【Paper】<2023><2022><2021> <2020> <2019><2018> <2016> <2015> <2014> <2013> <2012> <2011> <2009> <2008> <2007> <2006> <2005> <2004> <2003> <2002> <~2000>


【review】

【Books】

【Media】

<2023>
１．Nakanishi, A., Kishikawa, J.I., Mitsuoka, K., Yokoyama, K.　Cryo-EM analysis of V/A-ATPase intermediates reveals the transition of the ground-state structure to steady-state structures by sequential ATP binding.  J Biol Chem 299: 102884-102884 (2023)

<2022>
1. Atsuki Nakano, Jun-ichi Kishikawa, Atsuko Nakanishi, Kaoru Mitsuoka, Ken Yokoyama.
Structural basis of unisite catalysis of bacterial F0F1-ATPase. (2022) PNAS Nexus, Volume 1, Issue 3, July 2022, pgac116

2. Christoph Gerle, Jun-Ichi Kishikawa, Tomoko Yamaguchi, Atsuko Nakanishi, Orkun Çoruh, Fumiaki Makino, Tomoko Miyata, Akihiro Kawamoto, Ken Yokoyama, Keiichi Namba, Genji Kurisu, Takayuki Kato. Structures of Multisubunit Membrane Complexes With the CRYO ARM 200. Microscopy (Oxford University Press) (2022) 71(5) 249-261

3. Jun-ichi Kishikawa,  Atsuko Nakanishi., Atsuki Nakano, Shiori Saeki, Takayuki Kato, Kaoru Mitsuoka, and Ken Yokoyama
Structural snapshots of V/A-ATPase reveal the rotary catalytic mechanism of rotary ATPases
Nature Communications  volume 13, Article number: 1213 (2022)

<2021>
1. Jun-ichi Kishikawa,  Atsuko Nakanishi., Atsuki Nakano, Shiori Saeki, Takayuki Kato, Kaoru Mitsuoka, and Ken Yokoyama
Structural snapshots of V/A-ATPase reveal a new paradigm for rotary catalysis. (2021) bioBxiv
 doi: https://doi.org/10.1101/2021.10.26.465817

 <2020>

1. Kishikawa J, Nakanishi A, Furuta A, Tamakoshi M, Mitsuoka K, and *Yokoyama K. Mechanical inhibition of isolated V o from V/A-ATPase for proton conductance. (2020) Elife e56862

2. Ikeda T, Kishikawa J, Hayashida Y, Fujikawa M, Yokoyama K. Identification of chemical compounds as an inhibitor of mitochondrial ATP synthesis, leading to an increased stress resistance and an extended lifespan in C. elegans. (2020) Biocim Biophys Acta Bioenerg  (2020) Nov 1;1861(11):148281.

<2019>

1.   Nakanishi A, Kishikawa J, Mitsuoka K, Yokoyama K.   Cryo-EM studies of the rotary H+-ATPase/synthase from Thermus thermophilus. (2019) Biophysics and Physicobiology 140-146


<2018>
1. Atsuko Nakanishi, Kishikawa Jun-ichi, Masatada Tamakoshi, Kaoru Mitsuoka, and Ken Yokoyama
   Cryo EM structure of intact rotary H+-ATPase/synthase from Thermus thermophilus
   Nature Communications 9, Article number: 89 (2018) doi:10.1038/s41467-017-02553-6

2. Jun-ichi Kishikawa, Yuki Inoue, Makoto Fujikawa, Kenji Nishimura, Atsuko Nakanishi, Tsutomu Tanabe,
    Hiromi Imamura , Ken Yokoyama
    General anesthetics cause mitochondrial dysfunction and reduction of intracellular ATP levels
    PLOS ONE  January 3, 2018 https://doi.org/10.1371/journal.pone.0190213

<2016>
1. Mihori Baba, Kousuke Iwamoto, Ryota Iino, Hiroshi Ueno, Mayu Hara, Atsuko Nakanishi, Jun-ichi Kishikawa,
    Hiroyuki Noji, and Ken Yokoyama*
    Rotation of artificial rotor axles in rotary molecular motors.
    Proc Natl Acad Sci U S A. 2016 ; published ahead of print September 19, 2016, doi:10.1073/pnas.1605640113

<2015>
1. Hauer F, Gerle C, Fischer N, Oshima A, Shinzawa-Itoh K, Shimada S4 Yokoyama K, Fujiyoshi Y,  Stark H
    GraDeR: Membrane Protein Complex Preparation for Single-Particle Cryo-EM
    Structure. 2015 Aug 10. pii: S0969-2126(15)00291-9. doi: 10.1016/j.str.2015.06.029.

