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Structural bases of spliceosome indepemdent splicing

Research Project

Project/Area Number 20370038
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Structural biochemistry
Research InstitutionNara Institute of Science and Technology

Principal Investigator

KOJIMA Chojiro  Nara Institute of Science and Technology, 蛋白質研究所, 准教授 (50333563)

Co-Investigator(Kenkyū-buntansha) HAKOSHIMA Toshio  奈良先端科学技術大学院大学, 情報科学研究科, 教授 (00164773)
OHKI Izuro  奈良先端科学技術大学院大学, バイオサイエンス研究科, 助教 (80418574)
Project Period (FY) 2008 – 2010
Project Status Completed (Fiscal Year 2010)
Budget Amount *help
¥20,540,000 (Direct Cost: ¥15,800,000、Indirect Cost: ¥4,740,000)
Fiscal Year 2010: ¥6,370,000 (Direct Cost: ¥4,900,000、Indirect Cost: ¥1,470,000)
Fiscal Year 2009: ¥5,980,000 (Direct Cost: ¥4,600,000、Indirect Cost: ¥1,380,000)
Fiscal Year 2008: ¥8,190,000 (Direct Cost: ¥6,300,000、Indirect Cost: ¥1,890,000)
Keywords構造生物学 / NMR / RNA / タンパク質 / 分子認識
Research Abstract

Structural bases of spliceosome indepemdent splicing found on IRE1 pathway in ER stress response, are investigated. Specifically an RNase domain of yeast Ire1p and its target mRNAs are applied to structural and interaction study. Based on NMR data, secondary structures of the RNase domain and the target mRNAs are determined. Cleavage experiments and NMR titration experiments of many mutants have revealed the site-specific RNase reaction mechanism of Ire1p.

Report

(4 results)
  • 2010 Annual Research Report   Final Research Report ( PDF )
  • 2009 Annual Research Report
  • 2008 Annual Research Report
  • Research Products

    (61 results)

All 2011 2010 2009 2008 Other

All Journal Article (24 results) (of which Peer Reviewed: 16 results) Presentation (33 results) Book (2 results) Remarks (2 results)

  • [Journal Article] 14-3-3 proteins act as intracellular receptors for rice Hd3a florigen.2011

    • Author(s)
      Ken-ichiro Taoka, Izuru Ohki, Hiroyuki Tsuji, Kyoko Furuita, Kokoro Hayashi, Tomoko Yanase, Midori Yamaguchi, Chika Nakashima, Yekti Asih Purwestri, Shojiro Tamaki, Yuka Ogaki, Chihiro Shimada, Atsushi Nakagawa, Chojiro Kojima, Ko Shimamoto
    • Journal Title

      Nature, accepted in principle

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Functional expression of a two-transmembrane HtrII protein using cell-free synthesis.2011

    • Author(s)
      Yuki Sudo, Rikou Tanaka, Toshitatsu Kobayashi, Naoki Kamo, Toshiyuki Kohno, Chojiro Kojima
    • Journal Title

      Biophysics (accepted)

    • NAID

      130000741389

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] 1H, 13C and 15N NMR assignments of the Escherichia coli Orf135 protein.2011

    • Author(s)
      Kumiko Kawasaki, Momoko Yoneyama, Naoko Murata-Kamiya, Hideyoshi Harashima, Chojiro Kojima, Yutaka Ito, Hiroyuki Kamiya, Masaki Mishima
    • Journal Title

      Biomol.NMR Assign. in press

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structural feature of bent DNA recognized by HMGB1.2011

    • Author(s)
      Kyoko Furuita, Shunpei Murata, JunGoo Jee, Satoshi Ichikawa, Akira Matsuda, Chojiro Kojima
    • Journal Title

      J.Am.Chem.Soc. 133

      Pages: 5788-5790

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structural Feature of Bent DNA Recognized by HMGB12011

    • Author(s)
      Furuita, et al.
    • Journal Title

      J.Am.Chem.Soc.

      Volume: 133(印刷中)

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Efficient protein production method for NMR using soluble protein tags with cold shock expression vector.2010

    • Author(s)
      林こころ, 児嶋長次郎
    • Journal Title

      J.Biomol.NMR 48

      Pages: 147-155

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Electrostatic interaction between oxysterol binding protein and VAMP-associated protein-A revealed by NMR and mutagenesis studies.2010

    • Author(s)
      Kyoko Furuita, JunGoo Jee, Harumi Fukada, Masaki Mishima, Chojiro Kojima
    • Journal Title

      J.Biol.Chem. 285

      Pages: 12961-12970

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] The structure of the N-terminal regulatory domain of a plant NADPH oxidase and its functional implications.2010

    • Author(s)
      Takashi Oda, Hiroshi Hashimoto, Naoyuki Kuwabara, Satoko Akashi, Kokoro Hayashi, Chojiro Kojima, Hann Ling Wong, Tsutomu Kawasaki, Ko Shimamoto, Mamoru Sato, Toshiyuki Shimizu
    • Journal Title

