分子構造情報学

114  件  
※ 登録方法の違いにより重複して表示されている場合があります。

  1. Bekker GJ, Numoto N, Kawasaki M, Hayashi T, Yabuno S, Kozono Y, Shimizu T, Kozono H, Ito N, Oda M, Kamiya N: Elucidation of binding mechanism, affinity and complex structure between mWT1 tumor-associated antigen peptide and HLA-A*24:02. Protein Science. 2023.09; 32 (10): e4775. ( PubMed , DOI )

  2. Yuya Hanazono, Yu Hirano, Taro Tamada, Kunio Miki: Description of peptide bond planarity from high-resolution neutron crystallography Biophysics and Physicobiology. 2023.09; 20 (3): e200035.

  1. Hall D, Basu G, Ito N: Computational biophysics and structural biology of proteins-a Special Issue in honor of Prof. Haruki Nakamura's 70th birthday. Biophysical reviews. 2022.12; 14 (6): 1211-1222. ( PubMed , DOI )

  2. Hanazono Yuya, Hirano Yu, Takeda Kazuki, Kusaka Katsuhiro, Tamada Taro, Miki Kunio: Revisiting the concept of peptide bond planarity in an iron-sulfur protein by neutron structure analysis SCIENCE ADVANCES. 2022.05; 8 (20): eabn2276. ( PubMed , DOI )

  3. 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 )

  4. 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 )

  5. 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 )

  6. 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 )

  7. 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 )

  8. 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. ( 医中誌 )

  1. Lensink MF, Brysbaert G, Mauri T, Nadzirin N, Velankar S, Chaleil RAG, Clarence T, Bates PA, Kong R, Liu B, Yang G, Liu M, Shi H, Lu X, Chang S, Roy RS, Quadir F, Liu J, Cheng J, Antoniak A, Czaplewski C, GiełdoŃ A, Kogut M, Lipska AG, Liwo A, Lubecka EA, Maszota-Zieleniak M, Sieradzan AK, Ślusarz R, Wesołowski PA, ZiĘba K, Del Carpio Muñoz CA, Ichiishi E, Harmalkar A, Gray JJ, Bonvin AMJJ, Ambrosetti F, Honorato RV, Jandova Z, Jiménez-García B, Koukos PI, Van Keulen S, Van Noort CW, Réau M, Roel-Touris J, Kotelnikov S, Padhorny D, Porter KA, Alekseenko A, Ignatov M, Desta I, Ashizawa R, Sun Z, Ghani U, Hashemi N, Vajda S, Kozakov D, Rosell M, Rodríguez-Lumbreras LA, Fernandez-Recio J, Karczynska A, Grudinin S, Yan Y, Li H, Lin P, Huang SY, Christoffer C, Terashi G, Verburgt J, Sarkar D, Aderinwale T, Wang X, Kihara D, Nakamura T, Hanazono Y, Gowthaman R, Guest JD, Yin R, Taherzadeh G, Pierce BG, Barradas-Bautista D, Cao Z, Cavallo L, Oliva R, Sun Y, Zhu S, Shen Y, Park T, Woo H, Yang J, Kwon S, Won J, Seok C, Kiyota Y, Kobayashi S, Harada Y, Takeda-Shitaka M, Kundrotas PJ, Singh A, Vakser IA, DapkŪnas J, Olechnovič K, Venclovas Č, Duan R, Qiu L, Zhang S, Zou X, Wodak SJ: Prediction of protein assemblies, the next frontier: The CASP14-CAPRI experiment. Proteins. 2021.12; 89 (12): 1800-1823. ( PubMed , DOI )

  2. 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. Commun Biol. 2021.10; 4 (1): 1175. ( PubMed , DOI )

  3. 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 Chem Neurosci. 2021.08; 12 (16): 3015-3027. ( PubMed , DOI )

  4. Yosuke Inoue, Yuya Hanazono, Kentaro Noi, Akihiro Kawamoto, Masato Kimatsuka, Ryuhei Harada, Kazuki Takeda, Ryoichi Kita, Natsuki Iwamasa, Kyoka Shibata, Keiichi Noguchi, Yasuteru Shigeta, Keiichi Namba, Teru Ogura, Kunio Miki, Kyosuke Shinohara, Masafumi Yohda: Split conformation of Chaetomium thermophilum Hsp104 disaggregase. Structure. 2021.07; 29 (7): 721-730. ( PubMed , DOI )

