論文

• Eriko Nango, Takashi Yamamoto, Takashi Kumasaka, Tadashi Eguchi. Structure of Thermus thermophilus Homoisocitrate Dehydrogenase in Complex with a Designed Inhibitor, J. Biochem., Vol. 150, No. 6, pp. 607-614, Dec. 2011.
• Takeshi Hoshino, Eriko Nango, Seiki Baba, Tadashi Eguchi, Takashi Kumasaka. Crystallization and Preliminary X-ray Analysis of Isopentenyl Diphosphate Isomerase from Methanocaldococcus jannaschii, Acta Cryst., Vol. F67, No. 1, pp. 101-103, Jan. 2011.
• R. Yazawa, J. Takakura, Tomoko Sakata, Ihsanawati, R. Yatsunami, T. Fukui, T. Kumasaka, Nobuo Tanaka, Satoshi Nakamura. A calcium-dependent xylan-binding domain of alkaline xylanase from alkaliphilic Bacillus sp. strain 41M-1, Biosci. Biotechnol. Biochem., Vol. 75, pp. 379-381, 2011.
• Eriko Nango, Takashi Yamamoto, Takashi Kumasaka, Tadashi Eguchi. Crystal Structure of 3-Isopropylmalate Dehydrogenase in Complex with NAD+ and a Designed Inhibitor, Bioorg. Med. Chem., 17, 22, 7789-7794, Nov. 2009.
• Eriko Nango, Takashi Kumasaka, Toshifumi Hirayama, Nobuo Tanaka, Tadashi Eguchi. Structure of 2-Deoxy-scyllo-inosose Synthase, a Key Enzyme in the Biosynthesis of 2-Deoxystreptamine-containing Aminoglycoside Antibiotics, in Complex with a Mechanism-Based Inhibitor and NAD⁺, Proteins, Vol. 70, No. 2, pp. 517-527, Feb. 2008.
• Kanamasa, S, Sumi, K., Yamuki, N., Kumasaka, T., Miura, T., Abe, F., Kajiwara, S.. Cloning and functional characterization of the copper/zinc superoxide dismutase gene from the heavy-metal-tolerant yeast Cryptococcus liquefaciens strain N6, Mol. Genet. Genomics., pp. online, Dec. 2006.
• Iwasaki, T., Kounosu, A., Ohmori, D., Kumasaka, T.. Crystallization and preliminary X-ray diffraction studies of a hyperthermophilic Rieske protein variant (SDX-triple) with an engineered rubredoxin-like mononuclear iron site, Acta Cryst. F, Vol. 62, pp. 993-995, Oct. 2006.
• Iwasaki, T., Kounosu, A., Kolling, D.R., Lhee, S., Crofts, A.R., Dikanov, S.A., Uchiyama, T., Kumasaka, T., Ishikawa, H., Kono, M., Imai, T., Urushiyama, A.. Resonance Raman characterization of archaeal and bacterial Rieske protein variants with modified hydrogen bond network around the [2Fe-2S] center., Protein Sci., Vol. 15, pp. 2019-2024, Aug. 2006.
• Fibriansah, G., Masuda, S., Hirose, R., Hamada, K., Tanaka, N., Nakamura, S., Kumasaka, T.. Crystallization and preliminary crystallographic analysis of endo-1,3-β-glucanase from alkaliphilic Nocardiopsis sp. strain F96, Acta Cryst. F, Vol. 62, pp. 20-22, Jan. 2006.
• Aik-Hong Teh, Makoto Kimura, Masaki Yamamoto, Nobuo Tanaka, Isamu Yamaguchi, Takashi Kumasaka. The 1.48 Å Resolution Crystal Structure of the Homotetrameric Cytidine Deaminase from Mouse, Biochemistry, Vol. 45, pp. 7825-7833, 2006.
• Ueno, G., Kanda, H., Hirose, R., Ida, K., Kumasaka, T., Yamamoto, M.. RIKEN structural genomics beamlines at the SPring-8; high throughput protein crystallography with automated beamline operation., J. Struct. Funct. Genomics, Vol. 7, pp. 15-22, 2006.
• Matsui, T., Hogetsu, K., Usukura, J., Sato, T., Kumasaka, T., Akao, Y., Tanaka, N.. Structural insight of human DEAD-box protein rck/p54 into its substrate recognition with conformational changes, Genes Cells, Vol. 11, pp. 439-452, 2006.
