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Crystal structure of the extracellular glycoprotein Enpp1

Research Project

Project/Area Number 23687014
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypeSingle-year Grants
Research Field Structural biochemistry
Research InstitutionThe University of Tokyo

Principal Investigator

NISHIMASU Hiroshi  東京大学, 理学(系)研究科(研究院), 助教 (00467044)

Project Period (FY) 2011-04-01 – 2014-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥28,080,000 (Direct Cost: ¥21,600,000、Indirect Cost: ¥6,480,000)
Fiscal Year 2013: ¥7,280,000 (Direct Cost: ¥5,600,000、Indirect Cost: ¥1,680,000)
Fiscal Year 2012: ¥7,020,000 (Direct Cost: ¥5,400,000、Indirect Cost: ¥1,620,000)
Fiscal Year 2011: ¥13,780,000 (Direct Cost: ¥10,600,000、Indirect Cost: ¥3,180,000)
KeywordsEnpp / 骨形成 / X線結晶構造 / 細胞外酵素 / リゾホスファチジルコリン / X線結晶構造解析 / ENPP
Research Abstract

Enpp1 is a membrane-bound glycoprotein that regulates bone mineralization by hydrolyzing extracellular nucleotide triphosphates to produce pyrophosphate. Enpp1 dysfunction causes human diseases characterized by ectopic calcification. Enpp1 also inhibits insulin signaling, and an Enpp1 polymorphism is associated with insulin resistance. However, the precise mechanism by which Enpp1 functions in these cellular processes remains elusive. Here, we report the crystal structures of the extracellular region of mouse Enpp1 in complex with four different nucleotide monophosphates. Structural mapping of disease-associated mutations indicated the functional importance of the interdomain interactions. A structural comparison of Enpp1 with Enpp2, a lysophospholipase D, revealed marked differences in the domain arrangements and active-site architectures. Our findings provide structural insights into how the Enpp family proteins evolved to exert their diverse cellular functions.

Report

(4 results)
  • 2013 Annual Research Report   Final Research Report ( PDF )
  • 2012 Annual Research Report
  • 2011 Annual Research Report
  • Research Products

    (37 results)

All 2014 2013 2012 2011 Other

All Journal Article (14 results) (of which Peer Reviewed: 14 results) Presentation (12 results) (of which Invited: 2 results) Book (2 results) Remarks (2 results) Patent(Industrial Property Rights) (7 results) (of which Overseas: 5 results)

  • [Journal Article] Crystal structure of Cas9 in complex with guide RNA and target DNA2014

    • Author(s)
      Nishimasu H, Ran FA, Hsu PD, Konermann S, Shehata SI, Dohmae N, Ishitani R, Zhang F, Nureki O
    • Journal Title

      Cell

      Volume: 156(5) Issue: 5 Pages: 935-949

    • DOI

      10.1016/j.cell.2014.02.001

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Enpp62014

    • Author(s)
      J. Morita, K. Kato, E. Mihara, R. Ishitani, J. Takagi, H. Nishimasu, J. Aoki, O. Nureki
    • Journal Title

      Acta Crystallogr Sect F Struct Biol Cryst Commun

      Volume: in press

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Structural Basis for Potent Inhibition of SIRT2 Deacetylase by a Macrocyclic Peptide Inducing Dynamic Structural Change2013

    • Author(s)
      Yamagata, K., Goto, Y., Nishimasu, H., Morimoto, J., Ishitani, R., Dohmae, N., Takeda, N., Nagai, R., Komuro, I., Suga, H., Nureki, O
    • Journal Title

      Structure

      Volume: 22 Issue: 2 Pages: 345-352

    • DOI

      10.1016/j.str.2013.12.001

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Screening and X-ray crystal structure-based optimization of autotaxin (ENPP2) inhibitors, using a newly developed fluorescence probe2013

    • Author(s)
      Mitsuyasu Kawaguchi
    • Journal Title

      ACS chemical biology

      Volume: 8 Issue: 8 Pages: 1713-1721

    • DOI

      10.1021/cb400150c

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Zucchini from Drosophila melanogaster2012

    • Author(s)
      Fukuhara S, Nishimasu H, Bonnefond L, Matsumoto N, Ishitani R, Nureki O
    • Journal Title

      Acta Crystallogr

      Volume: F68 Issue: 11 Pages: 1346-1350

    • DOI

      10.1107/s1744309112038936

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] The tRNA recognition mechanism of folate/FAD-dependent tRNA methyltransferase (TrmFO)2012

