上田 卓見(ウエダ タクミ)

上田 卓見
学位
薬学博士
所属・職位
東京大学大学院薬学系研究科
助教
URL
http://ishimada.f.u-tokyo.ac.jp/public_html/index_j.html
研究分野
構造生物学

主要論文

  1. Shiraishi Y, Natsume M, Kofuku Y, Imai S, Nakata K, Mizukoshi T, Ueda T, Iwai H, Shimada I.
    Phosphorylation-induced conformation of β2-adrenoceptor related to arrestin. recruitment revealed by NMR.
    Nature Communications (2018) 9, 194.
  2. Minato Y, Ueda T, Machiyama A, Iwai H, Shimada I.
    Dynamic domain arrangement of CheA-CheY complex regulates bacterial thermotaxis, as revealed by NMR.
    Scientific Reports (2017) 7, 16462.
  3. Minato Y, Suzuki S , Hara T, Kofuku Y, Kasuya G, Fujiwara Y, Igarashi S, Suzuki E, Nureki O, Hattori M, Ueda T, Shimada I.
    Conductance of P2X4 receptor is determined by conformational equilibrium in the transmembrane region.
    Proc. Natl. Acad. Sci. (2016)113, 4741-4746.
  4. Okude J, Ueda T, Kofuku Y, Sato M, Nobuyama N, Kondo K, Shiraishi Y, Mizumura T, Onishi K, Natsume M, Maeda M, Tsujishita H, Kuranaga T, Inoue M, Shimada I. Identification of a Conformational Equilibrium That Determines the Efficacy and Functional Selectivity of the μ-Opioid Receptor. Angew Chem Int Ed Engl. 2015 Dec 21;54(52):15771-6. doi: 10.1002/anie.201508794. Epub 2015 Nov 16
  5. Yoshiura C, Ueda T, Kofuku Y, Matsumoto M, Okude J, Kondo K, Shiraishi Y, Shimada I. Elucidation of the CCR1- and CCR5-binding modes of MIP-1α by application of an NMR spectra reconstruction method to the transferred cross-saturation experiments. J Biomol NMR. 2015 Dec;63(4):333-40. doi: 10.1007/s10858-015-9992-x. Epub 2015 Oct 15
  6. Ueda T, Yoshiura C, Matsumoto M, Kofuku Y, Okude J, Kondo K, Shiraishi Y, Takeuchi K, Shimada I. Development of a method for reconstruction of crowded NMR spectra from undersampled time-domain data. J Biomol NMR. 2015 Feb 13. [Epub ahead of print]
  7. Kofuku Y, Ueda T, Okude J, Shiraishi Y, Kondo K, Mizumura T, Suzuki S, Shimada I. Functional dynamics of deuterated β2 -adrenergic receptor in lipid bilayers revealed by NMR spectroscopy. Angew Chem Int Ed Engl. 2014 Dec 1;53(49):13376-9. doi: 10.1002/anie.201406603. Epub 2014 Oct 3
  8. Ueda T, Takeuchi K, Nishida N, Stampoulis P, Kofuku Y, Osawa M, Shimada I. Cross-saturation and transferred cross-saturation experiments. Q Rev Biophys. 2014 May;47(2):143-87. doi: 10.1017/S0033583514000043. Epub 2014 Apr 29
  9. Masanori Osawa, Koh Takeuchi, Takumi Ueda, Noritaka Nishida, and *Ichio Shimada, “Functional dynamics of proteins revealed by NMR”, Curr. Opin. Struct. Biol. (2012) 22, 660-669
  10. Yutaka Kofuku, Takumi Ueda, Junya Okude, Yutaro Shiraishi, Keita Kondo, Masahiro Maeda, Hideki Tsujishita, and Ichio Shimada, “Efficacy of the ・2-adrenergic receptor is determined by conformational equilibrium in the transmembrane region”, Nature Commun. (2012) 3, 1045
  11. Takumi Ueda, Naoko Nomoto, Masamichi Koga, Hiroki Ogasa, Yuuta Ogawa, Masahiko Matsumoto, Pavlos Stampoulis, Koji Sode, Hiroaki Terasawa, and Ichio Shimada, “Structural basis of efficient electron transport between photosynthetic membrane proteins and plastocyanin in spinach revealed using nuclear magnetic resonance”, Plant Cell (2012) 24, 4173-4186