      J.Biol.Chem. 285

      Pages: 1435-1445

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] The structure of the N-terminal regulatory domain of a plant NADPH oxidase and its functional implications2010

    • Author(s)
      Takashi Oda
    • Journal Title

      J.Biol.Chem. 285

      Pages: 1435-1445

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Stator assembly and activation mechanism of the flagellar motor by the periplasmic region of MotB.2009

    • Author(s)
      Seiji Kojima, Katsumi Imada, Mayuko Sakuma, Yuki Sudo, Chojiro Kojima, Tohru Minamino, Michio Homma, Keiichi Namba
    • Journal Title

      Mol.Microbiol. 73

      Pages: 710-718

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Preparations of hammerhead ribozymes for investigations of their cleavable sequences.2009

    • Author(s)
      Hisaaki Tateoka, Ikumi kawahara, Satomi Hasegawa, Kaichiro Haruta, Yoshinori Kondo, Chojiro Kojima, Yoshiyuki Tanaka
    • Journal Title

      Nucleic Acids Symp.Ser. 53

      Pages: 277-278

    • Related Report
      2010 Final Research Report
  • [Journal Article] NMR studies of HAC1 mRNA.2009

    • Author(s)
      Ikumi kawahara, Kaichiro Haruta, Chojiro Kojima, Yoshiyuki Tanaka
    • Journal Title

      Nucleic Acids Symp.Ser. 53

      Pages: 269-270

    • Related Report
      2010 Final Research Report
  • [Journal Article] NMR studies of DNA recognition mechanism of HMGB1 protein.2009

    • Author(s)
      Kyoko Furuita, Shunpei Murata, JunGoo Jee, Satoshi Ichikawa, Akira Matsuda, Chojiro Kojima
    • Journal Title

      Nucleic Acids Symp.Ser. 53

      Pages: 89-90

    • Related Report
      2010 Final Research Report
  • [Journal Article] コールドシ ョックベクターと可溶性タグの組み合わせによる大腸菌大量発現系2009

    • Author(s)
      林こころ・児嶋長次郎
    • Journal Title

      生物物理 49

      Pages: 210-211

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] 可溶性タン パク質発現のための新規大腸菌大量発現ベクター2009

    • Author(s)
      林こころ・児嶋長次郎
    • Journal Title

      実験医学 27

      Pages: 927-932

    • Related Report
      2010 Final Research Report
  • [Journal Article] NMR studies of HACI mRNA2009

    • Author(s)
      Ikumi kawahara
    • Journal Title

      Nucleic Acids Symp.Ser. 53

      Pages: 269-270

    • Related Report
      2009 Annual Research Report
  • [Journal Article] Preparations of hammerhead ribozymes for investigations of their cleavable sequences2009

    • Author(s)
      Hisaaki Tateoka
    • Journal Title

      Nucleic Acids Symp.Ser. 53

      Pages: 277-278

    • Related Report
      2009 Annual Research Report
  • [Journal Article] pCold-GST vector : A novel cold-shock vector containing GST tag for soluble protein production.2008

    • Author(s)
      林こころ, 児嶋長次郎
    • Journal Title

      Protein Expr.Purif. 62

      Pages: 120-127

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Crystallographic characterization of the N-terminal domain of plant NADPH oxidase.2008

    • Author(s)
      Takashi Oda, Hiroshi Hashimoto, Naoyuki Kuwabara, Kokoro Hayashi, Chojiro Kojima, Tsutomu Kawasaki, Ko Shimamoto, Mamoru Sato, Toshiyuki Shimizu
    • Journal Title

      Acta Crystallogr. F64

      Pages: 867-869

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] A long-lived M-like state of phoborhodopsin that mimics the active state.2008

    • Author(s)
      Yuki Sudo, Tatsuya Nishihori, Masayuki Iwamoto, Kazumi Shimono, Chojiro Kojima, Naoki Kamo
    • Journal Title

      Biophys.J. 95

      Pages: 753-760

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Enzymatic Characterization of 5-Methylthioribulose 1-phosphate Dehydratase of the Methionine Salvage Pathway from Bacillus subtilis.2008

    • Author(s)
      Hiroki Ashida, Yohtaro Saito, Chojiro Kojima, Akiho Yokota
    • Journal Title

      Biosci.Biotechnol.Biochem. 72

      Pages: 959-967

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] NMR structural study of DNA oligomers containing alkylene cross-linked cyclic 2'-dioxyuridylate dimmers.2008

    • Author(s)
      Kyoko Furuita, Shunpei Murata, JunGoo Jee, Akira Matsuda, Chojiro Kojima
    • Journal Title

      Nucleic Acids Symp.Ser. 52

      Pages: 181-182

    • Related Report
      2010 Final Research Report
  • [Journal Article] Na^+/H^+交換輸送体の機能制御機構2008

    • Author(s)
      林こころ・児嶋長次郎
    • Journal Title

      生化学 80

      Pages: 925-932

    • NAID

      10022594651

    • Related Report
      2010 Final Research Report
  • [Journal Article] pCold-GST vector : a novel cold-shock vector containing GST tag for soluble protein production2008

