Morikazu, H Hori and Akira Hirata :
The RNA-splicing endonuclease from the Euryarchaea Methanopyrus kandleri uniquely represents a heterodimer with constraint range of substrate specificity: Supporting the coevolutionary scenario of protein function and tRNA gene diversity,
Extremophiles2018, Italy, Sep. 2018.
4. Akira Hirata, K Okada, K Yoshii, H Shiraishi, S Saijo, K Yonezawa, N Shimizu and H Hori :
Structure of yeast tRNA Nm34 methyltransferase Trm7-Trm734 complex reveals its novel bipartite interaction essential for 2'-O-methylation of N34 in the wobble position of three specific tRNA species,
27th tRNA Conference, Strasbourg, Sep. 2018.
5. T Kawamura, Akira Hirata, S Ohno, Y Nomura, T Nagano, N Nameki, T Yokogawa and H Hori :
Multisite-specific archaeosine tRNA-guanine transglycosylase (ArcTGT) from Thermoplasma acidophilum, a thermo-acidophilic archaeon,
26th tRNA Conference, korea, Sep. 2016.
6. Akira Hirata, S Nishiyama, T Tamura, A Yamauchi and H Hori :
Structural and functional analyses reveal mechanistic insight into a site specificity of the archaeal tRNA m2G/m22G10 methyltransferase (aTrm11),
Extremophiles2016, Kyoto, Sep. 2016.
7. Akira Hirata, S Nishiyama, T Tamura, A Yamauchi and H Hori :
Structural and founctional analyses reveal mechanistic insight into a site specificity of the archaeal tRNA methyltransferase,,
RNA2016, Kyoto, Jun. 2016.
8. H Takuma, N Ushio, M Minoji, A Kazayama, N Shigi, Akira Hirata, C Tomikawa, A Ochi and H Hori :
Substrate tRNA recognition mechanism of eubacterial tRNA (m1A58) methyltransferase (TrmI),
RNA2016, Kyoto, Jun. 2016.
9. R Yamagami, C Tomikawa, N Shigi, A Kazayama, S Asai, H Takuma, Akira Hirata, D Fourmy, H Asahara, K Watanabe, S Yoshizawa and H Hori :
The folate-dependent tRNA methyltransferase (TrmFO) relates to the adaptation at low-temperature environment and regulates methyl group metabolism in Thermus thermophilus,
Thermophiles2015, Chili, Aug. 2015.
10. T Kawamura, Akira Hirata, S Ohno, Y Nomura, T Nagano, N Nameki, T Yokogawa and H Hori :
Multisite-specific archaeosine tRNA-guanine transglycosidase from Thermoplasma acidophilum,,
Thermophiles2015, Chili, Aug. 2015.
11. Akira Hirata, SH Jun, T Kanai, TJ Santangelo, T Imanaka and KS Murakami :
X-ray crystal structure of euryarchaeal RNA polymerase (RNAP) from a hyperthermophilic archaeon Thermococcus kodakarensis: Insights into the molecular evolution of the archaeal/eukaryotic RNAP and molecular mechanism underlying the clamp-open state in the pre-initiation complex,
Thermophiles2015, Chili, Aug. 2015.
12. A Ochi, K Makabe, R Yamagami, Akira Hirata, R Sakaguchi, Y-M Hou, K Watanabe, O Nureki, K Kuwajima and H Hori :
Topological knot tRNA methyltransferase (TrmH) discriminates substrate tRNA from non-substrate tRNA by a multistep recognition mechanism,
25th tRNA conference, Greek, Sep. 2014.
13. Akira Hirata, K Fujishima, R Yamagami, T Kawamura, JF Banfiled, A Kanai and H Hori :
X-ray crystal structure of the fourth type of tRNA splicing endonuclease from an uncultivated archaeon Candidatus Micrarchaeum acidiphilum (ARMAN-2),
Thermophiles2013, Germany, Sep. 2013.
14. Akira Hirata :
Structural and functional diversity of the RNA polymerases from Archaea,
CGM seminar, France, Sep. 2012.
15. Akira Hirata :
Structural and functional diversity of the RNA polymerases from Archaea,
Invited seminar in University of Paris 5, Paris, Sep. 2012.