  5. 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. ( 医中誌 )

  6. 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 )

  1. 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 )

  2. 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 )

  3. 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 )

  4. 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 )

  5. 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. ( 医中誌 )

  6. Yuya Hanazono, Kazuki Takeda, Kunio Miki: Characterization of perdeuterated high-potential iron-sulfur protein with high-resolution X-ray crystallography. Proteins. 2020.02; 88 (2): 251-259. ( PubMed , DOI )

  1. Yang Tai, Kiyofumi Takaba, Yuya Hanazono, Hoang Anh Dao, Kunio Miki, Kazuki Takeda: X-ray crystallographic studies on the hydrogen isotope effects of green fluorescent protein at sub-ångström resolutions. Acta Crystallogr D Struct Biol. 2019.12; 75 (12): 1096-1106. ( PubMed , DOI )

  2. 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 )

  3. 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. ( 医中誌 )

  4. 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. ( 医中誌 )

  5. 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 )

  6. Kiyofumi Takaba, Yang Tai, Haruhiko Eki, Hoang-Anh Dao, Yuya Hanazono, Kazuya Hasegawa, Kunio Miki, Kazuki Takeda: Subatomic resolution X-ray structures of green fluorescent protein. IUCrJ. 2019.05; 6 (3): 387-400. ( PubMed , DOI )

  7. 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 )

  8. 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 )

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

  10. 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 )

  1. 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 )

  2. 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 )

  3. 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 )

  4. Yuya Hanazono, Kazuki Takeda, Kunio Miki: Co-translational folding of α-helical proteins: structural studies of intermediate-length variants of the λ repressor. FEBS Open Bio. 2018.08; 8 (8): 1312-1321. ( PubMed , DOI )

  5. 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 )

  6. 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 )

  1. 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. ( 医中誌 )

  2. 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. ( 医中誌 )

  3. Hiraku Ohno, Kazuki Takeda, Satomi Niwa, Tomotaka Tsujinaka, Yuya Hanazono, Yu Hirano, Kunio Miki: Crystallographic characterization of the high-potential iron-sulfur protein in the oxidized state at 0.8 Å resolution. PLoS One. 2017.05; 12 (5): e0178183. ( PubMed , DOI )

  4. 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 )

  5. 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 )

  6. 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 )

  1. 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 )

  2. Yuya Hanazono, Kazuki Takeda, Kunio Miki: Structural studies of the N-terminal fragments of the WW domain: Insights into co-translational folding of a beta-sheet protein. Sci Rep. 2016.10; 6 34654. ( PubMed , DOI )

  3. 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 )

  4. Yuya Hanazono, Kazuki Takeda, Kunio Miki: Characterization of the Nqo5 subunit of bacterial complex I in the isolated state. FEBS Open Bio. 2016.06; 6 (7): 687-695. ( PubMed , DOI )

  5. 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 )

  6. Yuya Hanazono, Kazuki Takeda, Satomi Niwa, Masahito Hibi, Naoya Takahashi, Tamotsu Kanai, Haruyuki Atomi, Kunio Miki: Crystal structures of chitin binding domains of chitinase from Thermococcus kodakarensis KOD1. FEBS Lett. 2016.01; 590 (2): 298-304. ( PubMed , DOI )

  7. 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 )

  8. 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. Nat Commun. 2016; 7 11391. ( PubMed , DOI )

  1. 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 )

  2. 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 )

  3. 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 )

  4. Masaki S, Kii I, Sumida Y, Kato-Sumida T, Ogawa Y, Ito N, Nakamura M, Sonamoto R, Kataoka N, Hosoya T, Hagiwara M: 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 )

  5. Morooka S, Hoshina M, Kii I, Okabe T, Kojima H, Inoue N, Okuno Y, Denawa M, Yoshida S, Fukuhara J, Ninomiya K, Ikura T, Furuya T, Nagano T, Noda K, Ishida S, Hosoya T, Ito N, Yoshimura N, Hagiwara M: 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 )