  12. Yuichi Minato, Takumi Ueda, Asako Machiyama, Ichio Shimada, and Hideo Iwai, “Segmental isotopic labeling of a 140 kDa dimeric multi-domain protein CheA from Escherichia coli by expressed protein ligation and protein trans-splicing”, J. Biomol. NMR (2012) 53, 191-207
  13. Pavlos Stampoulis, Takumi Ueda, Masahiko Matsumoto, Hiroaki Terasawa, and Ichio Shimada, “Atypical membrane-embedded phosphatidylinositol 3,4-bisphosphate (PI(3,4)P2)-binding site on p47phox Phox homology (PX) domain revealed by NMR., J. Biol. Chem. (2012) 287, 17848-17859
  14. Masanori Osawa, Koh Takeuchi, Takumi Ueda, Noritaka Nishida, and Ichio Shimada, “Functional dynamics of proteins revealed by NMR”, Curr. Opin. Struct. Biol. (2012) 22, 660-669
  15. Shunsuke Imai, Masanori Osawa, Kenichiro Mita, Shou Toyonaga, Asako Machiyama, Takumi Ueda, Kho Takeuchi, Shigetoshi Oiki, and Ichio Shimada, “Functional equilibrium of the KcsA structure revealed by NMR”, J. Biol. Chem. (2012) 287, 39634-39641
  16. Mitsuo Suga, Hidetoshi Nishiyama, Yuji Konyuba, Shinnosuke Iwamatsu, Yoshiyuki Watanabe, Chie Yoshiura, Takumi Ueda, and Chikara Sato, “The Atmospheric Scanning Electron Microscope with open sample space observes dynamic phenomena in liquid or gas”, Ultramicroscopy (2011) 111, 1650-1658
  17. Chie Yoshiura, Yutaka Kofuku, Takumi Ueda, Yoko Mase, Mariko Yokogawa, Masanori Osawa, Yuya Terashima, Kouji Matsushima, and Ichio Shimada, “NMR analyses of the interaction between CCR5 and its ligand using functional reconstitution of CCR5 in lipid bilayers”, J. Am. Chem. Soc. (2010) 132, 6768-6777
  18. Masahiko Matsumoto., Takumi Ueda, and Ichio Shimada, “Theoretical analyses of the transferred cross-saturation method”, J. Magn. Reson. (2010) 205, 114-124
  19. Yutaka Kofuku, Chie Yoshiura, Takumi Ueda, Hiroaki Terasawa, Takahiro Hirai, Sae Tominaga, Masako Hirose, Yoshitake Maeda, Hideo Takahashi, Yuya Terashima, Kouji Matsushima, and Ichio Shimada, “Structural basis of the interaction between chemokine stromal cell-derived factor-1/CXCL12 and its G-protein-coupled receptor CXCR4”, J. Biol. Chem. (2009) 284, 35240-35250
  20. Toshihiko Sugiki, Chie Yoshiura, Yutaka Kofuku, Takumi Ueda, Ichio Shimada, and Hideo Takahashi, “High-throughput screening of optimal solution conditions for structural biological studies by fluorescence correlation spectroscopy”, Protein Sci. (2009) 18, 1115-20
  21. Ichio Shimada, Takumi Ueda, Masahiko Matsumoto, Masayoshi Sakakura, Masanori Osawa, Koh Takeuchi, Noritaka Nishida, and Hideo Takahashi, “Cross-saturation and transferred cross-saturation experiments”, Prog. Nuc. Magn. Reson. Spect. (2009) 54, 123-140
  22. Takumi Ueda, Akira Kato, Seiki Kuramitsu, Hiroaki Terasawa, and Ichio Shimada. “Identification and characterization of a second chromophore of DNA photolyase from Thermus thermophilus HB27”, J. Biol. Chem (2005) .280, 36237-36243
  23. Takumi Ueda, Akira Kato, Yuuta Ogawa, Takuya Torizawa, Seiki Kuramitsu, Shigenori Iwai, Hiroaki Terasawa, and Ichio Shimada, “NMR study of repair mechanism of DNA photolyase by FAD-Induced paramagnetic relaxation enhancement.” J. Biol. Chem. (2004) 279, 52574-52579
  24. Takuya Torizawa, Takumi Ueda, Seiki Kuramitsu, Kenichi Hitomi, Takeshi Todo, Shigenori Iwai, Kosuke Morikawa, and Ichio Shimada, “Investigation of the cyclobutane pyrimidine dimer (CPD) photolyase DNA recognition mechamisn by NMR analyses”, J. Biol. Chem. (2004) 279, 32950-32956