Nobutaka Numoto, Seiko Onoda, Yoshiaki Kawano, Hideo Okumura, Seiki Baba, Yoshihiro Fukumori, Kunio Miki, Nobutoshi Ito. Structures of oxygen dissociation intermediates of 400 kDa V2 hemoglobin provide coarse snapshots of the protein allostery. Biophys Physicobiol. 2022.05; 19 1-10. ( PubMed, DOI )

Oda Masayuki, Sano Tomoki, Kamatari Yuji O., Abe Yoshito, Ikura Teikichi, Ito Nobutoshi. Structural Analysis of Hen Egg Lysozyme Refolded after Denaturation at Acidic pH PROTEIN JOURNAL. 2022.02; 41 (1): 71-78. ( PubMed, DOI )

Basu G, Hall D, Ito N. Special Issue call: Computational biophysics and structural biology of proteins-A Special Issue in honor of Prof. Haruki Nakamura's 70th birthday. Biophysical reviews. 2022.02; 14 (1): 21-22. ( PubMed, DOI )

Fujioka Toshifumi, Numoto Nobutaka, Akama Hiroyuki, Shilpa Kola, Oka Michiko, Roy Prodip K., Krishna Yarkali, Ito Nobutoshi, Baker David, Oda Masayuki, Tanaka Fujie. Varying the Directionality of Protein Catalysts for Aldol and Retro-Aldol Reactions CHEMBIOCHEM. 2022.01; 23 (2): e202100435. ( PubMed, DOI )

Yoshihara Ayana, Kawasaki Haru, Masuno Hiroyuki, Takada Koki, Numoto Nobutaka, Ito Nobutoshi, Hirata Naoya, Kanda Yasunari, Ishizawa Michiyasu, Makishima Makoto, Kagechika Hiroyuki, Tanatani Aya. Lithocholic Acid Amides as Potent Vitamin D Receptor Agonists BIOMOLECULES. 2022.01; 12 (1): ( PubMed, DOI )

Numoto Nobutaka, Onoda Seiko, Kawano Yoshiaki, Okumura Hideo, Baba Seiki, Fukumori Yoshihiro, Miki Kunio, Ito Nobutoshi. 400kDa V2ヘモグロビンの酸素解離中間体の構造は蛋白質アロステリーの粗スナップショットを提供する(Structures of oxygen dissociation intermediates of 400 kDa V2 hemoglobin provide coarse snapshots of the protein allostery) Biophysics and Physicobiology. 2022; 19 e190019_1-e190019_10. ( ichushi )

Tanaka H, Kondo K, Fujita K, Homma H, Tagawa K, Jin X, Jin M, Yoshioka Y, Takayama S, Masuda H, Tokuyama R, Nakazaki Y, Saito T, Saido T, Murayama S, Ikura T, Ito N, Yamamori Y, Tomii K, Bianchi ME, Okazawa H. HMGB1 signaling phosphorylates Ku70 and impairs DNA damage repair in Alzheimer's disease pathology. Communications biology. 2021.10; 4 (1): 1175. ( PubMed, DOI )

Kondo K, Ikura T, Tanaka H, Fujita K, Takayama S, Yoshioka Y, Tagawa K, Homma H, Liu S, Kawasaki R, Huang Y, Ito N, Tate SI, Okazawa H. Hepta-Histidine Inhibits Tau Aggregation. ACS chemical neuroscience. 2021.08; 12 (16): 3015-3027. ( PubMed, DOI )

Senga Akane, Numoto Nobutaka, Yamashita Mitsuaki, Iida Akira, Ito Nobutoshi, Kawai Fusako, Oda Masayuki. Multiple structural states of Ca2+-regulated PET hydrolase, Cut190, and its correlation with activity and stability The Journal of Biochemistry. 2021.02; 169 (2): 207-213. ( ichushi )

Alborzian Deh Sheikh A, Gomaa S, Li X, Routledge M, Saigoh K, Numoto N, Angata T, Hitomi Y, Takematsu H, Tsuiji M, Ito N, Kusunoki S, Tsubata T. A Guillain-Barré syndrome-associated SIGLEC10 rare variant impairs its recognition of gangliosides. Journal of autoimmunity. 2021.01; 116 102571. ( PubMed, DOI )

Sasaki H, Masuno H, Kawasaki H, Yoshihara A, Numoto N, Ito N, Ishida H, Yamamoto K, Hirata N, Kanda Y, Kawachi E, Kagechika H, Tanatani A. Lithocholic Acid Derivatives as Potent Vitamin D Receptor Agonists. Journal of medicinal chemistry. 2020.12; 64 (1): 516-526. ( PubMed, DOI )

Emori Miho, Numoto Nobutaka, Senga Akane, Bekker Gert-Jan, Kamiya Narutoshi, Kobayashi Yuma, Ito Nobutoshi, Kawai Fusako, Oda Masayuki. Structural basis of mutants of PET-degrading enzyme from Saccharomonospora viridis AHK190 with high activity and thermal stability PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS. 2020.12; 89 (5): 502-511. ( PubMed, DOI )

Iiyama M, Numoto N, Ogawa S, Kuroda M, Morii H, Abe R, Ito N, Oda M. Molecular interactions of the CTLA-4 cytoplasmic region with the phosphoinositide 3-kinase SH2 domains. Molecular immunology. 2020.12; 131 51-59. ( PubMed, DOI )

Senga A, Numoto N, Yamashita M, Iida A, Ito N, Kawai F, Oda M. Multiple structural states of Ca2+ regulated PET hydrolase, Cut190, and its correlation with activity and stability. Journal of biochemistry. 2020.09; 169 (2): 207-213. ( PubMed, DOI )

Ikura Teikichi, Ito Nobutoshi. Pin1の変異体C113AとC113Sの構造解析(Structural analysis of Pin1 mutants C113A And C113S) 生物物理. 2020.08; 60 (Suppl.1-2): S144. ( ichushi )

Nishiguchi A, Numoto N, Ito N, Azuma T, Oda M. Three-dimensional structure of a high affinity anti-(4-hydroxy-3-nitrophenyl)acetyl antibody possessing a glycine residue at position 95 of the heavy chain. Molecular immunology. 2019.10; 114 545-552. ( PubMed, DOI )

Masuno Hiroyuki, Kazui Yuko, Tanatani Aya, Fujii Shinya, Kawachi Emiko, Ikura Teikichi, Ito Nobutoshi, Yamamoto Keiko, Kagechika Hiroyuki. Development of novel lithocholic acid derivatives as vitamin D receptor agonists BIOORGANIC & MEDICINAL CHEMISTRY. 2019.08; 27 (16): 3674-3681. ( PubMed, DOI )

Numoto Nobutaka, Fukumori Yoshihiro, Miki Kunio, Ito Nobutoshi. 巨大ヘモグロビンのアロステリック中間体の時分割構造解析(Time-resolved structure analysis of allosteric intermediate of the giant hemoglobin) 生物物理. 2019.08; 59 (Suppl.1-2): S245. ( ichushi )

Yasukochi Shotaro, Numoto Nobutaka, Hori Kiminori, Tenno Natsuko, Tenno Takeshi, Ito Nobutoshi, Hiroaki Hidekazu. ヒトDishevelled1 PDZドメインと阻害剤の共結晶構造解析(Crystal structure of human Dishevelled1 PDZ with its inhibitor) 生物物理. 2019.08; 59 (Suppl.1-2): S240. ( ichushi )

Nakayama S, Shimonaka S, Elahi M, Nishioka K, Oji Y, Matsumoto SE, Li Y, Yoshino H, Mogushi K, Hatano T, Sato T, Ikura T, Ito N, Motoi Y, Hattori N. Tau aggregation and seeding analyses of two novel MAPT variants found in patients with motor neuron disease and progressive parkinsonism. Neurobiology of aging. 2019.03; 84 240.e13-240.e22. ( PubMed, DOI )

Yurina Miyashita, Nobutaka Numoto, Sundaram Arulmozhiraja, Shogo Nakano, Naoya Matsuo, Kanade Shimizu, Osamu Shibahara, Michiko Fujihara, Hiroki Kakuta, Sohei Ito, Teikichi Ikura, Nobutoshi Ito, Hiroaki Tokiwa. Dual conformation of the ligand induces the partial agonistic activity of retinoid X receptor α (RXRα). FEBS Lett.. 2019.01; 593 (2): 242-250. ( PubMed, DOI )

Hosoe Y, Numoto N, Inaba S, Ogawa S, Morii H, Abe R, Ito N, Oda M. Structural and functional properties of Grb2 SH2 dimer in CD28 binding. Biophysics and physicobiology. 2019; 16 80-88. ( PubMed, DOI )

Ikura T, Yonezawa Y, Ito N. Mutational effects of Cys113 on structural dynamics of Pin1. Biophysics and physicobiology. 2019; 16 452-465. ( PubMed, DOI )

Nobutaka Numoto, Narutoshi Kamiya, Gert-Jan Bekker, Yuri Yamagami, Satomi Inaba, Kentaro Ishii, Susumu Uchiyama, Fusako Kawai, Nobutoshi Ito, Masayuki Oda. Structural Dynamics of the PET-Degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-Bound States Elucidates the Ca2+-Driven Catalytic Cycle. Biochemistry. 2018.08; 57 (36): 5289-5300. ( PubMed, DOI )

Teikichi Ikura, Naoya Tochio, Ryosuke Kawasaki, Mizuki Matsuzaki, Akihiro Narita, Mahito Kikumoto, Naoko Utsunomiya-Tate, Shin-Ichi Tate, Nobutoshi Ito. The trans isomer of Tau peptide is prone to aggregate, and the WW domain of Pin1 drastically decreases its aggregation. FEBS Lett.. 2018.08; 592 (18): 3082-3091. ( PubMed, DOI )

