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Elucidation of substrate recognition mechanism of I-CLiP in the trans- and juxta-membrane regions

Research Project

Project/Area Number 26291016
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypePartial Multi-year Fund
Section一般
Research Field Structural biochemistry
Research InstitutionYokohama City University

Principal Investigator

NOGI Terukazu  横浜市立大学, 生命医科学研究科, 准教授 (40379102)

Co-Investigator(Kenkyū-buntansha) 佐藤 毅  大阪大学, たんぱく質研究所, 講師 (90403013)
Co-Investigator(Renkei-kenkyūsha) AKIYAMA Yoshinori  京都大学ウイルス, 再生医科学研究所, 教授 (10192460)
Research Collaborator HIZUKURI Yohei  
OI Rika  
TAKANUKI Kazunori  
TAMURA Risako  
Project Period (FY) 2014-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥16,380,000 (Direct Cost: ¥12,600,000、Indirect Cost: ¥3,780,000)
Fiscal Year 2017: ¥3,510,000 (Direct Cost: ¥2,700,000、Indirect Cost: ¥810,000)
Fiscal Year 2016: ¥3,510,000 (Direct Cost: ¥2,700,000、Indirect Cost: ¥810,000)
Fiscal Year 2015: ¥3,640,000 (Direct Cost: ¥2,800,000、Indirect Cost: ¥840,000)
Fiscal Year 2014: ¥5,720,000 (Direct Cost: ¥4,400,000、Indirect Cost: ¥1,320,000)
Keywordsタンパク質 / シグナル伝達 / 酵素 / 膜タンパク質 / 立体構造解析 / 蛋白質 / 膜蛋白質
Outline of Final Research Achievements

In this project, we carried out structural and biochemical studies on intramembrane cleaving protease (I-CLiP) that catalyzes the regulated intramembrane proteolysis (RIP) so as to elucidate molecular mechanism by which I-CLiP recognizes its substrate membrane protein in the trans-membrane and juxta-membrane regions. Specifically, we studied on bacterial RsePs belonging to the site-2 protease family. It has been shown by our work that bacterial RsePs possess a characteristc intramembrane β-sheet implicated in the substrate binding. Our results contributed to a further understanding of conformational change of substrate membrane proteins within the transmembrane region.

Report

(5 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Annual Research Report
  • 2015 Annual Research Report
  • 2014 Annual Research Report
  • Research Products

    (23 results)

All 2017 2016 2015 2014 Other

All Journal Article (5 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 5 results,  Open Access: 3 results,  Acknowledgement Compliant: 2 results) Presentation (16 results) (of which Int'l Joint Research: 1 results,  Invited: 3 results) Remarks (2 results)

  • [Journal Article] How multi-scale structural biology elucidated context-dependent variability in ectodomain conformation along with the ligand capture and release cycle for LDLR family members.2017

    • Author(s)
      Nogi T
    • Journal Title

      Biophysical Reviews

      Volume: 10 Issue: 2 Pages: 481-492

    • DOI

      10.1007/s12551-017-0362-7

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Structural basis for ligand capture and release by the endocytic receptor ApoER2.2017

    • Author(s)
      Hirai H, Yasui N, Yamashita K, Tabata S, Yamamoto M, Takagi J, Nogi T
    • Journal Title

      EMBO reports

      Volume: 18 Issue: 6 Pages: 982-999

    • DOI

      10.15252/embr.201643521

    • NAID

      130007420865

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] 3D structural analysis of protein O-mannosyl kinase, POMK, a causative gene product of dystroglycanopathy2017

    • Author(s)
      M.Nagae, S.K.Mishra, M.Neyazaki, R.Oi, A.Ikeda, N.Matsugaki, S.Akashi, H.Manya, M.Mizuno, H.Yagi, K.Kato, T.Senda, T.Endo, T.Nogi, and Y.Yamaguchi
    • Journal Title

      Genes Cells

      Volume: - Issue: 4 Pages: 348-359

    • DOI

      10.1111/gtc.12480

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Immunoaffinity Purification of the Glycosylated Extracellular Fragment of Mouse Plexin A2 Produced in a Mammalian Expression System.2017

