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2001 Fiscal Year Final Research Report Summary

Thermodynamics and Kinetics on the Folding Transition of Single Molecular Chain

Research Project

Project/Area Number 10206204
Research Category

Grant-in-Aid for Scientific Research on Priority Areas (B)

Allocation TypeSingle-year Grants
Research InstitutionKyoto University

Principal Investigator

YOSHIKAWA Kenichi  Kyoto University, Department of Physics, Professor, 大学院・理学研究科, 教授 (80110823)

Co-Investigator(Kenkyū-buntansha) OANA Hidehiro  Kyoto University, Department of Physics, Research Associate, 大学院・理学研究科, 助手 (20314172)
Project Period (FY) 1998 – 2000
KeywordsThermodynamical parameter / Coil - globule transition / Mesoscopic / Single molecular chain / Folding transition / Long DNA chain / Transition entropy / Condensation transition
Research Abstract

A great progress has been attained with our studies on the folding phase transition at the level of a single molecule both in theoretical and experimental approaches. In the theoretical approach, we have employed simulations of molecular dynamics incorporating Brownian motion and kinetic analyses on folding processes of a single molecule. As a result, it has become clear that ordered structures in nanometer scale are generated through the process of nucleation & growth. It has also been indicated that the probability of the nuclear formation is a Poisson-like process and the growth is a time-linear process. It has also become clear that disordered spherical condensed structure is generated by spinodal decomposition in high degree of non-equilibrium. In the experimental approach, studies on transportation and structure regulation of a single polymer chain by use of infrared laser have been developed. Dielectric traps by YAG laser light beam at 1000 nm in wave length were performed with setting the focus within about 1 μm. Under such experimental conditions, chemicai degradation on DNA molecules is avoided. We showed that a long DNA molecule in compact structure formed through folding transition can be easily transported in solution without any chemical modification. We further found that the structure of a long DNA molecule is regulated without any mechanical treatment, by transporting the specimen to the solution with different chemical compositions. Our study provides the principle technology that leads to a LABORATORY for the μm-scaled microscopic chemistry and molecular biology.

  • Research Products

    (12 results)

All Other

All Publications (12 results)

  • [Publications] S.Takagi: "Intra-Molecular Phase Segregation in a Single Polyelectrolyte Chain"J.Chem.Phys.. 114. 6942-6949 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.Yoshikawa: "Self-Assembled Pearling Structure of Long Duplex DNA with Histone H1"Eur.J.Biochem.. 268. 2593-2599 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.Yamasaki: "Disappearance of the Negative Charge in Giant DNA with a Folding Transition"Biophys.J.. 80. 2823-2832 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] S.S.Abramchuk: "Direct Observation of DNA Molecules in a Convection Flow of a Drying Droplet"Europhys.Lett.. 55. 294-300 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] N.Yoshinaga: "Intercalating Fluorescence Dye YOYO-1 Prevents the Folding Transition in Giant Duplex DNA"Biochem.Biophys.Res.Comm.. 286. 264-267 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] T.Sakaue: "Histone Core Slips along DNA and Prefers Positioning at the Chain End"Phys.Rev.Lett.. 87. 078105,1-4 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] S. Takagi, K. Tsumoto and K. Yoshikawa: "Intra-Molecular Phase Segregation in a Single Polyelectrolyte Chain"J. Chem. Phys.. 114. 6942-6949 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Y. Yoshikawa, Y. S. Velichko, Y. Ichiba and K. Yoshikawa: "Self-Assembled Pearling Structure of Long Duplex DNA with Histone H1."Eur. J. Biochem. 268. 2593-2599 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Y. Yamasaki, Y. Teramoto and K. Yoshikawa: "Disappearance of the Negative Charge in Giant DNA with a Folding Transition"Biophys. J.. 80. 2823-2832 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] S. S. Abramchnk, A. R. Khokhlov, T. Iwataki, H. Oana and K. Yoshikawa: "Direct Observation of DNA Molecules in a Convection Flow of a Drying Droplet"Europhys. Lett.. 55. 294-300 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] N. Yoshinaga, T. Akitaya and K. Yoshikawa: "Intercalating Fluorescence Dye YOYO-1 Prevents the Folding Transition in Giant Duplex DNA"Biochem. Biophys. Res. Comm.. 286. 264-267 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] T. Sakaue, K. Yoshikawa, S. H. Yoshimura and K. Takeyasu: "Histone Core Slips along DNA and Prefers Positioning at the Chain End"Phys. Rev. Latt.. 87. 1-4 (2001)

    • Description
      「研究成果報告書概要(欧文)」より

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Published: 2003-09-17  

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