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Novel Single Bio-Molecule Measurement using Micro/Nano Machining Technology

Research Project

Project/Area Number 14205035
Research Category

Grant-in-Aid for Scientific Research (A)

Allocation TypeSingle-year Grants
Section一般
Research Field Intelligent mechanics/Mechanical systems
Research InstitutionThe University of Tokyo

Principal Investigator

KIM Beomjoon  The University of Tokyo, Institute of Industrial Science, Associate Professor, 生産技術研究所, 助教授 (60334356)

Co-Investigator(Kenkyū-buntansha) NOJI Hiroyuki  Osaka University, The Institute of Scientific and Industrial Research, Professor, 産業科学研究所, 教授 (00343111)
TAKEUCHI Shoji  The University of Tokyo, Institute of Industrial Science, Associate Professor, 生産技術研究所, 助教授 (90343110)
年吉 洋  東京大学, 生産技術研究所, 助教授 (50282603)
Project Period (FY) 2002 – 2005
Project Status Completed (Fiscal Year 2005)
Budget Amount *help
¥54,080,000 (Direct Cost: ¥41,600,000、Indirect Cost: ¥12,480,000)
Fiscal Year 2005: ¥9,230,000 (Direct Cost: ¥7,100,000、Indirect Cost: ¥2,130,000)
Fiscal Year 2004: ¥8,060,000 (Direct Cost: ¥6,200,000、Indirect Cost: ¥1,860,000)
Fiscal Year 2003: ¥15,210,000 (Direct Cost: ¥11,700,000、Indirect Cost: ¥3,510,000)
Fiscal Year 2002: ¥21,580,000 (Direct Cost: ¥16,600,000、Indirect Cost: ¥4,980,000)
KeywordsBio-molecular motor / Micro / Nano machine / Nano machining technology / MEMS / Biophysics / Single molecule measurement / Nano patterning / マイクロ・ナノマシン
Research Abstract

F1-ATPase is the smallest known rotary motor, and it rotates in an anticlockwise direction as it hydrolyses ATP. Single-molecule experiments point towards three catalytic events per turn, in agreement with the molecular structure of the complex. The physiological function of F1 is ATP synthesis. In the ubiquitous F0F1 complex, this energetically uphill reaction is driven by F0, the partner motor of F1, which forces the backward (clockwise) rotation of F1, leading to ATP synthesis. Here, we have devised an experiment combining single-molecule manipulation and microfabrication techniques to measure the yield of this mechanochemical transformation. Single F1 molecules were enclosed in femtolitre-sized hermetic chambers and rotated in a clockwise direction using magnetic tweezers. When the magnetic field was switched off, the F1 molecule underwent anticlockwise rotation at a speed proportional to the amount of synthesized ATP. We provide here direct evidence that F1 is designed to tightly … More couple its catalytic reactions with the mechanical rotation. Our results suggest that the 1-subunit has an essential function during ATP synthesis. Moreover, we propose a novel technique for patterning active proteins on a glass substrate using a perforated polydimethylsiloxane (PDMS) sheet-sieve. The sieve, which has tapering holes, is fabricated by spin-coating PDMS on a pyramidal-shaped mold. By means of this sieve, FITC (fluorescent isothiocyanate, bovine)-albumin was successfully spotted in an array. The patterned spots were perfectly isolated, which eliminates the problem of non-specific binding of proteins to undesired areas. To show that proteins maintained their activity after the patterning, we used F1-ATPase biomolecular motors ; their activity can easily be verified by observing their rotary motion after patterning. Selective patterning with three kinds of fluorescent micro beads indicated the possibility of patterning of different proteins on the same substrate by using the shadow mask. Less

Report

(5 results)
  • 2005 Annual Research Report   Final Research Report Summary
  • 2004 Annual Research Report
  • 2003 Annual Research Report
  • 2002 Annual Research Report
  • Research Products

    (40 results)

All 2006 2005 2004 Other

All Journal Article (25 results) Book (3 results) Publications (12 results)