• Nakamura, K., Someya, Y., Kumasaka, T., Ueno, G., Yamamoto, M., Sato, T., Takeda, N., Miyamura, T., Tanaka, N.. A norovirus protease structure provides insights into active and substrate binding site integrity, J. Virol., Vol. 79, pp. 13685-13693, Nov. 2005.
• Ihsanawati, Takashi Kumasaka, Tomonori Kaneko, Chihiro Morokuma, Rie Yatsunami, Takao Sato, Satoshi Nakamura, Nobuo Tanaka. Structural basis of the substrate subsite and the highly thermal stability of xylanase 10B from Thermotoga maritima MSB8, Proteins, Vol. 61, pp. 999-1009, Oct. 2005.
• Ihsanawati, Takashi Kumasaka, Tomonori Kaneko, Chihiro Morokuma, Rie Yatsunami, Takao SATO, Satoshi Nakamura, Nobuo Tanaka. Structural basis of the substrate subsite and the highly thermal stability of xylanase 10B from Thermotoga maritima MSB8, Proteins, Vol. 61, pp. 999-1009, 2005.
• Eriko Nango, Takashi Kumasaka, Takao Sato, Nobuo Tanaka, Katsumi Kakinuma, Tadashi Eguchi. Crystallization and X-ray analysis of 2-deoxy-scyllo-inosose synthase, the key enzyme in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics, Acta Cryst. F, Vol. 61, pp. 709-711, 2005.
• Ueno, G., Kanda, H., Kumasaka, T., Yamamoto, M.. Beamline Scheduling Software: administration software for automatic operation of the RIKEN structural genomics beamlines at SPring-8, J. Synchrotron Rad., Vol. 12, pp. 380-384, 2005.
• Saijo, S., Sato, T., Kumasaka, T., Tanaka, N. Harata, K., Odahara, T.. Crystallization and preliminary X-ray studies on the reaction center-light-harvesting 1 core complex from Rhodopseudomonas viridis, Acta Cryst. F, Vol. 61, pp. 83-86, 2005.
• Kaneko, T., Tanaka, N., Kumasaka, T.. Crystal structures of RsbQ, a stress-response regulator in Bacillus subtilis, Protein Sci., Vol. 14, pp. 558-565, 2005.
• Hori, T., Yokomizo, T., Ago, H., Sugahara, M., Ueno, G., Yamamoto, M., Kumasaka, T., Shimizu, T., Miyano, M.. Structural basis of leukotriene B4 12-hydroxydehydrogenase/15-oxo-prostaglandin 13-reductase catalytic mechanism and a possible SH3 binding loop, J. Biol. Chem., Vol. 279, pp. 22615-22623, 2004.
• Matsui, T., Hogetsu, K., Akao, Y., Tanaka, M., Sato, T., Kumasaka, T., Tanaka, N.. Crystallization and X-ray analysis of the N-terminal core domain of a tumour-associated human DEAD-box RNA helicase, rck/p54, Acta Cryst. D, Vol. 60, pp. 156-159, 2004.
• Uchiyama, T., Kounosu, A., Sato, T., Tanaka, N., Iwasaki, T., Kumasaka, T.. Crystallization and preliminary X-ray diffraction studies of the hyperthermophilic archaeal sulredoxin having the unique Rieske [2Fe-2S] cluster environment, Acta Cryst. D, Vol. 60, pp. 1487-1489, 2004.
• Matsui, T., Kumasaka, T., Endo, K., Sato, T., Nakamura, S., Tanaka, N.. Crystallization and preliminary X-ray crystallographic analysis of chitinase F1 (ChiF1) from the alkaliphilic Nocardiopsis sp. strain F96, Acta Cryst. D, Vol. 60, pp. 2016-2018, 2004.
• Ueno, G., Hirose, R., Ida, K., Kumasaka, T., Yamamoto, M.. Sample management system for a vast amount of frozen crystals at SPring-8, J. Appl. Cryst., Vol. 37, pp. 867-873, 2004.
• Inoue, T., Irikura, D., Okazaki, N., Kinugasa, S., Matsumura, H., Uodome, N., Yamamoto, M., Kumasaka, T., Miyano, M., Kai, Y., Urade, Y.. Mechanism of metal activation of human hematopoietic prostaglandin D synthase, Nat. Struct. Biol., Vol. 10, pp. 291-296, 2003.