    • Author(s)
      Nogi T, Mihara E, Yasui N, Takagi J
    • Journal Title

      Methods in Molecular Biology

      Volume: 1493 Pages: 57-72

    • DOI

      10.1007/978-1-4939-6448-2_4

    • ISBN
      9781493964468, 9781493964482
    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Roles of the membrane-reentrant β-hairpin-like loop of RseP protease in selective substrate cleavage2015

    • Author(s)
      Koichiro Akiyama, Shinya Mizuno, Yohei Hizukuri, Hiroyuki Mori, Terukazu Nogi, Yoshinori Akiyama
    • Journal Title

      eLife

      Volume: 4

    • DOI

      10.7554/elife.08928

    • NAID

      120005712942

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Presentation] ApoER2-リーリン複合体の構造から理解するLDLRファミリー受容体におけるリガンド結合と解離2017

    • Author(s)
      禾晃和
    • Organizer
      2017年度生命科学系学会合同年次大会(ConBio2017)
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] 表面プラズモン共鳴法を用いたセマフォリン6DとプレキシンA1の低親和性相互作用の定量化2017

    • Author(s)
      永友芽里、金川櫻、根谷崎牧子、下地恵令奈、池口満徳、禾晃和
    • Organizer
      2017年度生命科学系学会合同年次大会(ConBio2017)
    • Related Report
      2017 Annual Research Report
  • [Presentation] 軸索誘導因子セマフォリンと受容体プレキシンにおける結合選択性の分子基盤2017

    • Author(s)
      田中 翼、根谷崎 牧子、大井 里香、三原 恵美子、野田 勝紀、 内山 進、高木 淳一、禾 晃和
    • Organizer
      2017年度生命科学系学会合同年次大会(ConBio2017)
    • Related Report
      2017 Annual Research Report
  • [Presentation] 抗体断片との共結晶化に向けた標的タンパク質へのPAタグ挿入部位の探索と最適化2017

    • Author(s)
      田村梨沙子、大井里香、有森貴夫、加藤幸成、高木淳一、禾晃和
    • Organizer
      2017年度生命科学系学会合同年次大会(ConBio2017)
    • Related Report
      2017 Annual Research Report
  • [Presentation] 超高親和性タグを内部に挿入した複数回膜貫通型タンパク質の精製法の検討2017

    • Author(s)
      高貫一徳、大井里香、有森貴夫、三宅拓也、檜作洋平、秋山芳展、加藤幸成、高木淳一、禾晃和
    • Organizer
      2017年度生命科学系学会合同年次大会(ConBio2017)
    • Related Report
      2017 Annual Research Report
  • [Presentation] エンドサイトーシス型受容体ApoER2のリガンド結合状態の結晶構造2017

    • Author(s)
      禾晃和
    • Organizer
      第55回日本生物物理学会年会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] ジストログリカノパチー原因遺伝子産物Protein O-Mannosyl Kinase (POMK)の構造生物学的研究2017

    • Author(s)
      長江雅倫、Sushil K. Mishra、根谷崎牧子、大井里香、池田明美、松垣直宏、明石知子、萬谷博、水野真盛、矢木宏和、加藤晃一、千田俊哉、遠藤玉夫、禾晃和、山口芳樹
    • Organizer
      第36回日本糖質学会年会
    • Related Report
      2017 Annual Research Report
  • [Presentation] 神経軸索ガイダンス分子セマフォリンと受容体の相互作用のin silico解析2017

    • Author(s)
      下地恵令奈、山根努、浴本享、禾晃和、池口満徳
    • Organizer
      第17回日本蛋白質科学会年会
    • Related Report
      2017 Annual Research Report
  • [Presentation] 神経軸索ガイダンス分子セマフォリンと受容体プレキシンのタンパク質複合体の分子モデリング2016