  1. Yamamoto M, Onogi H, Kii I, Yoshida S, Iida K, Sakai H, Abe M, Tsubota T, Ito N, Hosoya T, Hagiwara M: CDK9 inhibitor FIT-039 prevents replication of multiple DNA viruses. J Clin Invest. 2014.08; 124 (8): 3479-3488. ( PubMed , DOI )

  2. 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 )

  1. 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 )

  2. 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 )

  3. 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 )

  4. 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 )

  5. Yuya Hanazono, Kazuki Takeda, Toshihiko Oka, Tetsuya Abe, Taichi Tomonari, Nobuhiko Akiyama, Yoshiki Aikawa, Masafumi Yohda, Kunio Miki: Nonequivalence observed for the 16-meric structure of a small heat shock protein, SpHsp16.0, from Schizosaccharomyces pombe. Structure. 2013.02; 21 (2): 220-228. ( PubMed , DOI )

  6. 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 )

  1. Yuya Hanazono, Kazuki Takeda, Masafumi Yohda, Kunio Miki: Structural studies on the oligomeric transition of a small heat shock protein, StHsp14.0. J Mol Biol. 2012.09; 422 (1): 100-108. ( PubMed , DOI )

  2. 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 )

  3. Nomura W, Masuda A, Ohba K, Urabe A, Ito N, Ryo A, Yamamoto N, Tamamura H: 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 )

  4. 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 )

  1. 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 )

  2. Nomura W, Ohashi N, Okuda Y, Narumi T, Ikura T, Ito N, Tamamura H: Fluorescence-quenching screening of protein kinase C ligands with an environmentally sensitive fluorophore. Bioconjug Chem. 2011.05; 22 (5): 923-930. ( PubMed , DOI )

  3. Kazuki Takeda, Takuro Hayashi, Tetsuya Abe, Yu Hirano, Yuya Hanazono, Masafumi Yohda, Kunio Miki: Dimer structure and conformational variability in the N-terminal region of an archaeal small heat shock protein, StHsp14.0. J Struct Biol. 2011.04; 174 (1): 92-99. ( PubMed , DOI )

  1. Ogawa Y., Nonaka Y., Goto T., Ohnishi E., Hiramatsu T., Kii I., Yoshida M., Ikura T., Onogi H., Shibuya H., Hosoya T., Ito N., Hagiwara M.: Development of a novel selective inhibitor of the Downsyndrome-related kinase Dyrk1A. Nat. Commun.. 2010.10; ( PubMed , DOI )

  2. 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 )

  1. Inaba Y, Yoshimoto N, Sakamaki Y, Nakabayashi M, Ikura T, Tamamura H, Ito N, Shimizu M, Yamamoto K: A New Class of Vitamin D Analogues that Induce Structural Rearrangement of the Ligand-Binding Pocket of the Receptor. J Med Chem. 2009.02; ( PubMed , DOI )

  1. 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 )

  2. 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 )

  3. 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 )

  4. 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 )

  1. 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 )

  2. 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 )

  1. 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 )

  1. 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 )

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  1. 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 )

  2. NAGAI K, OUBRIDGE C, ITO N, AVIS J, EVANS P: THE RNP DOMAIN - A SEQUENCE-SPECIFIC RNA-BINDING DOMAIN INVOLVED IN PROCESSING AND TRANSPORT OF RNA TRENDS IN BIOCHEMICAL SCIENCES. 1995.06; 20 (6): 235-240. ( DOI )

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  5. Ito N, Knowles P F, Phillips S E: X-ray crystallographic studies of cofactors in galactose oxidase. Methods Enzymol. 1995; 258 235-262. ( PubMed )

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  1. Oubridge C, Ito N, Evans P R, Teo C H, Nagai K: Crystal structure at 1.92 A resolution of the RNA-binding domain of the U1A spliceosomal protein complexed with an RNA hairpin. Nature. 1994.12; 372 (6505): 432-438. ( PubMed , DOI )

  2. 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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  2. 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 )

  1. 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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  2. 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 )

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  1. 花園祐矢: 高分解能中性子構造解析によるペプチド平面の再検討 生物物理. 2023.08; 63 (4): 205-206.