Rocio Otero, Michiyasu Ishizawa, Nobutaka Numoto, Teikichi Ikura, Nobutoshi Ito, Hiroaki Tokiwa, Antonio Mouriño, Makoto Makishima, Sachiko Yamada. Synthesis, Tissue Selective Biological Activities, and X-ray Crystal Structural Analysis of Its Vitamin D Receptor Complex. J. Med. Chem.. 2018.08; 61 (15): 6658-6673. ( PubMed, DOI )

Naoki Miyamoto, Miho Yoshimura, Yuji Okubo, Kayo Suzuki-Nagata, Takeshi Tsumuraya, Nobutoshi Ito, Ikuo Fujii. Structural basis of the broad substrate tolerance of the antibody 7B9-catalyzed hydrolysis of p-nitrobenzyl esters. Bioorg. Med. Chem.. 2018.05; 26 (8): 1412-1417. ( PubMed, DOI )

Naoko Matsubara, Akihiro Imamura, Tatsuya Yonemizu, Chizuru Akatsu, Hongrui Yang, Akiharu Ueki, Natsuki Watanabe, Hajjaj Abdu-Allah, Nobutaka Numoto, Hiromu Takematsu, Shinobu Kitazume, Thomas F Tedder, Jamey D Marth, Nobutoshi Ito, Hiromune Ando, Hideharu Ishida, Makoto Kiso, Takeshi Tsubata. CD22-Binding Synthetic Sialosides Regulate B Lymphocyte Proliferation Through CD22 Ligand-Dependent and Independent Pathways, and Enhance Antibody Production in Mice. Front Immunol. 2018.04; 9 820. ( PubMed, DOI )

Numoto Nobutaka, Akatsu Chizuru, Shinagawa Kenro, Tsubata Takeshi, Ito Nobutoshi. B細胞抑制性因子CD72の分子表面電荷分布によるリガンド結合制御機構(Charge distribution regulates the ligand-binding affinity of B cell inhibitory receptor CD72) 生物物理. 2017.08; 57 (Suppl.1-2): S276. ( ichushi )

Ikura Teikichi, Ito Nobutoshi. タウタンパク質に対するPin1由来のプロテアーゼの活性の定量的評価(Quantitative evaluation of activity of a protease derived from Pin1 for tau protein) 生物物理. 2017.08; 57 (Suppl.1-2): S315. ( ichushi )

Satomi Inaba, Nobutaka Numoto, Shuhei Ogawa, Hisayuki Morii, Teikichi Ikura, Ryo Abe, Nobutoshi Ito, Masayuki Oda. Crystal Structures and Thermodynamic Analysis Reveal Distinct Mechanisms of CD28 Phosphopeptide Binding to the Src Homology 2 (SH2) Domains of Three Adaptor Proteins. J. Biol. Chem.. 2017.01; 292 (3): 1052-1060. ( PubMed, DOI )

Kulkarni Manjiri Ravindra, Islam Monirul, Numoto Nobutaka, Ito Nobutoshi, Kuroda Yutaka. Crystal structures of dengue virus protein revealed ED3 sero-specificity ACTA CRYSTALLOGRAPHICA A-FOUNDATION AND ADVANCES. 2017; 73 C394. ( DOI )

Kulkarni Manjiri R., Islam Monirul, Numoto Nobutaka, Elahi Montasir, Ito Nobutoshi, Kuroda Yutaka. Crystallographic studies of sero-specific Dengue ED3 immune response ACTA CRYSTALLOGRAPHICA A-FOUNDATION AND ADVANCES. 2017; 73 A404. ( DOI )

Chizuru Akatsu, Kenro Shinagawa, Nobutaka Numoto, Zhihong Liu, Ayse Konuskan Ucar, Mohammad Aslam, Shirly Phoon, Takahiro Adachi, Koji Furukawa, Nobutoshi Ito, Takeshi Tsubata. CD72 negatively regulates B lymphocyte responses to the lupus-related endogenous toll-like receptor 7 ligand Sm/RNP. J. Exp. Med.. 2016.11; 213 (12): 2691-2706. ( PubMed, DOI )

Tomomi Imamura, Kyota Fujita, Kazuhiko Tagawa, Teikichi Ikura, Xigui Chen, Hidenori Homma, Takuya Tamura, Ying Mao, Juliana Bosso Taniguchi, Kazumi Motoki, Makoto Nakabayashi, Nobutoshi Ito, Kazunori Yamada, Kentaro Tomii, Hideyuki Okano, Julia Kaye, Steven Finkbeiner, Hitoshi Okazawa. Identification of hepta-histidine as a candidate drug for Huntington's disease by in silico-in vitro- in vivo-integrated screens of chemical libraries. Sci Rep. 2016.09; 6 33861. ( PubMed, DOI )