    • Author(s)
      Yamagami R, Yamashita K, Nishimasu H, Tomikawa C, Ochi A, Iwashita C, Hirata A, Ishitani R, Nureki O, Hori H
    • Journal Title

      J Biol Chem

      Volume: 287 Issue: 51 Pages: 42480-42480

    • DOI

      10.1074/jbc.m112.390112

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structure and function of Zucchini endoribonuclease in piRNA biogenesis.2012

    • Author(s)
      Hiroshi Nishimasu, Hirotsugu Ishizu
    • Journal Title

      Nature

      Volume: 491 Issue: 7423 Pages: 284-287

    • DOI

      10.1038/nature11509

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Specific recognition of linear polyubiquitin by A20 zinc finger 7 is involved in NF-κB regulation2012

    • Author(s)
      Tokunaga F, Nishimasu H, Ishitani R, Goto E, Noguchi T, Mio K, Kamei K, Ma A, Iwai K, Nureki O
    • Journal Title

      EMBO J.

      Volume: 31 Issue: 19 Pages: 3856-3870

    • DOI

      10.1038/emboj.2012.241

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Crystal structure of Enpp1, an extracellular glycoprotein involved in bone mineralization and insulin signaling2012

    • Author(s)
      Kato K, Nishimasu H, Okudaira S, Mihara E, Ishitani R, Takagi J, Aoki J, Nureki O
    • Journal Title

      Proc. Natl Acad. Sci. U. S. A.

      Volume: 109 Issue: 42 Pages: 16876-16881

    • DOI

      10.1073/pnas.1208017109

    • Related Report
      2013 Final Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Molecular Dynamics Simulation of Autotaxin : Roles of the Nuclease-like Domain and the Glycan Modification.2012

    • Author(s)
      Michio Koyama, Hiroshi Nishimasu, Ryuichiro Ishitani, Osamu Nureki
    • Journal Title

      J. Phys. Chem. B

      Volume: 116 Issue: 39 Pages: 11798-11808

    • DOI

      10.1021/jp303198u

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Enpp12012

    • Author(s)
      Kato K, Nishimasu H, Mihara E, Ishitani R, Takagi J, Aoki J, Nureki O
    • Journal Title

      Acta Crystallogr

      Volume: F68 Issue: 7 Pages: 778-782

    • DOI

      10.1107/s1744309112019306

    • Related Report
      2013 Final Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A 3D view of autotaxin2012

    • Author(s)
      Nishimasu H, Ishitani R, Aoki J, Nureki O
    • Journal Title

      Trends Pharmacol Sci

      Volume: 33 Issue: 3 Pages: 138-145

    • DOI

      10.1016/j.tips.2011.12.004

    • Related Report
      2013 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Structural basis for the bifunctionality of fructose-1,6-bisphosphate aldolase/phosphatase2011

    • Author(s)
      Fushinobu S, Nishimasu H, Hattori D, Song HJ, Wakagi T
    • Journal Title

      Nature

      Volume: 478(7370) Issue: 7370 Pages: 538-541

    • DOI

      10.1038/nature10457

    • Related Report
      2013 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 脂質メディエーター産生酵素ATXの結晶構造2011

    • Author(s)
      西増弘志, 高木淳一, 青木淳賢, 濡木理
    • Journal Title

      日本結晶学会誌

      Volume: 53 Pages: 207-212

    • NAID

      10029371554

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Presentation] 骨石灰化やインスリンシグナルに関わる細胞外酵素Enpp1の結晶構造2013

    • Author(s)
      加藤一希、西増弘志、奥平真一、三原恵美子、石谷隆一郎、高木淳一、青木淳賢
    • Organizer
      第13回蛋白質科学会年会
    • Place of Presentation
      とりぎん文化会館(鳥取)
    • Year and Date
      2013-06-12
    • Related Report
      2013 Final Research Report
  • [Presentation] 細胞外酵素Enppファミリーの結晶構造2012

    • Author(s)
      西増弘志
    • Organizer
      大阪大学蛋白質研究所セミナー
    • Place of Presentation
      大阪大学蛋白質研究所(大阪)
    • Year and Date
      2012-10-05
    • Related Report
      2013 Final Research Report
    • Invited
  • [Presentation] Crystal structure of Enpp1, an extracellular glycoprotein involved in bone mineralization and insulin signaling2012