  • [Journal Article] Temperature distrivution measurement on microfabricated thermodevice for single biomolecular observation using fluorescent dye2006

    • Author(s)
      Arata, F.H., Low, P., Ishizuka, K., Bergaud, C., Kim, B.J., Noji, H., Fujita, H.
    • Journal Title

      Sensors and Actuators B : Chemical (In press)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Highly reproducible method of planar lipid bilayer reconstitution in polymethyl methacrylate microfluidic chip.2006

    • Author(s)
      Suzuki, H., Tabata, K.V., Noji, H., Takeuchi, S.
    • Journal Title

      Langumuir 22

      Pages: 1937-42

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Temperature Distribution measurement on Microfabricated Thermodevice for Single biomolecular Observation Using fluorescent dye2006

    • Author(s)
      Hideyuki F.Arata, Peter Low, Koji Ishizuka, Christian Bergaud, Beomjoon Kim, Hiroyuki Noji, Hiroyuki Fujita
    • Journal Title

      Sensors and Actuators B (in press)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Highly reproducible method of planar lipid bilayer reconstitution in polymethyl methacrylate microfluidic chip2006

    • Author(s)
      Suzuki H, Tabata KV, Noji H, Takeuchi S.
    • Journal Title

      Langumuir 22

      Pages: 1937-1942

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Highly reproducible method of planar lipid bilayer reconstitution in polymethyl methacrylate microfluidic chip.2006

    • Author(s)
      Suzuki H, Tabata KV, Noji H, Takeuchi S.
    • Journal Title

      Langumuir 22

      Pages: 1937-1942

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Temperature alternation by an on-chip microheater to reveal enzymatic activity of beta-galactosidase at high temperatures.2005

    • Author(s)
      Arata, H.F., Rondelez, Y., Noji, H., Fujita, H.
    • Journal Title

      Anal Chem. 77・15

      Pages: 4810-14

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Activation of pausing F1 motor by external force.2005

    • Author(s)
      Hirono-Hara, Y., Ishizuka, K., Kinosita, K, Jr., Yoshida, M., Noji, H.
    • Journal Title

      Proc. Natl. Acad. Scie. U.S.A. 102

      Pages: 4288-93

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Highly coupled ATP synthesis by F1-ATPase single molecules2005

    • Author(s)
      Rondelez, Y., Tresset, G., Nakashima, T., Kato-Yamada, Y., Fujita, H., Takeuchi, S., Noji, H.
    • Journal Title

      Nature 433

      Pages: 773-77

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Microfabricated arrays of femtoliter chambers allow single molecule enzymology2005

    • Author(s)
      Rondelez, Y., Tresset, G., Tabata KV, Arata H, Fujita H, Takeuchi S, Noji H.
    • Journal Title

      Nature biotechnology 23・3

      Pages: 361-65

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Temperature alternation by an on-chip microheater to reveal enzymatic activity of beta-galactosidase at high temperatures2005

    • Author(s)
      Arata, H.F, Rondelez, Y., Noji, H., Fujita, H.
    • Journal Title

      Anal Chem. 77

      Pages: 4810-4814

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Activation of pausing F1 motor by external force2005

    • Author(s)
      Hirono-Hara Y, Ishizuka K, Kinosita K Jr, Yoshida M, Noji H.
    • Journal Title

      Proc Natl Acad Sci USA. 102

      Pages: 4288-4293

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Highly coupled ATP synthesis by F1-ATPase single molecules2005

    • Author(s)
      Rondelez Y, Tresset G, Nakashima T, Kato-Yamada Y, Fujita H, Takeuchi S, Noji H.
    • Journal Title

      Nature 433

      Pages: 773-777

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Microfabricated arrays of femtoliter chambers allow single molecule enzymology2005

    • Author(s)
      Rondelez Y, Tresset G, Tabata KV, Arata H, Fujita H, Takeuchi S, Noji H.
    • Journal Title