• Imamura, H., Fushinobu, S., Yamamoto, M., Kumasaka, T., Jeon, B. S., Wakagi, T., Matsuzawa, H.. Crystal structures of 4-α-glucanotransferase from Thermococcus litoralis and its complex with an inhibitor, J. Biol. Chem., Vol. 278, pp. 19378-19386, 2003.
• Ihsanawati, Kumasaka, T., Kaneko, T., Morokuma, C., Nakamura, S., Tanaka, N.. Crystallization and preliminary X-ray studies of xylanase 10B from Thermotoga maritima, Acta Cryst. D, Vol. 59, pp. 1659-1661, 2003.
• Kaneko, T., Kumasaka, T., Ganbe, T., Sato, T., Miyazawa, K., Kitamura, N., Tanaka, N.. Structural insight into modest binding of a non-PXXP ligand to the signal transducing adaptor molecule-2 Src homology 3 domain, J. Biol. Chem., Vol. 278, No. 48, pp. 48162-48168, 2003.
• Irikura, D., Kumasaka, T., Yamamoto, M., Ago, H., Miyano, M., Kubota, K. B., Sakai, H., Hayaishi, O., Urade, Y.. Cloning, Expression, Crystallization, and Preliminary X-Ray Analysis of Recombinant Mouse Lipocalin-type Prostaglandin D Synthase, a Somnogen-Producing Enzyme, J. Biochem., Vol. 133, pp. 29-32, 2003.
• Tahirov, T.H., Sato, K., Ichikawa-Iwata, E., Sasaki, M., Inoue-Bungo, T., Shiina, M., Kimura, K., Takata, S., Fujikawa, A., Morii, H., Kumasaka, T., Yamamoto, M., Ishii, S., Ogata, K.. Mechanism of c-Myb-C/EBPβ Cooperation from Separated Sites on a Promoter, Cell, Vol. 108, pp. 57-70, 2002.
• Kimura, M., Furuichi, M., Yamamoto, M., Kumasaka, T., Mizuno, H., Miyano, M., Yamaguchi, I.. The Flexible C-Terminal Region of Aspergillus terreus Blasticidin S Deaminase: Identification of Its Functional Roles with Deletion Enzymes, Biochem. Biophys. Res. Commun., Vol. 290, pp. 421-426, 2002.
• Ida, K., Norioka, S., Yamamoto, M., Kumasaka, T., Yamashita, E., Newbigin, E., Clarke, A.E., Sakiyama, F., Sato, M.. The 1.55 Å resolution structure of Nicotiana alata S_F11-RNase associated with gametophytic self-incompatibility, J. Mol. Biol., Vol. 314, pp. 103-112, 2002.
• Kumasaka, T., Yamamoto, M., Yamashita, E., Moriyama, H., Ueki, T.. Trichromatic Concept Optimizes MAD Experiments in Synchrotron X-ray Crystallography, Structure, Vol. 10, pp. 1205-1210, 2002.
• Tahirov, T.H., Inoue-Bungo, T., Morii, H., Fujikawa, A., Sasaki, M., Kimura, K., Shiina, M., Sato, K., Kumasaka, T., Yamamoto, M., Ishii, S., Ogata, K.. Structural Analyses of DNA Recognition by the AML1/Runx-1 Runt Domain and Its Allosteric Control by CBFβ, Cell, Vol. 104, pp. 755-767, 2001.
• 山本雅貴, 熊坂崇. トリクロマティックコンセプトによるタンパク質の迅速構造解析, 生物物理, Vol. 41, pp. 156-159, 2001.
• Hori, T., Kumasaka, T., Yamamoto, M., Nonaka, T., Tanaka, N., Hashimoto, Y., Ueki, T., Takio, K.. Structure of a new `aspzincin' metalloendopeptidase from Grifola frondosa: implications for the catalytic mechanism and substrate specificity based on several different crystal forms, Acta Cryst. D, Vol. 57, pp. 361-368, 2001.
• Yamamoto, M, Kumasaka, T., Yamazaki, H., Sasaki, K., Yokozawa, Y., Ishikawa, T.. Development of high-speed Imaging Plate detector, Nucl. Instrum. Meth. A, Vol. 467-468, pp. 1160-1162, 2001.
• Tahirov, T.H., Inoue-Bungo, T., Sasaki, M., Shiina, M., Kimura, K., Sato, K., Kumasaka, T., Yamamoto, M., Kamiya, N., Ogata, K.. Crystallization and preliminary X-ray analyses of quaternary, ternary and binary protein-DNA complexes with involvement of AML1/Runx-1/CBFα Runt domain, CBFβ and the C/EBPβ bZip region, Acta Cryst. D, Vol. 57, pp. 850-853, 2001.