Isao Kii, Yuto Sumida, Toshiyasu Goto, Rie Sonamoto, Yukiko Okuno, Suguru Yoshida, Tomoe Kato-Sumida, Yuka Koike, Minako Abe, Yosuke Nonaka, Teikichi Ikura, Nobutoshi Ito, Hiroshi Shibuya, Takamitsu Hosoya, Masatoshi Hagiwara. Selective inhibition of the kinase DYRK1A by targeting its folding process. Nature Communications. 2016.04; 7 11391. ( PubMed, DOI )

Manjiri R Kulkarni, Nobutaka Numoto, Nobutoshi Ito, Yutaka Kuroda. Modeling and experimental assessment of a buried Leu-Ile mutation in dengue envelope domain III. Biochem. Biophys. Res. Commun.. 2016.02; 471 (1): 163-168. ( PubMed, DOI )

Teikichi Ikura, Nobutoshi Ito. Crystal Structure of the Vitamin D Receptor Ligand-Binding Domain with Lithocholic Acids. Vitam. Horm.. 2016; 100 117-136. ( PubMed, DOI )

Yusuke Watarai, Michiyasu Ishizawa, Teikichi Ikura, Flavia C M Zacconi, Shigeyuki Uno, Nobutoshi Ito, Antonio Mouriño, Hiroaki Tokiwa, Makoto Makishima, Sachiko Yamada. Synthesis, Biological Activities, and X-ray Crystal Structural Analysis of 25-Hydroxy-25(or 26)-adamantyl-17-[20(22),23-diynyl]-21-norvitamin D Compounds. J. Med. Chem.. 2015.12; 58 (24): 9510-9521. ( PubMed, DOI )

Yasuaki Anami, Yuta Sakamaki, Toshimasa Itoh, Yuka Inaba, Makoto Nakabayashi, Teikichi Ikura, Nobutoshi Ito, Keiko Yamamoto. Fine tuning of agonistic/antagonistic activity for vitamin D receptor by 22-alkyl chain length of ligands: 22S-Hexyl compound unexpectedly restored agonistic activity. Bioorg. Med. Chem.. 2015.11; 23 (22): 7274-7281. ( PubMed, DOI )

Manjiri R Kulkarni, Monirul M Islam, Nobutaka Numoto, Montasir Elahi, Mamunur R Mahib, Nobutoshi Ito, Yutaka Kuroda. Structural and biophysical analysis of sero-specific immune responses using epitope grafted Dengue ED3 mutants. Biochim. Biophys. Acta. 2015.10; 1854 (10 Pt A): 1438-1443. ( PubMed, DOI )

So Masaki, Isao Kii, Yuto Sumida, Tomoe Kato-Sumida, Yasushi Ogawa, Nobutoshi Ito, Mitsuhiro Nakamura, Rie Sonamoto, Naoyuki Kataoka, Takamitsu Hosoya, Masatoshi Hagiwara. Design and synthesis of a potent inhibitor of class 1 DYRK kinases as a suppressor of adipogenesis. Bioorg. Med. Chem.. 2015.08; 23 (15): 4434-4441. ( PubMed, DOI )

Satoshi Morooka, Mitsuteru Hoshina, Isao Kii, Takayoshi Okabe, Hirotatsu Kojima, Naoko Inoue, Yukiko Okuno, Masatsugu Denawa, Suguru Yoshida, Junichi Fukuhara, Kensuke Ninomiya, Teikichi Ikura, Toshio Furuya, Tetsuo Nagano, Kousuke Noda, Susumu Ishida, Takamitsu Hosoya, Nobutoshi Ito, Nagahisa Yoshimura, Masatoshi Hagiwara. Identification of a Dual Inhibitor of SRPK1 and CK2 That Attenuates Pathological Angiogenesis of Macular Degeneration in Mice. Mol. Pharmacol.. 2015.08; 88 (2): 316-325. ( PubMed, DOI )

Yamamoto Makoto, Onogi Hiroshi, Kii Isao, Yoshida Suguru, Iida Kei, Sakai Hiroyuki, Abe Minako, Tsubota Toshiaki, Ito Nobutoshi, Hosoya Takamitsu, Hagiwara Masatoshi. CDK9 inhibitor FIT-039 prevents replication of multiple DNA viruses. J Clin Invest. 2014.08; 124 (8): 3479-3488. ( PubMed, DOI )

Kudo Takeru, Ishizawa Michiyasu, Maekawa Kazuki, Nakabayashi Makoto, Watarai Yusuke, Uchida Hikaru, Tokiwa Hiroaki, Ikura Teikichi, Ito Nobutoshi, Makishima Makoto, Yamada Sachiko. Combination of triple bond and adamantane ring on the vitamin D side chain produced partial agonists for vitamin D receptor. J Med Chem. 2014.05; 57 (10): 4073-4087. ( PubMed, DOI )

Ikura Teikichi, Ito Nobutoshi. Peptidyl-prolyl isomerase activity of FK506 binding protein 12 prevents tau peptide from aggregating. Protein Eng Des Sel. 2013.09; 26 (9): 539-546. ( PubMed, DOI )