2. Atsuko Nakanishi1, Jun-ichi Kishikawa1, Masatada Tamakoshi, Ken Yokoyama*
    The Ingenious Structure of Central RotorApparatus in VoV1; Key for Both Complex. Disassembly and Energy Coupling
     betweenV1 and Vo
   PLos One. Vol. 10(3), e0119602. doi:10.1371/ journal.pone.0119602

<2014>
1. Kishikawa J, Seino A, Nakanishi A, Tirtom NE, Noji H, Yokoyama K, Hayashi K.
    F-subunit reinforces torque generation in V-ATPase.
   Eur Biophys J. 2014 Sep;43(8-9):415-22.

2 #Kishikawa J., #Nakanishi A., Furuike S., Tamakoshi M., Yokoyama K., (#equally contribution)
    Molecular basis of ADP-inhibition of V type ATPase/synthase
    J. Biol. Chem. Vol. 289(1), 403-412

3. Ijiri T.W., Kishikawa J., Imamura H., Iwao Y., Yokoyama K., Sato K.,
    ATP imaging in Xenopus laevis oocyte.
    "Sexual Reproduction in Animals and Plants", Springer Japan, Sawada H., Inoue N., Iwano M. (eds.) pp 181-186.

<2013>

1.#Tsuyama T., #Kishikawa J., Han Y.W., Harada Y., Tsubouchi A., Noji H., Kakizuka A., Yokoyama K., Uemura T., Imamura H., (#equally contribution)
    In vivo fluorescent ATP imaging of Drosophila melanogaster and Caenorhabditis elegans by using a genetically encoded fluorescent ATP biosensor optimized for low tempaeratures.
    Anal. Chem. Vol. 85(16), 7889-7896

2. Kishikawa J., Ibuki T., Nakamura S., Nakanishi A., Minamino T., Miyata T., Namba K., Konno H., Ueno H., *Imada K., *Yokoyama K.,
    Common evolutionary origin for the rotor domain of rotary ATPases and Flagellar protein export apparatus.
    PLos One. Vol. 8(5), e64695

3. Tani K., Arthur C., Tamakoshi M., Yokoyama K., Mitsuoka K., Fujiyoshi Y., *Gerle C.,
    Visualization of Two distinct states of disassembly in the bacterial V-ATPase from Thermus thermophilus.
    Microscopy. doi: 10.1093/jmicro/dft0201.

4. Tritom NE., Okuno D., Nakano M., Yokoyama K., *Noji H.,
    Mechanical Modulation of ATP-Binding Affinity of V1-ATPase.
    J. Biol. Chem. Vol. 288(1), 619-623

<2012>

1. Uner NE., Nishikawa Y., Okuno D., Nakano M., Yokoyama K., Noji H.
    Single-molecule analysis of inhibitory pausing states of V1-ATPase
    J. Biol. Chem. Vol. 287(34), pp28327-28335

2. Kishikawa J., *Yokoyama K. Paper of the week!  JBC's Best Papers of 2012!
    Reconstitution of Vacuolar type rotary H+-ATPase/synthase from Thermus thermophilus.
    J. Biol. Chem. Vol. 287(29), pp24597-24603

3. *Hayashi K., Tanigawara M., Kishikawa J.
    Measurement of the driving forces of bio-motors using the fluctuation theorem (Fluctuation theorem applied to bio-motors)
    BIOPHYSICS Vol. 8, pp67-72

4. Kishikawa J., Fujikawa M., Imamura H., Yasuda K., Noji H., Ishii N., Mitani S., *Yokoyama K.
    Expression of ATP sensor protein in Caenorhabditis elegans.
    Microsc. Res. Tech. Vol. 75(1),  pp15-19

<2011>

1. 本研究室が参加しているターゲットタンパク研究プログラム（文部科学省）の事後 研究報告書
    全体の報告書（文部科学省・ターゲットタンパク研究プログラムのHP）

2. Furuike S, Nakano M, Adachi K, Noji H, *Kinosita K Jr.,*Yokoyama K.
    Resolving stepping rotation in Thermus thermophilus H+-ATPase/synthase with an essentially drag free probe. <download>
    Nature Commun., Vol. 2,  233,doi: 10.1038/ncomms1215 (2011)

<2009>

1. Maher MJ, Akimoto S, Iwata M, Nagata K, Hori Y, Yoshida M, Yokoyama S, *Iwata S, *Yokoyama K.　
    Crystal structure of A3B3 complex of V-ATPase from Thermus thermophilus.　 <download>
    EMBO J., Vol. 28, P 3771-3779 (2009)

