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2011 Fiscal Year Final Research Report

Development of an automatic analysis system at the protein-structural mobility using the electron microscope

Research Project

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Project/Area Number 20300107
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Bioinformatics/Life informatics
Research InstitutionNational Institute of Advanced Industrial Science and Technology

Principal Investigator

OGURA Toshihiko  独立行政法人産業技術総合研究所, バイオメディカル研究部門, 主任研究員 (70371028)

Project Period (FY) 2008 – 2011
Keywords電子顕微鏡 / 画像情報処理 / 生物サンプル / 3次元構造 / タンパク質
Research Abstract

To reconstruct three-dimensional(3D) structure of proteins, we have developed newly 3D reconstruction algorithm and a high-contrast detection system of the biological samples. Our 3D reconstruction method was composed with the modified Simulated-Annealing algorithm with the high accuracy classification method of the class averages from the protein images by the transmission-electron microscopy. This method enables automatically 3D reconstruction from the protein images. Furthermore, we developed high-contrast and low-damage 3D detection system. This system contains a linear array PD system and new 3D reconstruction method.

  • Research Products

    (13 results)

All 2012 2011 2010 2009 2008

All Journal Article (11 results) (of which Peer Reviewed: 11 results) Presentation (2 results)

  • [Journal Article] Direct observation of the inner structure of unstained atmospheric cells by low-energy electrons2012

    • Author(s)
      Toshihiko Ogura
    • Journal Title

      Measurement Science & Technology

      Volume: Vol.23 Pages: 085402(8)

    • DOI

      DOI:10.1088/0957-0233/23/8/085402

    • Peer Reviewed
  • [Journal Article] Three-dimensional X-ray observation of atmospheric biological samples by linear-array scanning-electron generation X-ray microscope system2011

    • Author(s)
      Toshihiko Ogura
    • Journal Title

      PloS ONE

      Volume: Vol.6 Pages: e21516(9)

    • DOI

      DOI:10.1371/journal.pone.0021516

    • Peer Reviewed
  • [Journal Article] Mitsugumin 23 forms a massive bowl shaped assembly and cation-conducting channel2011

    • Author(s)
      Elisa Venruti, Kazuhiro Mio, Miyuki Nishi, Toshihiko Ogura, Toshio Moriya, Samantha Pitt, Kazutaka Okuda, Sho Kakizawa, Rebecca Sitsapesan, Chikara Sato and Hiroshi Takeshima
    • Journal Title

      Biochemistry

      Volume: Vol.50 Pages: 2623-2632

    • DOI

      DOI:10.1021/bi1019447

    • Peer Reviewed
  • [Journal Article] High-resolution x-ray observation of unstained samples by a newly developed SGXM2010

    • Author(s)
      Toshihiko Ogura
    • Journal Title

      Nanotechnology

      Volume: Vol.21 Pages: 295501(7)

    • DOI

      DOI:10.1088/0957-4484/21/29/295501

    • Peer Reviewed
  • [Journal Article] Keap1 is a forked-stem dimmer structure with two large spheres enclosing the intervening, double glycine repeat, and C-terminal domains2010

    • Author(s)
      Toshihiko Ogura, Kit I. Tong, Kazuhiro Mio, Yuusuke Maruyama, Hirofumi Kurokawa, Chikara Sato, Masayuki Yamamoto
    • Journal Title

      Proc. Natl. Acad. Sci. USA

      Volume: Vol.107 Pages: 2842-2847

    • DOI

      DOI:10.1073/pnas.0914036107

    • Peer Reviewed
  • [Journal Article] Direct observation of unstained wet biological samples by scanning-electron generation X-ray microscopy2010

    • Author(s)
      Toshihiko Ogura
    • Journal Title

      Biochem. Biophys. Res. Commun

      Volume: Vol.391 Pages: 198-202

    • DOI

      DOI:10.1016/j.bbrc.2009.11.031

    • Peer Reviewed
  • [Journal Article] Measurement of the unstained biological sample by a novel scanning electron generation X-ray microscope based on SEM2009

    • Author(s)
      Toshihiko Ogura
    • Journal Title

      Biochem. Biophys. Res. Commun.

      Volume: Vol.385 Pages: 624-629

    • DOI

      DOI:10.1016/j.bbrc.2009.05.107

    • Peer Reviewed
  • [Journal Article] RECK forms cowbell-shaped dimers and inhibits matrix metalloproteinase catalyzed cleavage of fibronectin2009

    • Author(s)
      Akira Omura, Tomoko Matsuzaki, Kazuhiro Mio, Toshihiko Ogura, Mako Yamamoto, Akiko Fujita, Katsuya Okawa, Hitoshi Kitayama, Chiaki Takahashi, Chikara Sato and Makoto Noda
    • Journal Title

      J. Biol. Chem.

      Volume: Vol.284 Pages: 3461-3469

    • DOI

      DOI:10.1074/jbc.M806212200

    • Peer Reviewed
  • [Journal Article] Analyzing indirect secondary electron contrast of unstained bacteriophage T4 based on SEM images and Monte Carlo simulations2009

    • Author(s)
      Toshihiko Ogura
    • Journal Title

      Biochem. Biophys. Res. Commun.

      Volume: Vol.380 Pages: 254-259

    • DOI

      DOI:10.1016/j.bbrc.2009.01.046

    • Peer Reviewed
  • [Journal Article] Reconstruction of the P2X2 receptor reveals a vase-shaped structure with lateral tunnels above the membrane2009

    • Author(s)
      Kazuhiro Mio, Toshihiko Ogura, Tomomi Yamamoto, Yoko Hiroaki, Yoshinori Fujiyoshi, Yoshihiro Kubo and Chikara Sato
    • Journal Title

      Structure

      Volume: Vol.17 Pages: 266-275

    • DOI

      DOI:10.1016/j.str.2008.12.007

    • Peer Reviewed
  • [Journal Article] A high contrast method of unstained biological samples under a thin carbon film by scanning electron microscopy2008

    • Author(s)
      Toshihiko Ogura
    • Journal Title

      Biochem. Biophys. Res. Commun

      Volume: Vol.377 Pages: 79-84

    • DOI

      DOI:10.1016/j.bbrc.2008.09.097

    • Peer Reviewed
  • [Presentation] 走査電子顕微鏡を用いた非染色生物試料の高コントラスト・低ダメージ観察方法2012

    • Author(s)
      小椋俊彦
    • Organizer
      日本顕微鏡学会第68回学術講演会
    • Place of Presentation
      つくば
    • Year and Date
      2012-05-16
  • [Presentation] 柔軟な情報処理を用いたタンパク質粒子画像の自動拾い上げ方法と分類2010

    • Author(s)
      小椋俊彦
    • Organizer
      日本顕微鏡学会第66回学術講演会
    • Place of Presentation
      名古屋
    • Year and Date
      2010-05-24

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Published: 2013-07-31  

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