16. R Yamagami, H Yamashita, C Nishimasu, A Tomikawa, A Ochi, C Iwashita, Akira Hirata, R Ishitani, O Nureki and H Hori :
Transfer RNA recognition mechanism of Thermus thermophilus folate/FAD-dependent tRNA methyltransferase (TrmFO),
Extremohpiles2012, Spain, Sep. 2012.
17. Akira Hirata, K Fujishima, R Yamagami, T Kawamura, JF Banfiled, A Kanai and H Hori :
Structural insight into the evolution and broad substrate specificity of the fourth type of tRNA splicing endonuclease,
Extremohpiles2012, Spain, Sep. 2012.
18. H Takuma, M Minoji, N Ushio, C Tomikawa, Akira Hirata, A Ochi and H Hori :
Substrate tRNA recognition mechanism of eubacterial tRNA (m1A58) methyltransferase (TrmI),
The 38th international Symposium on Nucleic Acids Chemistry, 北海道, Nov. 2011.
19. T Awai, A Ochi, T Ihsannawati, S Sengoku, S Kimura, C Tomikawa, T Yokogawa, Akira Hirata, T Bessho, T Suzuki, S Yokoyama and H Hori :
Multisite specific tRNA methyltransferase Trm1 from a hyper-thermophilic eubacterium, Aquifex aeolicus,
Thermophiles2011, Montana, Sep. 2011.
20. Akira Hirata, T Kitajima and H Hori :
Molecular mechanism for the broad substrate specificity of Crenarchaeal RNA splicing endonuclease,
Thermophiles2011 United States, Sep. 2011.
21. FH Lessner, A Jennings, Akira Hirata, EC Duin and DJ Lessner :
Methanosarcina acetivorans RNA polymerase subunit D contains two oxygen-labile [4Fe-4S] clusters which impact the stability of the D/L heterodimer assembly complex,
Gordon research conference, Italy, Jul. 2011.
22. T Nagano, Akira Hirata, Y Ishimaru, A Kanai and H Hori :
Structural and functional analyses of archaeal 2´-5´ RNA ligase,
Thermophiles2011, Montana, Jul. 2011.
23. R Yamagami, K Yamashita, C Nishimasu, C Iwashita, Akira Hirata, O Nureki and H Hori :
Substrate tRNA recognition mechanism of FAD/folate-dependet tRNA m5U54 methyltransferase TrmFO,
16th Annual Meeting of RNA society, Kyoto, Jun. 2011.
24. C Tomikawa, K Ishida, T Kunibayashi, A Ochi, T Kanai, Akira Hirata, C Iwashita and H Hori :
Regulation of tRNA modification network by pseudouridine 55 in Thermus thermophiles,
16th Annual Meeting of RNA society, Kyoto, Jun. 2011.
25. A Awai, A Ochi, (名) Ihsanawati, Akira Hirata, Y Bessho, S Yokoyama and H Hori :
Transfer RNA recognition mechanism of multi-site specific tRNA methyltransferase (Trm1) from Aquifex aeolicu,
16th Annual Meeting of RNA society, Kyoto, Jun. 2011.
26. Akira Hirata, T Kitajima and H Hori :
A conserved Lys residue in Crenarchaea specific loop determines a broad substrate specificity of Crenarchaeal RNA splicing endonuclease,
16th Annual Meeting of RNA society, Kyoto, Jun. 2011.
27. M Okuda, T Kitajima, T Shiba, Akira Hirata, DK Inaoka, K Kita, G Kurisu, S Harada, H Hori, YI Watanabe and S Yoshinari :
Crystal structure of a splicing endonuclease from Crenarchaeaon Aeropyrum pernix,
The 15th Annual meeting of RNA society, United States, Jun. 2010.
28. H Hori, T Awai, T Toyooka, C Tomikawa, H Okamoto, H Takeda, K Watanabe, A Ochi, Akira Hirata, S Kimura, Y Ikeuchi, T Yokogawa and T Suzuki :
Transfer RNA methyltransferase from a Hyperthermophilic Eubacterium, --- Aquifex aeolicus ---,
23th tRNA conference, Portugal, Jan. 2010.