      Nature Biotechnol. 23

      Pages: 361-365

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Temperature alternation by an on-chip microheater to reveal enzymatic activity of beta-galactosidase at high temperatures.2005

    • Author(s)
      Arata HF, Rondelez Y, Noji H, Fujita H.
    • Journal Title

      Anal Chem. 77

      Pages: 4810-4814

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Microfabricated arrays of femtoliter chambers allow single molecule enzymology.2005

    • Author(s)
      Rondelez Y, Tresset G, Tabata KV, Arata H, Fujita H, Takeuchi S, Noji H.
    • Journal Title

      Nat Biotechnol. 23

      Pages: 361-365

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Highly coupled ATP synthesis by F1-ATPase single molecules.2005

    • Author(s)
      Rondelez Y, Tresset G, Nakashima T, Kato-Yamada Y, Fujita H, Takeuchi S, Noji H.
    • Journal Title

      Nature 433

      Pages: 773-777

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Novel micro contact printing technique for Multipatterning of Self-Assembled Monolayers.2005

    • Author(s)
      Janggil Kim, Nobuyuki Takama, Beomjoon Kim
    • Journal Title

      Sensors and Materials Vol.17,No.2

      Pages: 49-56

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Highly coupled ATP synthesis by F1-ATPase single molecules.2005

    • Author(s)
      Rondelez, Y., Tresset, G., Nakashima, T., Kato-Yamada, Y., Fujita, H., Takeuchi, S., Noji, H.
    • Journal Title

      Nature 433

      Pages: 773-777

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Microfabricated arrays of femtoliter chambers allow single molecule enzymology.2005

    • Author(s)
      Rondelez, Y., Tresset, G., Tabata, K., Arata, H., Fujita, H., Takeuchi, S., Noji, H.
    • Journal Title

      Nature Biotechnolog 3

      Pages: 361-365

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Micro patterning of active proteins with perforated PDMS sheets (PDMS sieve).2004

    • Author(s)
      Atsuka K, Noji H, Takeuchi S.
    • Journal Title

      Lab Chip. 4

      Pages: 333-336

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Fabrication of sharp knife-edged micro probe card combined with shadow mask deposition.2004

    • Author(s)
      Younghak, Cho, Tony Kuki, Yamato Fukuda, Hiroyuki Fujita, Beomjoon Kim
    • Journal Title

      Sensors and Actuators A 114・2-3

      Pages: 327-331

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Observation of Self-Assembled Monolayer using the Lateral Resonance of the cantilever in the contact and noncontact regions2004

    • Author(s)
      Y.Hoshi, T.Kawagishi, S.Kawai, D.Kobayashi, JG Kim, Y.Cho, S.Takeuchi, B.J.Kim, H.Kawakatsu
    • Journal Title

      Japanese Journal of Applied Physics 43・7B

      Pages: 4533-4536

    • NAID

      10013431315

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Micro Patterning of Fluorescent Nanoparticles by Atomizers Combined with Electrostatic Deposition and Stencil Mask2004

    • Author(s)
      Joon-Wan Kim, Yutaka Yamagata, Beomjoon Kim, Toshiro Higuchi
    • Journal Title

      Proceeding of IEEE International Micro Electro Mechanical Systems

      Pages: 625-628

    • Related Report
      2004 Annual Research Report
  • [Journal Article] A twin microcantilever array for measurement of red blood cell deformability and electrical impedance2004

    • Author(s)
      Y.H.Cho, N.Takama, B.J.Kim
    • Journal Title

      Technical Digest of 10-IMCS, Chemical Sensors 20・B

      Pages: 346-347

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Nano Scale Surface Patterning by Micro Contact Printing using a Novel Type of PDMS Stamp2004

    • Author(s)
      J.G.Kim, N.Takama, V.Blech, B.J.Kim
    • Journal Title

      Proc. International Symp. on Nanomanufacturing (ISNM2004)