• Samatey, F.A., Imada, K., Nagashima, S., Vonderviszt, F., Kumasaka, T., Yamamoto, M., Namba, K.. Structure of the bacterial flagellar protofilament and implications for a switch for supercoiling, Nature, Vol. 410, pp. 331-337, 2001.
• Palczewski, K., Kumasaka, T., Hori, T., Behnke, C. A., Motoshima, H., Fox, B. A., Le Trong, I., Teller, D. C., Okada, T., Stenkamp, R. E., Yamamoto, M., Miyano. Crystal Structure of Rhodopsin: A G Protein-Coupled Receptor, Science, Vol. 289, pp. 739-745, 2000.
• Nakai, T., Hasegawa, T., Yamashita, E., Yamamoto, M., Kumasaka, T., Ueki, T., Nanba, H., Ikenaka, Y., Takahashi, S., Sato, M., Tsukihara, T.. Crystal structure of N-carbamyl-D-amino acid amidohydrolase with a novel catalytic framework common to amidohydrolases, Structure, Vol. 8, pp. 729-739, 2000.
• Mitsuhashi, S., Mizushima, T., Yamashita, E., Yamamoto, M., Kumasaka, T., Moriyama, H., Ueki, T., Miyachi, S., Tsukihara, T.. X-ray Structure of β-Carbonic Anhydrase from the Red Alga, Porphyridium purpureum, Reveals a Novel Catalytic Site for CO₂ Hydration, J. Biol. Chem., Vol. 275, pp. 5521-5526, 2000.
• Sugahara, M., Mikawa, T., Kato, R., Fukuyama, K., Kumasaka, T., Yamamoto, M., Inoue, Y., Kuramitsu, S.. Crystallization and Preliminary X-Ray Crystallographic Studies of Thermus thermophilus HB8 MutM Protein Involved in Repairs of Oxidative DNA Damage, J. Biochem., Vol. 127, pp. 9-11, 2000.
• Fujisawa, T., Inoue, K., Oka, T., Iwamoto, T., Uruga, T., Kumasaka, T., Inoko, Y., Yagi, N., Yamamoto, M., Ueki, T.. Small-Angle X-ray Scattering Station at the SPring-8 RIKEN beamline, J. Appl. Cryst., Vol. 33, pp. 797-800, 2000.
• Sugahara, M., Mikawa, T., Kumasaka, T., Yamamoto, M., Kato, R., Fukuyama, K., Inoue, Y., Kuramitsu S.. Crystal structure of a Repair Enzyme of Oxidatively-Damaged-DNA, MutM (Fpg), from an Extreme Thermophile, Thermus thermophilus HB8, EMBO J., Vol. 19, pp. 3857-3869, 2000.
• Toyoda, T., Tin, O.F., Ito, K., Fujiwara, T., Kumasaka, T., Yamamoto, M., Garber, M.B., Nakamura, Y.. Crystal structure combined with genetic analysis of the Thermus thermophilus ribosome recycling factor shows that a flexible hinge may act as a functional switch, RNA, Vol. 6, pp. 1432-1444, 2000.
• Kunishima, N., Shimada, Y., Tsuji, Y., Sato, T., Yamamoto, M., Kumasaka, T., Nakanishi, S., Jingami, H., Morikawa, K.. Structural basis of glutamate recognition by a dimeric metabotropic glutamate receptor, Nature, Vol. 407, pp. 971-977, 2000.
• Lee, S. J., Imamoto, N., Sakai, H., Nakagawa, A., Kose, S., Koike, M, Yamamoto, M., Kumasaka, T., Yoneda, Y., Tsukihara, T.. The Adoption of a Twisted Structure of Importin-β is Essential for the Protein-protein Interaction Required for Nuclear Transport, J. Mol. Biol., Vol. 302, pp. 251-264, 2000.
• Motoshima, H., Inagaki, K., Kumasaka, T., Furuichi, M., Inoue, H., Tamura, T., Esaki, N., Soda, K., Tanaka, N., Yamamoto, M., Tanaka, H.. Crystal Structure of the Pyridoxal-5'-phosphate Dependent L-Methionine γ-Lyase from Pseudomonas putida, J. Biochem., Vol. 128, pp. 349-354, 2000.