29. H Nishimasu, R Ishitani, K Yamashita, C Iwashita, Akira Hirata, H Hori and O Nureki :
Atomic structure of a folate/FAD-dependent tRNA T54 methyltransferase,
23th tRNA conference, Portugal, Jan. 2010.
30. Akira Hirata, A Ochi, C Tomikawa, T Kitajima, T Kanai and H Hori :
Characterization of TrmJ [Transfer RNA (Cm32/Um32) Methyltransferase,
23th tRNA conference, Portugal, Jan. 2010.
31. T Kitajima, Akira Hirata and H Hori :
Enzymatic and Crystallographic Characterization of Archaeal tRNA Splicing Endonuclease,
2009 International Symposium on Micro-NanoMechatronics and Human Science, 231-236, Nagoya, Nov. 2009.
(DOI: 10.1109/MHS.2009.5352027,   Elsevier: Scopus)
32. Bunzo Mikami, You-Na Kang, Akira Hirata and Shigeru Utsumi :
Distorted Sugar Ring in the Active Site of Soybean β-Amylase,
Acta crystallographica. Section A, Foundations of crystallography, Vol.A60, S171, Aug. 2004.
(DOI: 10.1107/S0108767304096618)
33. B Mikami, YN Kang, Akira Hirata and S Utsumi :
Distored sugar ring in the active site of β-amylase,
The 22nd European Crystallography Meeting, Hungary, Aug. 2004.

Proceeding of Domestic Conference:

1. Kurumi IKUSHIMA, Miki SAKURAI, 藤田 柊, 杉尾 譲, 河村 卓哉, 山上 龍太, 増田 太郎, 岡 夏央, 横川 隆志, 堀 弘幸 and Akira Hirata :
アーケオシン合成におけるLys転移酵素ArcSのX線結晶構造,
第36回日本Archaea研究会, Jul. 2024.
2. NI JUNHAO, 金井 保, 福岡 香里, 杉野 洋誉, 堀 弘幸 and Akira Hirata :
アーキア転写制御因子Tgrのマルトトリオース認識機構,
第36回日本Archaea研究会, Jul. 2024.
3. 宮田 侑奈, 河村 卓哉, 山上 龍太, 堀 弘幸 and Akira Hirata :
極小アーキアARMAN-2 tRNAイントロン切断酵素ε₂ EndAの触媒反応機構,
第36回日本Archaea研究会, Jul. 2024.
4. 藤田 柊, 杉尾 譲, 河村 卓哉, 山上 龍太, 岡 夏央, Akira Hirata, 横川 隆志 and 堀 弘幸 :
アーケオシン合成系第二段階目酵素・ArcSの基質RNA特異性,
第36回日本Archaea研究会, Jul. 2024.
5. 松田 哲平, 山上 龍太, 鈴木 健夫, Akira Hirata and 堀 弘幸 :
Thermococcus kodakarensis のtRNAの6位を2'-O-メチル化する新規tRNAメチル化酵素の発見,
第36回日本Archaea研究会, Jul. 2024.
6. Sugio Yuzuru, Yamasaki Sota, Ueda Junya, Isogai Ryo, Matsumoto Natsumi, Hayashi Minoru, Yamagami Ryota, Akira Hirata, Tomikawa Chie, Yokogawa Takashi and Hori Hiroyuki :
The third biosynthesis pathway of 4-thiouridine in tRNA,
第25回日本RNA学会年会, Jun. 2024.
7. Fujita Shu, Sugio Yuzuru, Kawamura Takuya, Yamgami Ryota, Oka Natsuhida, Akira Hirata, Yokogawa Takashi and Hori Hiroyuki :
Lysine-transfer reaction by the complex of ArcS and RaSEA for archaeosine biosynthesis in tRNA,
第25回日本RNA学会年会, Jun. 2024.
8. Kawai Kumpei, Norioto Go, Matsuda Teppei, Manaka Sora, Yamagami Ryota, Akira Hirata and Hori Hiroyuki :
Characterization of tRNA methyltransferase Trm14 from a hyper-thermophilic archaeon, Thermococcus kodakarensis,
第46回日本分子生物学会年会, Dec. 2023.
9. Fujita Shu, Sugio Yuzuru, Kawamura Takuya, Yamagami Ryota, Oka Natsuhisa, Akira Hirata, Yokogawa Takashi and Hori Hiroyuki :
ArcS-RaSEA複合体によるLys転移反応の生化学解析,
第46回日本分子生物学会年会, Dec. 2023.