      Pages: 308-311

    • Related Report
      2004 Annual Research Report
  • [Book] 超微細パターニング技術-次世代のナノ・マイクロパターニングプロセス-2006

    • Author(s)
      金範〓(他共著)
    • Total Pages
      333
    • Publisher
      サイエンス&テクノロジー(株)
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Book] chapter 5, Large area micro/nano patterning through Top-down and bottom-up approaches (a chapter contributed to book "Ultra high precision patterning technology-Next generation micro/nano process")2006

    • Author(s)
      Kim BJ.
    • Publisher
      Science & Technology Co.Ltd. (published)
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Book] 超微細パターニング技術-次世代のナノ・マイクロパターニングプロセス-2006

    • Author(s)
      金範じゅん(他共著)
    • Total Pages
      333
    • Publisher
      サイエンス&テクノロジー(株)
    • Related Report
      2005 Annual Research Report
  • [Publications] Gyuman Kim, Beomjoon Kim, Jurgen Brugger: "All-photoplastic microstencil with self-alignment for multiple layer shadow patterning"Sensors and Actuators A. 107. 132-136 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] G.M.Kim, B.J.Kim, B.S.ten Have, F.Segerink, N.F.van Hulst, J.Brugger: "Photoplastic near-field optical probe with sub-100-nm aperture made by replication from a nanomold"J.of Microscopy. Vol.209. 267-271 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Hiroaki Suzuki, Y.Kato-Yamada, Hiroyuki Noji, Shoji Takeuchi: "PLANAR LIPID MEMBRANE ARRAY FOR MEMBRANE PROTEIN CHIP"Proceeding of IEEE International Micro Electro Mechanical Systems. 272-275 (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Yasuda R, Masaike T, Adachi K, Noji H, Itoh H, Kinosita K Jr.: "The ATP-waiting conformation of rotating F1-ATPase revealed by single-pair fluorescence resonance energy transfer."Proc Natl Acad Sci U S A.. 100. 9314-9318 (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Kyoko Atsuta, Hiroyuki Noji, Shoji Takeuchi: "Protein Patterning with PDMS Sieve"Proceeding of IEEE International Micro Electro Mechanical Systems. 330-333 (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Hideyuki Arata, Shoji Takeuchi, Guillaume Tresset, Yanik Rondelez, Hiroyuki Noji, Hiroyuki Fujita: "EMS Devices for Detecting Correspondence between Mechanical Rotation and ATP Consumption in a Single Biomolecular Motor"Proceeding of IEEE International Micro Electro Mechanical Systems. 363-366 (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Beomjoon KIM, Gyuman Kim, Juergen Brugger: "Microstructures and microfabrication using thick photoresist"生産研究. Vol.54No.2. 125-128 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] G.M.Kim, B.J.Kim, M.Liebau, J.Huskens, D.N.Reinhoudt, J.Brugger: "Surface modification with self-assembled monolayers for nanoscale replication of photoplastic MEMS"Journal of MEMS. Vol.11No.3. 175-181 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Ryuji Yokokawa, Shoji Takeuchi, Takahide Kon, Reiko Ohkura, Masaki Edamatsu, Kazuo Sutoh, Hiroyuki Fujita: "Transportation of Micromachined Structures by Biomolecular Linear Motors"Proceeding of IEEE International Micro Electro Mechanical Systems. 8-11 (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] Hiroyuki Noji: "Single-molecule manipulation of F1-motor with magnetic tweezers"The 6th MEMBRANE RESERCH FORUM. 6

    • Related Report
      2002 Annual Research Report
  • [Publications] Hiroyuki Noji: "Mechanism of Molecular Rotary Motor.F1-ATPase"SICE Symposium on System and Information. 51-54 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Hiroyuki Noji: "F1-motor of ATP synthase : Molecular motors.edited by Manfred Schliwa."WILEY=VCH. 141-152 (2002)

    • Related Report
      2002 Annual Research Report

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Published: 2002-04-01   Modified: 2016-04-21  

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