Nakabayashi Makoto, Tsukahara Yoshito, Iwasaki-Miyamoto Yukiko, Mihori-Shimazaki Mika, Yamada Sachiko, Inaba Satomi, Oda Masayuki, Shimizu Masato, Makishima Makoto, Tokiwa Hiroaki, Ikura Teikichi, Ito Nobutoshi. Crystal structures of hereditary vitamin D-resistant rickets-associated vitamin D receptor mutants R270L and W282R bound to 1,25-dihydroxyvitamin D3 and synthetic ligands. J Med Chem. 2013.09; 56 (17): 6745-6760. ( PubMed, DOI )

Masuno Hiroyuki, Ikura Teikichi, Morizono Daisuke, Orita Isamu, Yamada Sachiko, Shimizu Masato, Ito Nobutoshi. Crystal structures of complexes of vitamin D receptor ligand-binding domain with lithocholic acid derivatives. J Lipid Res. 2013.08; 54 (8): 2206-2213. ( PubMed, DOI )

Higo K, Ikura T, Oda M, Morii H, Takahashi J, Abe R, Ito N. High resolution crystal structure of the Grb2 SH2 domain with a phosphopeptide derived from CD28 PLoS One. 2013.08; 8 (9): e74482. ( DOI )

Higo Kunitake, Ikura Teikichi, Oda Masayuki, Morii Hisayuki, Takahashi Jun, Abe Ryo, Ito Nobutoshi. High resolution crystal structure of the Grb2 SH2 domain with a phosphopeptide derived from CD28. PLoS One. 2013; 8 (9): e74482. ( PubMed, DOI )

Yoshimoto Nobuko, Sakamaki Yuta, Haeta Minoru, Kato Akira, Inaba Yuka, Itoh Toshimasa, Nakabayashi Makoto, Ito Nobutoshi, Yamamoto Keiko. Butyl pocket formation in the vitamin D receptor strongly affects the agonistic or antagonistic behavior of ligands. J Med Chem. 2012.05; 55 (9): 4373-4381. ( PubMed, DOI )

Nomura Wataru, Masuda Akemi, Ohba Kenji, Urabe Arisa, Ito Nobutoshi, Ryo Akihide, Yamamoto Naoki, Tamamura Hirokazu. Effects of DNA binding of the zinc finger and linkers for domain fusion on the catalytic activity of sequence-specific chimeric recombinases determined by a facile fluorescent system. Biochemistry. 2012.02; 51 (7): 1510-1517. ( PubMed, DOI )

Tamashiro Tomonari, Tanabe Yoichi, Ikura Teikichi, Ito Nobutoshi, Oda Masayuki. Critical roles of Asp270 and Trp273 in the alpha-repeat of the carbohydrate-binding module of endo-1,3-beta-glucanase for laminarin-binding avidity. Glycoconj J. 2012.01; 29 (1): 77-85. ( PubMed, DOI )

Fujii Shinya, Masuno Hiroyuki, Taoda Yoshiyuki, Kano Atsushi, Wongmayura Angsuma, Nakabayashi Makoto, Ito Nobutoshi, Shimizu Masato, Kawachi Emiko, Hirano Tomoya, Endo Yasuyuki, Tanatani Aya, Kagechika Hiroyuki. Boron cluster-based development of potent nonsecosteroidal vitamin D receptor ligands: direct observation of hydrophobic interaction between protein surface and carborane. J Am Chem Soc. 2011.12; 133 (51): 20933-20941. ( PubMed, DOI )

Nomura Wataru, Ohashi Nami, Okuda Yoshiaki, Narumi Tetsuo, Ikura Teikichi, Ito Nobutoshi, Tamamura Hirokazu. Fluorescence-quenching screening of protein kinase C ligands with an environmentally sensitive fluorophore. Bioconjug Chem. 2011.05; 22 (5): 923-930. ( PubMed, DOI )

Inaba Yuka, Nakabayashi Makoto, Itoh Toshimasa, Yoshimoto Nobuko, Ikura Teikichi, Ito Nobutoshi, Shimizu Masato, Yamamoto Keiko. 22S-butyl-1alpha,24R-dihydroxyvitamin D3: recovery of vitamin D receptor agonistic activity. J Steroid Biochem Mol Biol. 2010.07; 121 (1-2): 146-150. ( PubMed, DOI )

Ogawa Yasushi, Nonaka Yosuke, Goto Toshiyasu, Ohnishi Eriko, Hiramatsu Toshiyuki, Kii Isao, Yoshida Miyo, Ikura Teikichi, Onogi Hiroshi, Shibuya Hiroshi, Hosoya Takamitsu, Ito Nobutoshi, Hagiwara Masatoshi. Development of a novel selective inhibitor of the Down syndrome-related kinase Dyrk1A. Nat Commun. 2010; 1 86. ( PubMed, DOI )