10. Junji Hayashi, Ryushi Kawakami, Akira Hirata, Kaori Kanemaru, 大島 敏久 and 櫻庭 春彦 :
超好熱アーキア由来FAD依存性D-乳酸脱水素酵素のX線結晶構造解析,
日本農芸化学会中四国支部会2023年度中四国・西日本支部合同大会, Sep. 2023.
11. Fujita Shu, Sugio Yuzuru, Kawamura Takuya, Yamagami Ryota, Oka Natsuhisa, Akira Hirata, Yokogawa Takashi and Hori Hiroyuki :
Lysine-transfer reaction by the complex of ArcS and RaSEA for archaeosine biosynthesis in tRNA,
第24回日本RNA学会年会, Jul. 2023.
12. 杉尾 譲, 山崎 颯太, 上田 隼也, 磯貝 亮, 松本 奈津美, 林 実, 山上 龍太, Akira Hirata, 冨川 千恵, 河村 卓哉 and 堀 弘幸 :
第3のtRNA 4-チオウリジン合成経路をThermoplasma acidophilumは持つ,
第35回日本Archaea研究会, Jul. 2023.
13. 藤田 柊, 杉尾 譲, 河村 卓哉, 山上 龍太, 岡 夏央, Akira Hirata, 横川 隆志 and 堀 弘幸 :
ArcS-RaSEA 複合体によるリジン転移反応の解析,
第64回日本生化学会・中国四国支部例会, May 2023.
14. 松田 哲平, 山上 龍太, 鈴木 建夫, Akira Hirata and 堀 弘幸 :
tRNAの6位を2'-O-メチル化する新規 tRNAメチル化酵素の発見,
第64回日本生化学会・中国四国支部例会, May 2023.
15. 河合 薫平, 野利本 剛, 空 磨奈伽, 山上 龍太, Akira Hirata and 堀 弘幸 :
超好熱性アーキアThermococcus kodakarensisにおけるtRNAメチル化酵素Trm14の性質の解明,
第45回日本分子生物学会年会, Dec. 2022.
16. Liu Yancheng, Takagi Yuko, Sugijianto Milyadi, Nguyen Doung My Ken, Akira Hirata, Hori Hiroyuki and Ho Kiong :
Archaeal ATP-Dependent RNA Ligase Plays a Role in C/D Box sRNA Circularization and Ribosomal RNA Processing,
第23回日本RNA学会年会, Jul. 2022.
17. Kawai Kumpei, Nishida Yu, Ohomori Shiho, Kakizono Risa, Namba Miyu, Okada Kazuki, Yamagami Ryota, Akira Hirata and Hori Hiroyuki :
Required Elements in tRNA for Methylation by the Eukaryotic tRNA (Guanine-N2-) Methyltransferase (Trm11-Trm112 Complex),
第23回日本RNA学会年会, Jul. 2022.
18. Akira Hirata :
アーキアRNAスプライシング酵素の構造と機能に関する研究~タンパク質とRNAの共進化の仕組み~,
第145回徳島生物学会, Jan. 2022.
19. 野利本 剛, 空 磨奈伽, Akira Hirata and 堀 弘幸 :
超好熱性アーキアThermococcus kodakarensis由来tRNA m2G6 メチル化酵素Trm14の 幅広い基質特異性,
第44回日本分子生物学会年会, Dec. 2021.
20. 横川 隆志, 能村 友一朗, 安田 旭宏, 尾木野 弘実, 日浦 恵太, 仲田 沙織, 岡 夏央, 安藤 香織, 河村 卓哉, Akira Hirata, 堀 弘幸 and 大野 敏 :
アーキア特異的修飾ヌクレオシド, アーケオシンの生合成,
第33回日本Archaea研究会講演会, Jul. 2021.
21. 野利本 剛, 空磨奈 伽, Akira Hirata and 堀 弘幸 :
超好熱性アーキア Thermococcus kodakarensis 由来 tRNA メチル化酵素 Trm14 の機能解明 について,
第33回日本Archaea研究会, Jul. 2021.
22. Akira Hirata :
超好熱菌由来タンパク質の構造と機能に関する研究 ~遺伝情報を伝達する仕組みから生命進化の痕跡を探る~,
第144回徳島生物学会, Jan. 2021.
23. 堀 弘幸, 福本 修平, 長谷川 貴洋, 難波 実優, Akira Hirata and 河村 卓哉 :
SpoU-TrmD RNAメチル化酵素スーパーファミリーで,最も長いC末領域を持つTrm56の新しい精製法,
第43回日本分子生物学会年会, Dec. 2020.
24. 野利本 剛, 空 磨奈加, Akira Hirata and 堀 弘幸 :
超好熱性アーキアThermococcus kodakarensis由来tRNA m2G6 メチル化酵素Trm14の 新たな部位特異性,
第43回日本分子生物学会年会, Dec. 2020.
25. Akira Hirata :
(超)好熱性アーキアのRNA修飾の研究,
微生物ウィーク2019 好熱菌研究最前線シンポジウ ム, Jul. 2019.
26. Akira Hirata, K Okada, K Yoshii, H Shiraishi, S Saijo, K Yonezawa, N Simizu and H Hori :
Structure of tRNA methyltransferase complex of Trm7 and Trm734 provides insight into its novel bipartite interaction essential for tRNA recognition and 2´-O-methylation at the first position of anticodon in specific tRNAs.,
第21回日本RNA学会年会, Jul. 2019.
27. 日浦 恵太, 能村 友一朗, 安田 旭宏, 大野 敏, 尾木野 弘実, 河村 卓哉, Akira Hirata, 堀 弘幸 and 横川 隆志 :
Methanosarcina acetivoransにおける修飾ヌクレオシドアーケオシン生合成経路の解明,
第41回日本分子生 物学会年会, Nov. 2018.
28. 河野 陽, 伊藤 亜沙子, 山上 龍太, Akira Hirata and 堀 弘幸 :
大腸菌tRNA (Gm18) メチル化酵素(TrmH)の基質 tRNA選択システム,
第20回日本RNA学会年会, Jul. 2018.
29. Akira Hirata, 岡田 圭祐, 吉井 一晃, 白石 裕之, 西條 慎也, 米澤 健人, 清水 伸隆 and 堀 弘幸 :
真核 生物tRNAメチル化酵素 Trm7-Trm734複合体の活性発現メカニズムの構造基盤,
2017年度生命科学系学会合 同年次大会 (ConBio2017), Dec. 2017.
30. 臼井 孝典, 金井 保, 跡見 晴幸, 堀 弘幸 and Akira Hirata :
芳香族アミノ酸の生合成遺伝子群の発現を制御する ア ーキア転写活性化因子(Tar)の分子認識機構の解明,
第18回極限環境生物学会年会, Nov. 2017.
31. 小西 智也, 金井 保, 跡見 晴幸, 堀 弘幸 and Akira Hirata :
アーキアRNAポリメラーゼの 転写活性化型開始複合 体の構造解析に向けての準備状況,
第18回極限環境生物学会年会, Nov. 2017.
32. Akira Hirata :
超好熱性アーキアのtRNA修飾,特にメチル化修飾は高温環境下の生育にとって必須である,
第 30回日本Archaea研究会, Sep. 2017.
33. Akira Hirata :
tRNA成熟化機構に見られるアーキアの生存戦略,
環境微生物系学会合同大会2017シンポジウ ム, Aug. 2017.
34. 伊藤 亜沙子, 山上 龍太, 河野 陽, Akira Hirata and 堀 弘幸 :
大腸菌tRNA(Gm18)メチル化酵素(TrmH)のX線結晶 構造とその基質tRNA選択システム,
第19回日本RNA学会年会, Jul. 2017.
35. Y Liu, Y Takagi, Akira Hirata, H Hori, KS Murakami and K Ho :
Archaea RNA Ligase is Required for Circularizing Small Non-Coding RNA,
第19回日本RNA学会年会, Jul. 2017.
36. 山内 綾乃, Akira Hirata, 前田 雄太 and 堀 弘幸 :
超好熱性アーキアThermococcus kodakarensis KOD1由来 RNA m5C修飾酵素の構造機能解析,
第17回極限環境生物学会年会, Nov. 2016.