  1. 花園祐矢,平野優,玉田太郎,三木邦夫: 高分解能中性子構造から明らかになったタンパク質中のペプチド結合における新しい描像 日本結晶学会誌. 2022.08; 64 (3):

  1. Numoto Nobutaka, Kawano Yoshiaki, Okumura Hideo, Baba Seiki, Fukumori Yoshihiro, Miki Kunio, Ito Nobutoshi: Coarse snapshots of oxygen-dissociation intermediates of a giant hemoglobin elucidated by determining the oxygen saturation in individual subunits in the crystalline state IUCRJ. 2021.11; 8 (Pt 6): 954-962. ( PubMed , DOI )

  2. Numoto N., Hirata K., Akatsu C., Tsubata T., Ito N.: Molecular mechanism of self-antigen recognition by the ligand binding domain of B cell inhibitory co-receptor CD72 ACTA CRYSTALLOGRAPHICA A-FOUNDATION AND ADVANCES. 2021.08; 77 C526.

  3. 棚谷 綾, 吉岡 千咲, 増野 弘幸, 森 修一, 伊藤 暢聡, 影近 弘之, 平田 尚也, 諫田 泰成: リトコール酸をリードとしたビタミンD誘導体の構造展開 ビタミン. 2021.03; 95 (3): 100-101. ( 医中誌 )

  1. 吉原 綾菜, 吉岡 千咲, 川崎 波留, 増野 弘幸, 河内 恵美子, 諫田 泰成, 平田 尚也, 伊藤 暢聡, 影近 弘之, 棚谷 綾: 高いビタミンD活性を有するリトコール酸側鎖誘導体の創製 ビタミン. 2020.04; 94 (4): 287. ( 医中誌 )

  1. 棚谷 綾, 吉岡 千咲, 川崎 波留, 佐々木 晴江, 藤原 葉子, 増野 弘幸, 伊藤 暢聡, 影近 弘之: ビタミンD活性を有するリトコール酸誘導体の構造展開 ビタミン. 2019.08; 93 (8): 370-371. ( 医中誌 )

  1. 細江 雄飛, 稲葉 理美, 沼本 修孝, 伊藤 暢聡, 織田 昌幸: SH2ドメインスワップダイマーが与える安定性と機能への影響評価 日本生化学会大会プログラム・講演要旨集. 2018.09; 91回 [1T11e-04(1P. ( 医中誌 )

  2. 沼本 修孝, 赤津 ちづる, 品川 健朗, 鍔田 武志, 伊藤 暢聡: B細胞抑制性因子CD72とSm/RNPの複合体形成様式の推測 日本生化学会大会プログラム・講演要旨集. 2018.09; 91回 [1P-084]. ( 医中誌 )

  3. 石澤 通康, Otero Rocio, 沼本 修孝, 伊倉 貞吉, 伊藤 暢聡, 常盤 広明, Mourino Antonio, 槇島 誠, 山田 幸子: 25-Adamantyl-1α、25-dihydroxyvitamin D3誘導体の組織選択的活性 ビタミン. 2018.04; 92 (4): 232. ( 医中誌 )

  1. Ikura T., Ito N.: Functional conversion from peptydyl-prolyl isomerase to protease by a single amino acid substitution EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS. 2017.07; 46 S162.

  2. 棚谷 綾, 佐々木 晴江, 川崎 波留, 増野 弘幸, 河内 恵美子, 伊藤 暢聡, 石田 寛明, 山本 恵子, 平野 真梨子, 影近 弘之: 高いビタミンD活性を有するリトコール酸誘導体の創製 ビタミン. 2017.04; 91 (4): 301. ( 医中誌 )

  1. Ikura Teikichi, Kinoshita Kengo, Ito Nobutoshi: [Correlation between structure and function of peptidyl-prolyl isomerase]. Tanpakushitsu Kakusan Koso. 2009.02; 54 (2): 167-172. ( PubMed )

  1. Nakamura Haruki, Ito Nobutoshi, Kusunoki Masami: [Development of PDBj: Advanced database for protein structures]. Tanpakushitsu Kakusan Koso. 2002.06; 47 (8 Suppl): 1097-1101. ( PubMed )

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