    • Author(s)
      下地恵令奈、浴本亨、山根努、禾晃和、池口満徳
    • Organizer
      第16回日本蛋白質科学会年会
    • Place of Presentation
      福岡国際会議場(福岡県福岡市)
    • Year and Date
      2016-06-07
    • Related Report
      2016 Annual Research Report
  • [Presentation] 秋山光市郞、水野慎也、檜作洋平、森博幸、禾晃和、秋山芳展2015

    • Author(s)
      S2Pファミリー膜内切断プロテアーゼRsePの膜内挿入ループ領域を介した基質選別
    • Organizer
      第38回日本分子生物学会年会、第88回日本生化学会大会
    • Place of Presentation
      神戸
    • Year and Date
      2015-12-03
    • Related Report
      2015 Annual Research Report
  • [Presentation] Analysis of the conserved membrane-reentrant loop of RseP, an intramembrane-cleaving protease.2015

    • Author(s)
      Koichiro Akiyama, Shinya Mizuno, Yohei Hizukuri, Hiroyuki Mori, Tarukazu Nogi and Yoshinori Akiyama
    • Organizer
      EAJS2015
    • Place of Presentation
      沖縄科学技術大学院大学
    • Year and Date
      2015-11-12
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 細菌表層ストレス応答制御に関わる膜内切断プロテアーゼRsePのタンデムPDZドメインによる切断基質選別機構の解析2014

    • Author(s)
      檜作洋平、小田 隆、田畑早苗、川上-田村恵子、大井里香、佐藤 衛、高木淳一、禾 晃和、秋山芳展
    • Organizer
      第87回日本生化学会大会
    • Place of Presentation
      京都
    • Year and Date
      2014-10-15 – 2014-10-18
    • Related Report
      2014 Annual Research Report
  • [Presentation] 結晶の中で再現する蛋白質の生理機能2014

    • Author(s)
      禾 晃和
    • Organizer
      第4回CSJ化学フェスタ2014-日本化学会秋季事業-
    • Place of Presentation
      東京
    • Year and Date
      2014-10-14 – 2014-10-16
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Substrate discrimination by size-exclusion in the intramembrane protease RseP.2014

    • Author(s)
      Hizukuri Y, Oda T, Tabata S, Tamura-Kawakami K, Oi R, Sato M, Takagi J, Akiyama Y, and Nogi T
    • Organizer
      IUCr 2014 - 23rd Congress and General Assembly
    • Place of Presentation
      Montreal, Canada
    • Year and Date
      2014-08-05 – 2014-08-12
    • Related Report
      2014 Annual Research Report
  • [Presentation] 大腸菌膜内切断プロテアーゼRsePの保存された膜内挿入ループ領域の機能解析2014

    • Author(s)
      秋山光市郎、水野慎也、檜作洋平、禾 晃和、森 博幸、秋山芳展
    • Organizer
      第14回日本蛋白質科学会年会
    • Place of Presentation
      横浜
    • Year and Date
      2014-06-25 – 2014-06-27
    • Related Report
      2014 Annual Research Report
  • [Presentation] S2Pファミリー膜内切断プロテアーゼRsePの膜内挿入ループ領域の機能解析2014

    • Author(s)
      秋山光市郎、水野慎也、檜作洋平、禾 晃和、森 博幸、秋山芳展
    • Organizer
      第11回 21世紀大腸菌研究会
    • Place of Presentation
      盛岡
    • Year and Date
      2014-06-05 – 2014-06-06
    • Related Report
      2014 Annual Research Report
  • [Remarks] Terukazu NOGI / Yokohama City University

    • URL

      http://www.tsurumi.yokohama-cu.ac.jp/xtal-mls/members/nogi/index.html

    • Related Report
      2017 Annual Research Report 2016 Annual Research Report 2015 Annual Research Report
  • [Remarks] Terukazu NOGI / Yokohama City University

    • URL

      http://www-mls.tsurumi.yokohama-cu.ac.jp/xtal-mls/members/nogi/index.html

    • Related Report
      2014 Annual Research Report

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Published: 2014-04-04   Modified: 2019-03-29  

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