37. 金田 綾乃, 森数 渉, 堀 弘幸 and Akira Hirata :
超好熱性アーキアMethanopyrus kandleri由来tRNA スプライ シングエンドヌクレアーゼの基質認識に関する研究,
第17回極限環境生物学会年会, Nov. 2016.
38. Akira Hirata :
RNA成熟マシナリーの構造と機能の解明,
日本農芸化学会中四国支部 支部創立15 周年記念第24回若手シンポジウム, Jul. 2016.
39. 伊藤 亜沙子, 山上 龍太, Akira Hirata and 堀 弘幸 :
tRNA(Gm18)メチル化酵素(TrmH)のX線結晶構造とその基質tRNA 認識機構,
第29回日本Archaea研究会, Jul. 2016.
40. Akira Hirata, 西山 聖示, 田村 俊浩, 山内 綾乃 and 堀 弘幸 :
アーキアtRNA (m2G10/m22G10) メチル基転移 酵素arcTrm11の基質認識機構に関する研究,
第29回日本Archaea研究会, Jul. 2016.
41. Akira Hirata :
RNA関連酵素の構造機能解析による生命進化の解明と抗菌薬シード開発への挑戦,
Jun. 2016.
42. Akira Hirata, 西山 聖示, 田村 俊浩, 山内 綾乃 and 堀 弘幸 :
アーキア由来tRNAm2G10/m22G10メチル化酵 素arcTrm11のX線結晶構造 ∼tRNA修飾酵素の部位特異性を決定している共通基本原理の統一的理解∼,
第 38回日本分子生物学会・第88回日本生化学会合同年会, Dec. 2015.
43. 岡田 圭祐, 吉井 一晃, Akira Hirata and 堀 弘幸 :
真核微生物由来tRNA(Gm34)メチル化酵素Trm7-Trm734の構造機 能解析,
第38回日本分子生物学会・第88回日本生化学会合同年会, Dec. 2015.
44. Akira Hirata :
アーキアのRNA合成・編集加工を担う分子装置の構造基盤の解明,
第15回極限 環境生物学会年会 研究奨励賞シンポジウム, Nov. 2014.
45. Akira Hirata :
ユーリアーキアRNAポリメラーゼのX線結晶構造から視えた真核生物RNAポリメラーゼII構造 の進化,
第37回日本分子生物学会年会 シンポジウム, Nov. 2014.
46. Akira Hirata :
アーキア(古細菌)RNAポリメラ―ゼの構造と機能の多様性,
第35回日本分子 生物学会年会シンポジウム, Nov. 2012.
47. Akira Hirata :
アーキア(古細菌)由来RNAポリメラーゼの鉄硫黄クラスターは酸化ストレス下の遺伝子発 現制御に関与しているか?,
第82回日本生化学大会 金属・小分子ネットワークによる遺 伝情報発現制御シンポジウム, Oct. 2009.

Grants-in-Aid for Scientific Research (KAKEN Grants Database @ NII.ac.jp)

  • 酵素タンパク質複合体形成による二機能性触媒反応メカニズムの構造基盤 (Project/Area Number: 24K09352 )
  • Study on substrate tRNA recognition mechanisms of multiple subunit tRNA modification enzymes (Project/Area Number: 20H03211 )
  • Elucidation of thermotolerant mechanism of the RNA essential for life activity under high-temperature environment (Project/Area Number: 18K06088 )
  • アーキアの転写装置を利用した多段階転写反応の動的メカニズムの解明 (Project/Area Number: 15H01357 )
  • Elucidation of dynamic-molecular recognition mechanism by the dimeric RNA maturation enzymes (Project/Area Number: 15K06975 )
  • アーキア(古細菌)RNAポリメラーゼにおける転写開始機構および転写調節機構の解明 (Project/Area Number: 25118516 )
  • Elucidation of mechanism of molecular dynamics recognition by RNA machineries involved in the thermostable RNA maturation (Project/Area Number: 24770125 )
  • Structural basis and functional evolution of RNA maturation machinary (Project/Area Number: 23350081 )
  • RNA修飾酵素の基質認識機構の統一的パラダイムの構築 (Project/Area Number: 21770145 )
  • Search by Researcher Number (60527381)