2. Kanno R, Koike-Takeshita A, Yokoyama K, Taguchi H, *Mitsuoka K.
    Cryo-EM structure of the native GroEL-GroES complex from Thermus thermophilus encapsulating substrate inside the cavity. 　　<download>
    Structure., Vol. 17, P287-293 (2009)

3. Takeda M, Ikeda C, Shimabukuro K, Yoshida M, *Yokoyama K.
    Mechanism of inhibition of Tributyltin chloride of the V type Molecular Motor. 　　<download>
    Biophys. J., Vol. 96, P 1210-1217 (2009)

<2008>

4. Nakano M, Imamura H, Toei M, Tamakoshi M, Yoshida M, *Yokoyama K.
    ATP Hydrolysis and Synthesis of a Rotary Motor V-ATPase from Thermus thermophilus.　 <download>
    J. Biol. Chem., Vol. 282, P 20789-20796 (2008)

5. Jormakka,　M., Yokoyama, K., Yano, T., Tamakoshi, M., Akimoto, S., Shimamura, T., Curmi, P., and *Iwata, S.
    Molecular mechanism of energy conservation in polysulfide respiration.　 <download>
    Nat Struct Mol Biol., Vol. 15, P 730-737 (2008)

<2007>

6. Toei, H., Gerle, C., Nakano, N., Tani, K., Gyobu, N., Tamakoshi, M., Nobuhito Sone, N., Yoshida, M., Fujiyoshi, Y., *Mitsuoka, K., and *Yokoyama, K.
    Dodecamer rotor ring defines H+/ATP ratio for ATP synthesis of prokaryotic V-ATPase from Thermus thermophilus.　 <download>
    Proc Natl Acad Sci U S A., Vol. 103, P 20256 –20261 (2007)

<2006>

7. Imamura, H., Funamoto, S., Yoshida, M. and *Yokoyama, K.
    Reconstitution in vitro of V1 complex of Thermus thermophilus V-ATPase revealed that ATP binding to the A subunit is crucial for V1 formation.　 <download>
    J. Biol. Chem., Vol. 281, P 38582-38592 (2006)

8. Gerle, C., Tani, K., Yokoyama, K., Tamakoshi, M., Yoshida, M., Fujiyoshi, Y., *Mitsuoka, K.
    Two-dimensional Crystallization and Analysis of Projection Images of Intact Thermus thermophilus V-ATPase.　 <download>
    J. Structural Biology, Vol. 153, p 200-206 (2006)

9. Koike-Takeshita, A., Shimamura, T., Yokoyama, K., Yoshida, M., and *Taguchi, H.
    Leu-309 plays a critical role in the encapsulation of substrate protein into the internal cavity of GroEL.　 <download>
    J. Biol. Chem., Vol. 281, P 962-967 (2006)

<2005>

10. Imamura, H., Takeda, M., Funamoto, S., Yoshida, M., and *Yokoyama, K.
      Rotation scheme of V1-motor is different from that of F1-motor.　 <download>
      Proc Natl Acad Sci U S A., Vol. 102, P 17929-17933 (2005)

11. Makyio H., Iino R., Ikeda C., Imamura, H., Tamakoshi, M., Iwata, M., Stoch, D., Bernal, A. B., Yoshida, M., *Yokoyama, K., and *Iwata, S.　
      Structure of a central stalk subunit F of V-ATPase/synthase from Thermus thermophilus.　 <download>
      EMBO.J., Vol. 24, P 3974-3983 (2005)

<2004>

12. Imamura, H., Ikeda, C., Yoshida, M., and *Yokoyama, K.
      The F subunit of Thermus thermophilus V1-ATPase promotes ATPase activity but is not necessary for rotation.　 <download>
      J. Biol. Chem., Vol. 279, P 18085-18090 (2004)

13. Shimamura, T., Koike-Takeshita, A., Yokoyama, K., Masui, R., Murai, N., Yoshida, M., Hideki, T., and Iwata, S
      Crystal structure of the native chaperonin complex from Thermus thermophilus revealed unexpected asymmetry at the cis-Cavity.　 <download>
      Structure, Vol. 12, P 1417-1480 (2004)

14. Iwata M, Imamura H, Stambouli E, Ikeda C, Tamakoshi M, Nagata K, Makyio H, Hankamer B, Barber J, Yoshida M, *Yokoyama K, *Iwata S.
      Crystal structure of a central stalk subunit C and reversible association/dissociation of vacuole-type ATPase.　 <download>
      Proc Natl Acad Sci U S A., Vol. 101, P 59-64 (2004)

