• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to project page

2010 Fiscal Year Final Research Report

PROTEIN WORLD STUDIED BY PROTEIN DISTRIBUTION IN FAMILIES

Research Project

  • PDF
Project/Area Number 20370058
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Biophysics
Research InstitutionNagoya University

Principal Investigator

MITAKU Shigeki  Nagoya University, 工学研究科, 教授 (10107542)

Co-Investigator(Renkei-kenkyūsha) YOKOYAMA Yasunori  名古屋大学, 大学院・工学研究科, 助教 (80402486)
Project Period (FY) 2008 – 2010
Keywords理論生物学 / バイオインフォマティクス
Research Abstract

The validity of the concept of protein world was investigated by analyzing all amino acid sequences from the total genomes of many organisms, using a high performance membrane protein predictor. The analyses of the distribution of exons containing membrane spanning regions lead to the conclusion that the exon shuffling extensively occurred in eukaryotic genomes. The number distribution of transmembrane regions in membrane proteins was analyzed for real genomes and simulated genomes of prokaryotic genomes. The result indicated that the single exponential distribution is due to the equilibrium of the change in the transmembrane numbers. The results for both eukaryotes and prokaryotes suggested that the families of membrane proteins have already reached to the equilibrium of random processes in genomes.

  • Research Products

    (14 results)

All 2011 2010 2009 2008 Other

All Journal Article (10 results) (of which Peer Reviewed: 10 results) Presentation (2 results) Book (1 results) Remarks (1 results)

  • [Journal Article] How are exons encoding transmembrane sequences distributed in the exon-intron structure of genes?.2011

    • Author(s)
      R.Sawada, S.Mitaku
    • Journal Title

      Genes to Cells 16(1)

      Pages: 151-121

    • Peer Reviewed
  • [Journal Article] Effect of lipid phase transition on molecular assembly and structural stability of bacteriorhodopsin reconstituted into phosphatidylcholine liposomes with different acyl-chain lengths2010

    • Author(s)
      Y.Yokoyama, L.Negishi, T.Kitoh, M.Sonoyama, Y.Asami, S.Mitaku
    • Journal Title

      J.Phys.Chem.B 114(47)

      Pages: 15706-15711

    • Peer Reviewed
  • [Journal Article] SOSUImp1: high performance prediction system for single-spanning membrane proteins2010

    • Author(s)
      T.Tsuji, F.Akazawa, R.Sawada, S.Mitaku
    • Journal Title

      Chem-Bio Informatics J. 10

      Pages: 61-73

    • Peer Reviewed
  • [Journal Article] Structural changes in bacteriorhodopsin in purple membranes induced by irreversible photobleaching with heterogeneous and homogeneous stability2010

    • Author(s)
      Y.Yokoyama, M.Sonoyama, S.Mitaku
    • Journal Title

      Photochem.Photobiol 147

      Pages: 127-133

    • Peer Reviewed
  • [Journal Article] Characteristic amino acid distribution around segments unique to allergens2010

    • Author(s)
      N.Asakawa, N.Sakiyama, R.Teshima, S.Mitaku
    • Journal Title

      J.Biochem. 147

      Pages: 127-133

    • Peer Reviewed
  • [Journal Article] Effect of molecular assembly on photocycle of reconstituted bacteriorhodopsin : significant blue shift of the late M intermediate in the liquid crystalline phase2009

    • Author(s)
      M.Sonoyama, T.Kikukawa, Y.Yokoyama, M.Demura, N.Kamo, S.Mitaku
    • Journal Title

      Chem.Lett. 38

      Pages: 1134-1135

    • Peer Reviewed
  • [Journal Article] Prediction of fragile points of coiled coils2009

    • Author(s)
      H.Tanizawa, M.Taniguchi, G.D.Ghimire, S.Mitaku
    • Journal Title

      Chem-Bio Informatics J. 38

      Pages: 12-29

    • Peer Reviewed
  • [Journal Article] SOSUI-GramN: high performance prediction for sub-cellular localization of proteins in Gram-negative bacteria2008

    • Author(s)
      K. Imai, N.Asakawa, T.Tsuji, F.Akazawa, A.Ino, M.Sonoyama, S.Mitaku
    • Journal Title

      Bioinformation 2(9)

      Pages: 417-421

    • Peer Reviewed
  • [Journal Article] A high performance prediction system of coiled coil domains containing heptad breaks2008

    • Author(s)
      H.Tanizawa, G.D.Ghimire, S.Mitaku
    • Journal Title

      SOSUIcoil, Chem-Bio Informatics J. 8

      Pages: 96-111

    • Peer Reviewed
  • [Journal Article] Physicochemical properties of GPCR amino acid sequences for understanding GPCR-G-protein coupling2008

    • Author(s)
      G.D.Ghimire, H.Tanizawa, M.Sonoyama, S.Mitaku
    • Journal Title

      Chem- Bio Informatics J. 8

      Pages: 49-57

    • Peer Reviewed
  • [Presentation] BMB2010 ワークショップ「膜タンパク質の構造・機能から見るオルガネラの進化-膜貫通分布領域からみたオルガネラの進化-2010

    • Author(s)
      美宅成樹
    • Organizer
      第33回日本分子生物学会年会・第83回日本生化学会大会
    • Place of Presentation
      神戸ポートアイランド他国内学会24件
    • Year and Date
      2010-12-07
  • [Presentation] Numbers of membrane proteins coded in 248 prokaryote genomes2009

    • Author(s)
      R.Sawada, R.Ke, T.Tsuji, M.Sonoyama, S.Mitaku
    • Organizer
      53th Annual meeting of Biophysical Society,Boston Convention and Exhibition Center, USA
    • Place of Presentation
      他国際会議11件
    • Year and Date
      2009-02-28
  • [Book] 世界に通じる科学英語論文の書き方 執筆・投稿・査読・発表2010

    • Author(s)
      R.A.ガイル・B.ガステル著美宅成樹訳
    • Total Pages
      322
    • Publisher
      丸善株式会社
  • [Remarks] ホームページ等

    • URL

      http://bp.nuap.nagoya-u.ac.jp/sosui/sosuigramn/sosuigramn_submit.html

URL: 

Published: 2012-01-26   Modified: 2016-04-21  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi