Structural analysis of the quality control mechanism of glycol proteins by SCF Fbs ubiquitin ligase.

2009 Fiscal Year Final Research Report

• Project/Area Number: 19770080
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Single-year Grants
• Research Field: Structural biochemistry
• Research Institution: Nagoya City University (2008-2009); Nagoya University (2007)
• Principal Investigator: MIZUSHIMA Tsunehiro Nagoya City University, 大学院・薬学研究科, 准教授 (90362269)
• Project Period (FY): 2007 – 2009
• Keywords: 分子認識

Research Abstract

The ubiquitin ligase complex SCF^<Fbs1>, which contributes to the ubiquitination of glycoproteins, is involved in the endoplasmic reticulum-associated degradation (ERAD) pathway. To elucidate the structural basis of SCF^<Fbs1> function, we determined the crystal structures of the Skp1-Fbs1 complex, the sugar binding domain (SBD) of the Fbs1-RNaseB complex and Skp1-Fbg3 complex at 2.4, 2.7 and 2.6 A resolutions, respectively. The structure of the Skp1-Fbs1 complex illustrated the SCF^<Fbs1> ubiquitin ligase model.

Research Products

• [Journal Article] Crystal Structure of Yeast Rpn14, a Chaperone of the 19S Regulatory Particle of the Proteasome. (2010)
  • Author(s): Kim S, Saeki Y, Fukunaga K, Suzuki A, Takagi K, Yamane T, Tanaka K, Mizushima T, Kato
  • Journal Title: J. Biol. Chem. (印刷中)
  • Peer Reviewed
• [Journal Article] Structural basis for the cooperative interplay between the two causative gene products of combined factor V and factor VIII deficiency (2010)
  • Author(s): Nishio M, Kamiya Y, Mizushima T, Wakatsuki S, Sasakawa H, Yamamoto K, Uchiyama S, Noda M, McKay AR, Fukui K, Hauri HP, Kato K
  • Journal Title: Proc Natl Acad Sci U S A. 107 Pages: 4034-4039
  • Peer Reviewed
• [Journal Article] Crystallization and preliminary X-ray characterization of the Skp1-Fbg3 complex. (2010)
  • Author(s): Kumanomidou T, Nakagawa T, Mizushima T, Suzuki A, Tokunaga F, Iwai K, Yoshida Y, Tanaka K, Yamane T
  • Journal Title: Acta Crystallographica Section F 66 Pages: 95-98
  • Peer Reviewed
• [Journal Article] Crystal structure of the deubiquitinating enzyme UCH37 (human UCH-L5) catalytic domain. (2009)
  • Author(s): Nishio K, Kim SW, Kawai K, Mizushima T, Yamane T, Hamazaki J, Murata S, Tanaka K, Morimoto
  • Journal Title: Biochem Biophys Res Commun. 390 Pages: 855-860
  • Peer Reviewed
• [Journal Article] 出芽酵母20Sプロテアソーム形成に関わるシャペロン複合体Dmp1/Dmp2の立体構造解析 (2008)
  • Author(s): 八代田英樹、水島恒裕
  • Journal Title: 細胞工学 27 Pages: 474-475
• [Journal Article] The novel structure of a pyridoxal 5'-phosphate-dependent fold-type I racemase, alpha-amino-epsiloncaprolactam racemase from Achromobacter obae. (2008)
  • Author(s): Okazaki S, Suzuki A, Mizushima T, Kawano T, Komeda H, Asano Y, Yamane T
  • Journal Title: Biochemistry 48 Pages: 941-950
  • Peer Reviewed
• [Journal Article] Structural basis for sorting mechanism of p62 in selective autophagy (2008)
  • Author(s): Ichimura Y, Kumanomidou T, Sou Y, Mizushima T, Ezaki, J, Ueno T, Kominami E, Yamane T, Tanaka K, Komatsu M
  • Journal Title: J. Biol. Chem 283 Pages: 22847-22857
  • Peer Reviewed
• [Journal Article] Structure of D-amino-acid amidase complexed with L-phenylalanine with L-phenylalanine amide: insight into D-stereospecificity of D-amino-acid amidase from Ochrobacterum anthropi SV3 (2008)
  • Author(s): Okazaki S, Suzuki A, Mizushima T, Komeda H, Asano Y, Yamane T
  • Journal Title: Acta Cryst. D 64 Pages: 331-334