<2003>

15. *Yokoyama K, Nagata K, Imamura H, Ohkuma S, Yoshida M, Tamakoshi M.
       Subunit arrangement in V-ATPase from Thermus thermophilus.　 <download>
       J. Biol. Chem., Vol. 278, P 42686-42691 (2003)

16. Zhan H, Yokoyama K, Otani H, Tanigaki K, Shirota N, Takano S, *Ohkuma S.　
      Different roles of proteolipids and 70-kDa subunits of V-ATPase in growth and death of cultured human cells.　 <download>
      Genes Cells, Vol. 8, P 501-513 (2003)

17. Shimamura T, Koike-Takeshita A, Yokoyama K, Yoshida M, Taguchi H, *Iwata S.
      Crystallization of the chaperonin GroEL-GroES complex from Thermus thermophilus HB8.
      Acta Crystallogr D Biol Crystallogr., Vol. 59, P 1632-1634 (2003)

18. *Yokoyama K, Nakano M, Imamura H, Yoshida M, Tamakoshi M.
      Rotation of the proteolipid ring in the V-ATPase.　 <download>
      J. Biol. Chem., Vol. 278, P 24255-24258 (2003)

19. Imamura H, Nakano M, Noji H, Muneyuki E, Ohkuma S, Yoshida M, *Yokoyama K.
      Evidence for rotation of V1-ATPase.　 <download>
      Proc Natl Acad Sci U S A., Vol. 100, P 2312-2315 (2003)

<2002>

20. Yokoyama K, Fukumoto K, Murakami T, Harada S, Hosono R, Wadhwa R, Mitsui Y, *Ohkuma S.
      Extended longevity of Caenorhabditis elegans by knocking in extra copies of hsp70F, a homolog of mot-2 (mortalin)/mthsp70/Grp75.　 <download>
      FEBS. Lett., Vol. 516, P 53-57 (2002)

<2000>

21. *Yokoyama, K., Ohkuma, S., K.,Taguchi, H., Yasunaga, T., Wakabayashi, T., and Yoshida, M.
      V-Type ATPase/synthase from Thermus thermophilus, Subunit Structure and Operon.　 <download>
      J. Biol. Chem., Vol. 275, P 13955-13961 (2000)

<~1999>

22. *Ohto, C., Ishida, C., Koike-Takeshita, A., Yokoyama, K. Muramatsu, M., Nishino, T., and Obata, S.
        Subunit arrangement in V-ATPase from Thermus thermophilus.
        Biosci. Biothechnol. Biochem., Vol. 63, P 261-270 (1999)

23. Ohta, T., Tajima, H., Yachie, A., Yokoyama, K., Elnemr, A., Fushida, S., Kitagawa, H., Kayahara, M., Nishimura, G., Miwa, K., Yamamoto, M., Terada, T., *Ohkuma, S.
      Activated lansoprazole inhibits cancer cell adhesion to extracellular matrix components.
      Intern. J. Oncol., Vol. 359, P 53-55 (1999)

24. *Yokoyama, K., Muneyuki, E., Amano, T., Mizutani, S., Yoshida, M., and Ohkuma, S.
        V-ATPase from Thermus thermophilus is inactivated during ATP hydrolysis but can synthesis ATP.
        J. Biol. Chem., Vol. 273, P 12248-12252 (1998)

25. Konno, H., Matsuya, H., Okamoto, N., Sato, T., Tanaka, T., Yokoyama, K., Kataoka, K., Nagai, K., Wasserman, H.H., and *Ohkuma, S.
      Prodigiosins uncouple mitochondrial and bacterial F-ATPases: evidence for their H+/Cl- symport activity.
      J. Biochem. (Tokyo), Vol. 124, P 547-556 (1998)

26. Yokoyama, K, Akabane, Y., Ishii, N., and *Yoshida, M.
      Isolation of prokaryotic VoV1-ATPase from a thermophilic eubacterium Thermus thermophilus.
      J. Biol. Chem., Vol. 269, P 12248-12253 (1994)

27. Paik-SR; Yokoyama, K., Yoshida, M., Ohta, T., Kagawa, Y., and *Allison, W.S.
      The TF1-ATPase and ATPase activities of assembled a3b3g, a3b3gd, and a3b3ge complexes are stimulated by low and inhibited by high concentrations of rhodamine 6G whereas the dye only inhibits the a3b3, and a3b3d complexes.
      J-Bioenerg-Biomembr., Vol. 25, P 679-684 (1993)

28. Hisabori, T., Muneyuki, E., Odaka, M., Yokoyama, K., Mochizuki, K.,
      Single site hydrolysis of 2',3'-O-(2,4,6-trinitrophenyl)-ATP by the F1-ATPase from thermophilic bacterium PS3 is accelerated by the chase-addition of excess ATP.
      J. Biol. Chem., Vol. 267, P 4551-4555 (1992)

29. Tsutsumi, S., Yokoyama, K., Oshima, T., and *Yoshida, M.
      Molecular cloning of genes encoding major two subunits of a eubacterial V-type ATPase from Thermus thermophilus.
      Biochim. Biophys. Acta., Vol. 1098, P 13-20 (1992)

30. *Shirakihara, Y., Yohda, M., Kagawa, Y., Yokoyama, K., and Yoshida, M.
        Purification by dye-ligand chromatography and a crystallization study of the F1-ATPase and its major subunits, beta and alpha, from a thermophilic bacterium, PS3.
        J. Biochem. (Tokyo), Vol. 109, P 466-471 (1991)

31. Yokoyama, K., Oshima., T., and *Yoshida, M.
      Thermus thermophilus membrane-associated ATPase. Indication of a eubacterial V-type ATPase.
      J. Biol. Chem., Vol. 265, P 21946-21950 (1990)

32. Fujiyama, Y., Yokoyama, K., *Yoshida, M., and *Wakabayashi, T.
      Electron microscopy of the reconstituted complexes of the F1-ATPase with various subunit constitution revealed the location of the gamma subunit in the central cavity of the molecule.
      FEBS-Lett., Vol. 271, P 111-115 (1990)

33. Yokoyama, K., Hisabori, T., and *Yoshida, M.
      The reconstituted a3b3d complex of the thermostable F1-ATPase.
      J. Biol. Chem., Vol. 264, P 21837-21841 (1989)

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【reviews】
1. Nakanishi A, Kishikawa J, Mitsuoka K, Yokoyama K.   Cryo-EM studies of the rotary H+-ATPase/synthase from Thermus thermophilus. (2019) Biophysics and Physicobiology 140-146

2. 今村博臣、横山　謙      二つの回転分子モーター蛋白質；V-ATPase と FOF1 の共通性と多様性
生化学 第79巻 第5号 pp425-437 (2007)

3. 村田武士、山登一郎、柿沼喜己、横山　謙　
V-ATPase の新しい機能とその構造からみえてきたメカニズム
蛋白質 核酸 酵素 Vol. 52 pp335-341 (2007)

4. 横山　謙
明らかになった V-ATPase の構造と機能
実験医学 Vol.24 No.17 pp2583-2587 (2006)

5. *Yokoyama, K., and Imamura, H.
Rotation, Structure, and Classification of Prokaryotic V-ATPase.
J. Bioenergetics and Biomembranes., Vol. 37, P 405-410 (2005)

6. 横山　謙、西　毅
精巧な仕組みをもつプロトンポンプ、 V 型 ATPase
蛋白質 核酸 酵素 Vol. 49 pp2035-2043 (2004)

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【Books】

「クライオ電子顕微鏡ハンドブック」
第4章　第1節　クライオスナップショットによる V/A-ATPase の回転機構の解明
横山　謙
エヌティーエヌ出版 (2022)

（共著）
「膜タンパク質構造研究」　岩田想 編
Chapter 22 膜タンパク質の１分子観察　　横山 謙、古池 晶、岸川 淳一
化学同人 （2013）


「非侵襲.可視化技術ハンドブック　ー　ナノ・バイオ　医療から情報システムまで　ー」
第7章　１分子可視化と操作、第６節　回転分子モーターの１分子イメージング
エヌティーエヌ出版 (2007)

【Media】
2020年 7月 ATP動態に関する研究結果

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2020 年3月 Vo の構造
読売新聞オンライン
https://yab.yomiuri.co.jp/adv/local/release/detail/40453.html
SankeiBiz
https://www.sankeibiz.jp/business/news/200731/prl2007312128225-n1.htm
AFP通信（AFPBB News） 
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北海道新聞
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新潟日報
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紀伊民報
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沖縄タイムス
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ORICON NEWS
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Infoseek
https://news.infoseek.co.jp/article/digitalprplatform_40453
BIGLOBE
https://news.biglobe.ne.jp/economy/0731/prp_200731_6657448932.html
excite
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@nifty
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eltha
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財経新聞
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Mapion
https://www.mapion.co.jp/news/release/dgpr40453/

2011年3月15日　京都新聞

2011年3月8日　日刊工業新聞

2011年3月8日　日本経済産業新聞

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