Inaba Yuka, Yoshimoto Nobuko, Sakamaki Yuta, Nakabayashi Makoto, Ikura Teikichi, Tamamura Hirokazu, Ito Nobutoshi, Shimizu Masato, Yamamoto Keiko. A new class of vitamin D analogues that induce structural rearrangement of the ligand-binding pocket of the receptor. J Med Chem. 2009.03; 52 (5): 1438-1449. ( PubMed, DOI )

Nakabayashi Makoto, Yamada Sachiko, Yoshimoto Nobuko, Tanaka Takashi, Igarashi Miharu, Ikura Teikichi, Ito Nobutoshi, Makishima Makoto, Tokiwa Hiroaki, DeLuca Hector F, Shimizu Masato. Crystal structures of rat vitamin D receptor bound to adamantyl vitamin D analogs: structural basis for vitamin D receptor antagonism and partial agonism. J Med Chem. 2008.09; 51 (17): 5320-5329. ( PubMed, DOI )

Shimizu Masato, Miyamoto Yukiko, Takaku Hajime, Matsuo Mayumi, Nakabayashi Makoto, Masuno Hiroyuki, Udagawa Nobuyuki, DeLuca Hector F, Ikura Teikichi, Ito Nobutoshi. 2-Substituted-16-ene-22-thia-1alpha,25-dihydroxy-26,27-dimethyl-19-norvitamin D3 analogs: Synthesis, biological evaluation, and crystal structure. Bioorg Med Chem. 2008.07; 16 (14): 6949-6964. ( PubMed, DOI )

Urakubo Yoshiaki, Ikura Teikichi, Ito Nobutoshi. Crystal structural analysis of protein-protein interactions drastically destabilized by a single mutation. Protein Sci. 2008.06; 17 (6): 1055-1065. ( PubMed, DOI )

Ikura Teikichi, Kinoshita Kengo, Ito Nobutoshi. A cavity with an appropriate size is the basis of the PPIase activity. Protein Eng Des Sel. 2008.02; 21 (2): 83-89. ( PubMed, DOI )

Ikura Teikichi, Ito Nobutoshi. Requirements for peptidyl-prolyl isomerization activity: a comprehensive mutational analysis of the substrate-binding cavity of FK506-binding protein 12. Protein Sci. 2007.12; 16 (12): 2618-2625. ( PubMed, DOI )

Oda Masayuki, Ito Nobutoshi, Tsumuraya Takeshi, Suzuki Kayo, Sakakura Masayoshi, Fujii Ikuo. Thermodynamic and structural basis for transition-state stabilization in antibody-catalyzed hydrolysis. J Mol Biol. 2007.05; 369 (1): 198-209. ( PubMed, DOI )

Tsuchiya Yuko, Kinoshita Kengo, Ito Nobutoshi, Nakamura Haruki. PreBI: prediction of biological interfaces of proteins in crystals. Nucleic Acids Res. 2006.07; 34 (Web Server issue): W320-W324. ( PubMed, DOI )

Westbrook John, Ito Nobutoshi, Nakamura Haruki, Henrick Kim, Berman Helen M. PDBML: the representation of archival macromolecular structure data in XML. Bioinformatics. 2005.04; 21 (7): 988-992. ( PubMed, DOI )

Higo J, Ito N, Kuroda M, Ono S, Nakajima N, Nakamura H. Energy landscape of a peptide consisting of alpha-helix, 3(10)-helix, beta-turn, beta-hairpin, and other disordered conformations. Protein Sci. 2001.06; 10 (6): 1160-1171. ( PubMed, DOI )

Otomo T, Ito N, Kyogoku Y, Yamazaki T. NMR observation of selected segments in a larger protein: Central-segment isotope labeling through intein-mediated ligation BIOCHEMISTRY. 1999.12; 38 (49): 16040-16044. ( DOI )

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ITO N, KOMIYAMA NH, FERMI G. STRUCTURE OF DEOXYHEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA-BERNACCHII WITH AN ANALYSIS OF THE STRUCTURAL BASIS OF THE ROOT EFFECT BY COMPARISON OF THE LIGANDED AND UNLIGANDED HEMOGLOBIN STRUCTURES JOURNAL OF MOLECULAR BIOLOGY. 1995.07; 250 (5): 648-658. ( DOI )

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PRICE SR, ITO N, OUBRIDGE C, AVIS JM, NAGAI K. CRYSTALLIZATION OF RNA-PROTEIN COMPLEXES .1. METHODS FOR THE LARGE-SCALE PREPARATION OF RNA SUITABLE FOR CRYSTALLOGRAPHIC STUDIES JOURNAL OF MOLECULAR BIOLOGY. 1995.06; 249 (2): 398-408. ( DOI )