    • Author(s)
      Kato K, Nishimasu H, Okudaira S, Mihara E, Ishitani R, Takagi J, Aoki J, Nureki O
    • Organizer
      Asian Crystallographic Association meeting 2012
    • Place of Presentation
      Adelaid (Australia)
    • Related Report
      2013 Final Research Report
  • [Presentation] Crystal structure of Enpp1, an extracellular glycoprotein involved in bone mineralization and insulin signaling2012

    • Author(s)
      Kato K
    • Organizer
      Asian Crystallographic Association meeting 2012
    • Place of Presentation
      Adelaid, Australia
    • Related Report
      2012 Annual Research Report
  • [Presentation] 細胞外酵素Enppファミリーの結晶構造2012

    • Author(s)
      西増弘志
    • Organizer
      大阪大学蛋白質研究所セミナー
    • Place of Presentation
      大阪大学蛋白質研究所
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 脂質メディエーター産生酵素オートタキシンのX線結晶構造2011

    • Author(s)
      西増弘志、奥平真一、濱弘太郎、三原恵美子、堂前直、井上飛鳥、石谷隆一郎、高木淳一、青木淳賢、濡木理
    • Organizer
      日本結晶学会年会
    • Place of Presentation
      北海道大学(北海道)
    • Year and Date
      2011-11-24
    • Related Report
      2013 Final Research Report
  • [Presentation] 脂質メディエーター産生酵素オートタキシンの結晶構造2011

    • Author(s)
      西増弘志, 奥平真一, 濱弘太郎, 三原恵美子, 堂前直, 井上飛鳥, 石谷隆一郎, 高木淳一, 青木淳賢, 濡木理
    • Organizer
      平成23年度 日本結晶学会年会
    • Place of Presentation
      北海道大学学術交流会館
    • Year and Date
      2011-11-23
    • Related Report
      2011 Annual Research Report
  • [Presentation] 古細菌の糖新生酵素フルクトース-1,6-ビスリン酸アルドラーゼ/ホスファターゼは1つの活性部位で2つの化学反応を触媒する2011

    • Author(s)
      西増弘志, 伏信進矢, 服部大紀, 宋賢珍, 若木高善
    • Organizer
      第84回 日本生化学会大会
    • Place of Presentation
      国立京都国際会館
    • Year and Date
      2011-09-22
    • Related Report
      2011 Annual Research Report
  • [Presentation] 古細菌の糖新生酵素フルクトース-1,6-ビスリン酸アルドラーゼ/ホスファターゼは1つの活性部位で2つの化学反応を触媒する2011

    • Author(s)
      西増弘志
    • Organizer
      第49回 日本生物物理学会年会
    • Place of Presentation
      兵庫県立大学姫路書写キャンパス(招待講演)
    • Year and Date
      2011-09-16
    • Related Report
      2011 Annual Research Report
  • [Presentation] Crystal structure of autotaxin2011

    • Author(s)
      Nishimasu H
    • Organizer
      FASEB Research Conference
    • Place of Presentation
      Lucca (Italy)
    • Year and Date
      2011-08-15
    • Related Report
      2013 Final Research Report
  • [Presentation] 脂質メディエーター産生酵素オートタキシンの結晶構造2011

    • Author(s)
      西増弘志, 奥平真一, 濱弘太郎, 三原恵美子, 堂前直, 井上飛鳥, 石谷隆一郎, 高木淳一, 青木淳賢, 濡木理
    • Organizer
      第11回 日本蛋白質科学会年会
    • Place of Presentation
      ホテル阪急エキスポパーク(大阪府)
    • Year and Date
      2011-06-08
    • Related Report
      2011 Annual Research Report
  • [Presentation] 骨石灰化やインスリンシグナルに関わる細胞外酵素Enpp1の結晶構造

    • Author(s)
      加藤一希
    • Organizer
      第13回蛋白質科学会年会
    • Place of Presentation
      とりぎん文化会館(鳥取)
    • Related Report
      2013 Annual Research Report
  • [Book] 脂質メディエーター産生酵素オートタキシンの構造機能解析、濡木理実験医学2012

    • Author(s)
      石谷隆一郎、西増弘志、高木淳一、青木淳賢
    • Publisher
      羊土社
    • Related Report
      2013 Final Research Report
  • [Book] 実験医学増刊 シグナル伝達研究最前線2012 翻訳後修飾,解析技術,疾患との連関から創薬応用まで2012