  • Peer Reviewed
• [Journal Article] Crystal structure of a chaperone complex that contributes to the assembly of yeast 20S proteasomes (2008)
  • Author(s): Yashiroda H, Mizushima T, Okamoto K, Kameyama T, Hayashi H, Kishimoto T, Niwa S, Kasahara M, Kurimoto E, Sakata E, Takagi K, Suzuki A, Hirano Y, Murata S, Kato K, Yamane T, Tanaka K
  • Journal Title: Nat Struct Mol Biol. 15 Pages: 228-236
  • Peer Reviewed
• [Journal Article] Crystal structure of Ufc1, the Ufm1-conjugating enzyme (2007)
  • Author(s): Mizushima T, Tatsumi K, Ozakai Y, Kawakami T, Suzuki A, Ogasahara K, Komatsu M, Kominami E, Tanaka K, Yamane T
  • Journal Title: Biochem Biophys Res Commun 362 Pages: 1079-1084
  • Peer Reviewed
• [Journal Article] Structural basis for the selection of glycosylated substrates by SCFFbs1 ubiquitin ligase. (2007)
  • Author(s): Mizushima T, Yoshida Y, Kumanomidou T, Hasegawa Y, Suzuki A, Yamane T, Tanaka K
  • Journal Title: Proc Natl Acad Sci U S A. 104 Pages: 5777-5781
  • Peer Reviewed
• [Journal Article] Structures and physiological roles of 13 integral lipids of bovine heart cytochrome c oxidase. (2007)
  • Author(s): Shinzawa-Itoh K, Aoyama H, Muramoto K, Terada H, Kurauchi T, Tadehara Y, Yamasaki A, Sugimura T, Kurono S, Tsujimoto K, Mizushima T, Yamashita E, Tsukihara T, Yoshikawa S
  • Journal Title: EMBO Journal 26 Pages: 17131-1725
  • Peer Reviewed
• [Presentation] プロテアソーム制御因子複合体形成シャペロンのX線結晶構造解析 (2009)
  • Author(s): 水島恒裕、金相佑、佐伯泰、田中啓二、加藤晃一
  • Organizer: 特定領域研究 超分子構造第6回公開シンポジウム
  • Place of Presentation: 大阪
  • Year and Date: 20091201-20091202
• [Presentation] ユビキチンリガーゼによる糖タンパク質品質管理における糖鎖認識機構の解析 (2009)
  • Author(s): 水島恒裕、熊埜御堂太一、鈴木淳巨、山根隆、加藤晃一
  • Organizer: 糖鎖科学名古屋拠点第7回「若手の力」フォーラムおよび拠点共同研究報告会
  • Place of Presentation: 名古屋
  • Year and Date: 2009-09-30
• [Presentation] 鎖認識ユビキチンリガーゼFbsファミリーの構造と反応機構 (2009)
  • Author(s): 水島恒裕
  • Organizer: 第4回プロテオミクス・構造生物学講演会
  • Place of Presentation: 岡崎
  • Year and Date: 2009-01-30
• [Presentation] STRUCTURE BASIS FOR RECOGNITION OF GLYCOSYLATED SUBSTRATES BY SCFFbs1 UBIQUITIN LIGASE (2008)
  • Author(s): Mizushima T., Yoshida Y., Kumanomidou T., Yamaguchi Y., Yamane T., Tanaka K., Kato K.
  • Organizer: ZOMES V
  • Place of Presentation: Yokohama, Japan
  • Year and Date: 2008-11-13
• [Presentation] X-ray Structure of the Skp1-Fbs1 glycoprotein complex (2008)
  • Author(s): Mizushima T., Yoshida Y., Kumanomidou T., Hasegawa Y., Suzuki A., Yamane T., Tanaka K.
  • Organizer: FEBS Congress & IUBMB Conference
  • Place of Presentation: Athens, Greece
  • Year and Date: 2008-06-30
• [Presentation] プロテアソームシャペロンDmp1-Dmp2複合体による20Sプロテアソーム分子集合機構 (2008)
  • Author(s): 水島恒裕、八代田英樹、田中啓二
  • Organizer: 日本蛋白質科学会
  • Place of Presentation: 東京
  • Year and Date: 2008-06-12
• [Presentation] X-ray Structure of the Skp1-Fbs1 glycoprotein complex (2007)
  • Author(s): Mizushima T, Yoshida Y, Kumanomidou T, Hasegawa Y, Suzuki A, Yamane T, Tanaka K
  • Organizer: ASCA2007
  • Place of Presentation: Taipei, Taiwan
  • Year and Date: 20071104-20071108
• [Presentation] SCFFbs1ユビキチンリガーゼによる糖蛋白の選択的認識機構 (2007)
  • Author(s): 水島恒裕、吉田雪子、熊埜御堂太一、田中啓二、山根隆
  • Organizer: 日本蛋白質科学会
  • Place of Presentation: 仙台
  • Year and Date: 2007-05-26
• [Book] 蛋白質核酸酵素融合発展する構造生物学とケミカルバイオロジーの最前線 (2009)
  • Author(s): 水島恒裕、田中啓二
  • Total Pages: 1716(1670-1675)
  • Publisher: 共立出版
• [Book] 実験医学増刊号タンパク質の分解機構(SCFFbs1の構造と機能分担執筆) (2008)
  • Author(s): 水島恒裕、吉田雪子
  • Total Pages: 233(81-86)
  • Publisher: 羊土社