OUBRIDGE C, ITO N, TEO CH, FEARNLEY I, NAGAI K. CRYSTALLIZATION OF RNA-PROTEIN COMPLEXES .2. THE APPLICATION OF PROTEIN ENGINEERING FOR CRYSTALLIZATION OF THE U1A PROTEIN-RNA COMPLEX JOURNAL OF MOLECULAR BIOLOGY. 1995.06; 249 (2): 409-423. ( DOI )

Nagai K, Oubridge C, Ito N, Jessen T H, Avis J, Evans P. Crystal structure of the U1A spliceosomal protein complexed with its cognate RNA hairpin. Nucleic Acids Symp Ser. 1995; (34): 1-2. ( PubMed )

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Ito N, Phillips S E, Yadav K D, Knowles P F. Crystal structure of a free radical enzyme, galactose oxidase. J Mol Biol. 1994.05; 238 (5): 794-814. ( PubMed )

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Evans P R, Oubridge C, Jessen T H, Li J, Teo C H, Pritchard C, Ito N, Nagai K. Model of the interaction between the UI A small nuclear ribonucleoprotein and UI small nuclear RNA stem/loop II. Biochem Soc Trans. 1993.08; 21 ( Pt 3) (3): 605-609. ( PubMed )

Ito N, Phillips S E, Stevens C, Ogel Z B, McPherson M J, Keen J N, Yadav K D, Knowles P F. Three-dimensional structure of galactose oxidase: an enzyme with a built-in secondary cofactor. Faraday Discuss. 1992; (93): 75-84. ( PubMed )

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ITO N, NAKAMURA H, SUMIKAWA H, NAGASHIMA N, ARATA Y, NISHIMURA Y. STRUCTURE OF A DNA OCTAMER, D(CCTTAAGG)2 OBTAINED BY RESTRAINED MOLECULAR-DYNAMICS BASED ON RAMAN AND NMR DATA JOURNAL OF MOLECULAR STRUCTURE. 1991.01; 242 119-133. ( DOI )

Ito N, Keen J N, Knowles P F, McPherson M J, Phillips S E, Stevens C, Yadav K D. Structural analysis of galactose oxidase. Biochem Soc Trans. 1990.10; 18 (5): 931-932. ( PubMed )

Yuya Hanazono, Yu Hirano, Nobutoshi Ito, Taro Tamada, Kunio Miki. Fine structure analysis of protein: Unraveling molecular details through ultra-high-resolution X-ray and neutron crystallography. 18th International Symposium of The Institute Network 2023.10.06

Xibin Quan, Nobutaka Numoto, Takeshi Tsubata, Nobutoshi Ito. Structure and function analysis of human B cell inhibitory co-receptor CD72. The 23rd Annual Meeting of the Protein Science Society of Japan 2023.07.06

Xibin Quan, Nobutaka Numoto, Takeshi Tsubata, Nobutoshi Ito. Structure analysis of human B cell inhibitory co-receptor CD72. The 60th Annual Meeting of the Biophysical Society of Japan 2022.09.28 Hakodate

Quan Xibin, Nomoto Nobutaka, Tsubata Takeshi, Ito Nobutoshi. ヒトB細胞抑制性共受容体CD72の構造解析(Structure analysis of human B cell inhibitory co-receptor CD72). 生物物理 2022.08.01

Nobutaka Numoto, Kunio Hirata, Chizuru Akatsu, Takeshi Tsubata, Nobutoshi Ito. Molecular mechanism of self-antigen recognition by the ligand binding domain of B cell inhibitory co-receptor CD72. 25th Congress and General Assembly of the International Union of Crystallography 2021.08.20 Prague / on-line hybrid meeting

Alborzian Deh Sheikh A., Li X., Gomaa S., Routledge M., Numoto N., Ito N., Kusunoki S., Tsubata T.. Guillain-Barré syndrome-associated SIGLEC10 rare variant impairs its recognition of gangliosides. 第85回日本インターフェロン・サイトカイン学会学術集会 2021.05.21

Nobutoshi Ito. PDBx/mmCIF format for crystallographic deposition to the Protein Data Bank (PDB). Annual Meeting of The Federation of Korean Societies for Molecular & Biomedical Sciences (FKSBS) 2020.01.10 Gwangju, South Korea

Daisuke Imai, Nobutaka Numoto, Sundaram Arulmozhiraja, Shogo Masuda, Hiroki Kakuta, Hiroaki Tokiwa, Nobutoshi Ito. Structural analysis of NEt-3IB/NEt-4IB-bound Retinoid X Receptor α. 16th Conference of the Asian Crystallographic Association 2019.12.18 Singapore

Teikichi Ikura, Nobutoshi Ito. Micronization of a protease derived from Pin1. The 57th annual meeting of the Biophysical Society of Japan 2019.09.25

沼本修孝, 福森義, 三木邦夫, 伊藤暢聡. 巨大ヘモグロビンのアロステリック中間体における酸素占有率のサブユニットごとの推移. 第19回日本蛋白質科学会年会第71回日本細胞生物学会大会合同年次大会 2019.06.24 神戸