• Suzuki, M., Yamamoto, M., Kumasaka, T., Sato, K., Toyokawa, H., Aries, I. F., Jerram, P. A., Gullick, D., Ueki, T.. A Multiple CCD X-ray Detector and its Basic Characterization, J. Synchrotron Rad., Vol. 6, pp. 6-18, 1999.
• Suzuki, M., Yamamoto, M., Kumasaka, T., Sato, K., Toyakawa, H., Ueki, T.. Performance of Multiple-CCD X-ray Detector System at SPring-8 for Protein Crystallography, Proc. SPIE, Vol. 3774, pp. 38-45, 1999.
• Suzuki, M., Yamamoto, M., Kumasaka, T., Sato, K., Toyokawa, H., Aries, I. F., Jerram, P. A., Gullick, D., Ueki, T.. A Multiple CCD X-ray Detector and its first operation with synchrotron radiation X-ray beam, Nucl. Instrum. Meth. A, Vol. 436, pp. 174-181, 1999.
• Yamamoto, M., Kumasaka, T., Fujisawa, T., Ueki, T.. Trichromatic concept at SPring-8 RIKEN beamline I, J. Synchrotron Rad., Vol. 5, pp. 222-226, 1998.
• Yamamoto, M., Kumasaka, T., Uruga, T., Kamiya, N., Iwasaki, H., Ueki, T.. Evalutation of high spatial resolution imaging plate, Nucl. Instrum. Meth. A, Vol. 416, pp. 314-318, 1998.
• Kumasaka, T., Yamamoto, M., Moriyama, H., Tanaka, N., Sato, M., Katsube, Y., Yamakawa, Y., Omori-Satoh, T., Iwanaga, S., Ueki, T.. Crystal Structure of H₂-proteinase from the Venom of Trimeresurus flavoviridis, J. Biochem., Vol. 119, pp. 49-57, 1996.
• Kumasaka, T., Takeya, H., Yamamoto, M., Yamakawa, Y., Omori-Satoh, T., Moriyama, H., Tanaka, N., Sato, M., Katsube, Y., Iwanaga, S.. Crystallization and Preliminary X-Ray Study of H₂-proteinase from the Venom of Trimeresurus flavoviridis, J. Biochem., Vol. 117, pp. 929-930, 1995.

その他の論文・著書など

• 熊坂崇, 山本雅貴. MAD法による構造解析の進展, 日本結晶学会誌, Vol. 45, No. 1, pp. 14-18, 2003.
• 堀哲哉, 熊坂崇, 山本雅貴, 宮野雅司. ロドプシンの構造決定がひらくゲノム創薬の新しい道, バイオベンチャー, Vol. 2, pp. 73-79, 2002.
• 宮野雅司, 熊坂崇, 堀哲哉, 山本雅貴. ７回膜貫通型レセプター・ロドプシンの結晶構造, 蛋白質核酸酵素, Vol. 46, pp. 687-697, 2001.
• Yamamoto, M., Kumasaka, T., Yamashita, E., Moriyama, H. Sato, M., Ueki, T.. Prospects for X-ray Crystal Structure Analysis of Selenoproteins with SPring-8 Synchrotron Radiation, J. Health Sci., Vol. 46, pp. 426-429, 2000.
• 山本雅貴, 熊坂崇, 石川哲也. SPring-8のダイヤモンド分光器, 高圧力の科学と技術, Vol. 10, pp. 56-61, 2000.
• 山本雅貴, 熊坂崇, 石川哲也. ダイヤモンド分光器, ニューダイヤモンド, Vol. 58, pp. 16-20, 2000.
• 熊坂崇. タンパク質構造解析のためのソフトウェア紹介, 日本結晶学会誌, Vol. 42, pp. 474-477, 2000.
• 山本雅貴, 熊坂崇, 植木龍夫. ３波長結晶構造解析ビームライン, 放射光, Vol. 11, pp. 107-113, 1998.
• Yamamoto, M., Kumasaka, T., Yamashita, E.. STUDIES ON THE MAD METHOD AT THE RIKEN BEAMLINE I BL45XU, SPring-8 Research Frontiers, Vol. 1997-1998, pp. 6-8, 1998.

学位論文

• Crystal Structure of H₂-Proteinase from Habu Venom,  本文,  Ph. D.,  Tokyo Institute of Technology,  1996/--/--, 

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