    • Author(s)
      石谷隆一郎, 西増弘志, 高木淳一, 青木淳賢, 濡木理
    • Total Pages
      224
    • Publisher
      羊土社
    • Related Report
      2011 Annual Research Report
  • [Remarks] 骨疾患や糖尿病発症に関わるタンパク 質の構造と機能を解明(東京大学大学院理学系研究科プレスリリース)

    • URL

      http://www.s.u-tokyo.ac.jp/ja/press/2012/37.html

    • Related Report
      2013 Final Research Report
  • [Remarks] 骨疾患や糖尿病発症に関わるタンパク質の構造と機能を解明

    • URL

      http://www.s.u-tokyo.ac.jp/ja/press/2012/37.html

    • Related Report
      2012 Annual Research Report
  • [Patent(Industrial Property Rights)] オートタキシン阻害活性を有する 縮合ピラゾール誘導体2014

    • Inventor(s)
      長野哲雄、岡部隆義、小島宏建、 川口充康、濡木理、石谷隆一郎、西増弘 志、青木淳賢、藤越千明、加藤学、大段 正英、田中伸幸
    • Industrial Property Rights Holder
      長野哲雄、岡部隆義、小島宏建、 川口充康、濡木理、石谷隆一郎、西増弘 志、青木淳賢、藤越千明、加藤学、大段 正英、田中伸幸
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2014-037591
    • Filing Date
      2014-02-27
    • Related Report
      2013 Final Research Report
  • [Patent(Industrial Property Rights)] オートタキシン阻害活性を有する8-置換イミダゾピリミジノン誘導体2014

    • Inventor(s)
      長野哲雄、岡部隆義、小島宏建、 川口充康、濡木理、石谷隆一郎、西増弘 志、青木淳賢、藤越千明、田中伸幸、舘 野佑介、和田俊博
    • Industrial Property Rights Holder
      長野哲雄、岡部隆義、小島宏建、 川口充康、濡木理、石谷隆一郎、西増弘 志、青木淳賢、藤越千明、田中伸幸、舘 野佑介、和田俊博
    • Industrial Property Rights Type
      特許
    • Filing Date
      2014-02-27
    • Related Report
      2013 Final Research Report
    • Overseas
  • [Patent(Industrial Property Rights)] Crispr-Cas, Crystal Structure and Uses Thereof2014

    • Inventor(s)
      Feng Zhang, Osamu Nureki, Hiroshi Nishimasu, Ryuichiro Ishitani
    • Industrial Property Rights Holder
      Feng Zhang, Osamu Nureki, Hiroshi Nishimasu, Ryuichiro Ishitani
    • Industrial Property Rights Type
      特許
    • Filing Date
      2014-01-22
    • Related Report
      2013 Final Research Report
    • Overseas
  • [Patent(Industrial Property Rights)] オートタキシン阻害活性を有する縮合ピラゾール誘導体2014

    • Inventor(s)
      長野哲雄、濡木理ら
    • Industrial Property Rights Holder
      長野哲雄、濡木理ら
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2014-037591
    • Filing Date
      2014-02-27
    • Related Report
      2013 Annual Research Report
  • [Patent(Industrial Property Rights)] オートタキシン阻害活性を有する8-置換イミダゾピリミジノン誘導体2014

    • Inventor(s)
      長野哲雄、濡木理ら
    • Industrial Property Rights Holder
      長野哲雄、濡木理ら
    • Industrial Property Rights Type
      特許
    • Filing Date
      2014-02-27
    • Related Report
      2013 Annual Research Report
    • Overseas
  • [Patent(Industrial Property Rights)] Crispr-Cas, Crystal Structure and Uses Thereof2013

    • Inventor(s)
      Feng Zhang, Osamu Nureki, Hiroshi Nishimasu, Ryuichiro Ishitani
    • Industrial Property Rights Holder
      Feng Zhang, Osamu Nureki, Hiroshi Nishimasu, Ryuichiro Ishitani
    • Industrial Property Rights Type
      特許
    • Filing Date
      2013-12-12
    • Related Report
      2013 Final Research Report
    • Overseas
  • [Patent(Industrial Property Rights)] Crispr-Cas, New Nickases and Uses Thereof2013

    • Inventor(s)
      Feng Zhang, Osamu Nureki, Hiroshi Nishimasu
    • Industrial Property Rights Holder
      Feng Zhang, Osamu Nureki, Hiroshi Nishimasu
    • Industrial Property Rights Type
      特許
    • Filing Date
      2013-12-12
    • Related Report
      2013 Final Research Report
    • Overseas

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Published: 2011-04-06   Modified: 2019-07-29  

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