Teikichi Ikura and Nobutoshi Ito. Mutational analysis on the catalytic site of a protease derived from Pin1. The 56th Annual Meeting of the Biophysical Society of Japan 2018.09.15

Yurina Miyashita, Nobutaka Numoto, Sundaram Arulmozhiraja, Shogo Nakano, Naoya Matsuo, Kanade Shimizu, Osamu Shibahara, Michiko Fujiwara, Hiroki Kakuta, Sohei Ito, Teikichi Ikura, Nobutoshi Ito, Hiroaki Tokiwa. Crystal structure of the tetrameric ligand binding domain of RXRalpha complexed with a novel synthetic partial agonist. The 56th Annual Meeting of the Biophysical Society of Japan 2018.09.15

沼本修孝, 山上由莉, 稲葉理美, 河合富佐子, 織田昌幸, 伊藤暢聡. ポリエチレンテレフタラート加水分解酵素Cut190基質複合体の結晶構造. 第18回日本蛋白質科学会年会 2018.06.27 新潟

Kanade Shimizu, Yurina Miyashita, Yuta Yamamoto, Naoya Matsuo, Shogo Nakano, Sohei Ito, Nobutaka Numoto, Nobutoshi Ito, Hiroki Kakuta, Hiroaki Tokiwa. What is the origin of partial agonist activity of CBt-PMN for hRXRα?. Experimental biology 2018 2018.04.24 USA

Yurina Miyashita, Naoya Matsuo, Yuta Yamamoto, Shogo Nakano, Sohei Ito, Nobutaka Numoto, Teikichi Ikura, Nobutoshi Ito, Motohiro Sekiya, Hitoshi Shimano, and Hiroaki Tokiwa. Computational design and molecular mechanism in oligomerization of C-terminal binding protein 2. Experimental biology 2018 2018.04.24 USA

Haru Kawasaki, Harue Sasaki, Hiroyuki Masuno, Emiko Kawachi, Nobutoshi Ito, Hiroyuki Kagechika, Aya Tanatani. Development of Lithocholic Acid Derivatives with A 3-Hydroxyalky Group as Novel Nonsecosteroidal Vitamin D Analogs. Symposium on Frontier of Genomic Medicine ‘Retinoid (Am80, Tamibarotene) as therapeutics for intractable diseases’ 2018.01.29 東京

Teikichi Ikura, Nobutoshi Ito. Quantitative evaluation of activity of a protease derived from Pin1 for tau protein. The 56th Annual Meeting of the Biophysical Society of Japan 2017.09.21 Kumamoto, Japan

Teikichi Ikura, Nobutoshi Ito. Functional conversion from peptidyl-prolyl isomerase to protease by a single amino acid substitution. the joint 19th International Union of Pure and Applied Biophysics 2017.07.17 Edinburgh, UK

伊倉貞吉, 伊藤暢聡. Pin1由来のタンパク質分解酵素の触媒機構. 第17回日本蛋白質科学会年会 2017.06.21 仙台市

Nobutoshi Ito. Protein Data Bank and Structure Deposition at PDBj. CCP4 Crystallography School and Workshop 2017.01.27 SPring8, Harima, Japan

Nobutoshi Ito. Influences of drug binding to protein structure and flexibility. 第１５回駿河台シンポジウム 2016.11.29

Teikichi Ikura, Nobutoshi Ito. Activity of a protease derived from Pin1 for tau protein. The 54th Annual Meeting of the Biophysical Society of Japan 2016.11.26 Tsukuba

Satomi Inaba, Nobutaka Numoto, Shuhei Ogawa, Hisayuki Morii, Teikichi Ikura, Ryo Abe, Nobutoshi Ito, Masayuki Oda. Structural and thermodynamic analysis of interactions between CD28 and SH2 domains. The 54th Annual Meeting of the Biophysical Society of Japan 2016.11.25 Tsukuba

沼本修孝, 中川太郎, 伊藤暢聡, 福森義宏, 三木邦夫. 巨大ヘモグロビン酸素解離中間体のX線結晶構造と分光学的解析. 第54回日本生物物理学会年会 2016.11 茨城

Nobutoshi Ito. Protein Data Bank and Structure Deposition at PDBj. OIST-CCP4 Workshop 2015.11 Okinawa, Japan

Inaba S., Numoto N., Morii H., Ikura T., Abe R., Ito N., Oda M.. Structural and thermodynamic analysis of co-stimulation receptor CD28 phosphopeptide interactions with Grb2, Gads, and PI3-kinese SH2 domains. The 29th Annual Symposium of The Protein Society 2015.07 Palau de Congressos de Barcelona, Barcelona (Spain)

Nobutaka Numoto, Taro Nakagawa, Akiko Kita, Nobutoshi Ito, Yoshihiro Fukumori,Kunio Miki. Partial oxygen-dissociation of crystalline giant hemoglobin. Twenty-Third Congress and General Assembly of the International Union of Crystallography 2014.08 Montreal (Canada)