    • Author(s)
      Kokoro Hayashi
    • Journal Title

      Protein Expr Purif. 62

      Pages: 120-127

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Presentation] Carbon-13 direct measurement by 950MHz NMR at IPR2010

    • Author(s)
      古板恭子, 池上貴久, 藤原敏道, 児嶋長次郎
    • Organizer
      2010 Korea-Japan Bilateral Symposium on Protein Structure and Folding
    • Place of Presentation
      Seoul National University, Seoul, Korea
    • Year and Date
      2010-11-26
    • Related Report
      2010 Final Research Report
  • [Presentation] Protein NMR study using 13C-methylated lysines2010

    • Author(s)
      服部良一, 大木出, 古板恭子, 池上貴久, 深田はるみ, 白川昌宏, 藤原敏道, 児嶋長次郎
    • Organizer
      2010 Korea-Japan Bilateral Symposium on Protein Structure and Folding
    • Place of Presentation
      Seoul National University, Seoul, Korea
    • Year and Date
      2010-11-26
    • Related Report
      2010 Final Research Report
  • [Presentation] Non-linear sampling applied to low-concentration protein sample2010

    • Author(s)
      JunGoo Jee, Yuki Nishigaya, Rikou Tanaka, Toshiyuki Kohno, Chojiro Kojima
    • Organizer
      Pacifichem 2010
    • Place of Presentation
      Hawaii Convention Center, Honolulu, USA
    • Related Report
      2010 Final Research Report
  • [Presentation] NMRを用いた蛋白質リジンを介する静電的相互作用の解析2010

    • Author(s)
      服部良一、大木出、古板恭子、池上貴久、深田はるみ、白川昌宏、藤原敏道、児嶋長次郎
    • Organizer
      平成22年度日本分光学会年次講演会
    • Place of Presentation
      京都大学百周年時計台記念館、京都
    • Related Report
      2010 Final Research Report
  • [Presentation] 高速データサンプリング技術を用いたNMRの感度向上2010

    • Author(s)
      児嶋長次郎
    • Organizer
      平成22年度日本分光学会年次講演会
    • Place of Presentation
      京都大学百周年時計台記念館、京都
    • Related Report
      2010 Final Research Report
  • [Presentation] 950MHz NMRによる蛋白質の13C直接観測2010

    • Author(s)
      古板恭子、池上貴久、藤原敏道、児嶋長次郎
    • Organizer
      第49回NMR討論会
    • Place of Presentation
      タワーホール船堀、東京
    • Related Report
      2010 Final Research Report
  • [Presentation] 13Cメチル基をプローブとして用いるリジン側鎖を介した塩橋の解析法の開発2010

    • Author(s)
      服部良一、大木出、古板恭子、池上貴久、深田はるみ、白川昌宏、藤原敏道、児嶋長次郎
    • Organizer
      第49回NMR討論会
    • Place of Presentation
      タワーホール船堀、東京
    • Related Report
      2010 Final Research Report
  • [Presentation] NMR analysis of Ire1p induced HAC1 mRNA processing2010

    • Author(s)
      Ikumi Kawahara, Kaichiro Haruta, Chojiro Kojima, Yoshiyuki Tanaka
    • Organizer
      The 48th Annual Meeting of the Biophysical Society of Japan
    • Place of Presentation
      Tohoku University, Sendai, Japan
    • Related Report
      2010 Final Research Report
  • [Presentation] NMR and mutagenesis studies of theinteraction of ER membrane protein VAP-Awith intrinsically disordered proteinOSBP2010

    • Author(s)
      Kyoko Furuita, JunGoo Jee, Harumi Fukada, Masaki Mishima, Chojiro Kojima
    • Organizer
      XXIVth International Conference on Magnetic Resonance in Biological Systems
    • Place of Presentation
      Cairns Convention Centre, Cairns, Australia
    • Related Report
      2010 Final Research Report
  • [Presentation] A labeling technology for investigating supramolecular complexes by 13C methylation of lysine sidechain2010

    • Author(s)
      大木出, 児嶋長次郎
    • Organizer
      XXIVth International Conference on Magnetic Resonance in Biological Systems
    • Place of Presentation
      Cairns Convention Centre, Cairns, Australia
    • Related Report
      2010 Final Research Report
  • [Presentation] リジン選択的13Cメチルラベル法を用いた蛋白質間相互作用の解析2010

    • Author(s)
      服部良一、大木出、古板恭子、池上貴久、深田はるみ、白川昌宏、藤原敏道、児嶋長次郎
    • Organizer
      第10回蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター、札幌
    • Related Report
      2010 Final Research Report
  • [Presentation] NMR analysis of Irelp induced HAC1 mRNA processing2010

    • Author(s)
      Kawahara, et al.
    • Organizer
      The 48^<th> Annual Meeting of the Biophysical Society of Japan
    • Place of Presentation
      Tohoku University, Sendai
    • Related Report
      2010 Annual Research Report
  • [Presentation] NMR study of HAC1 mRNA recognized by endoplasmic reticulum stress sensor Ire1p(NMR を用いた小胞体ストレスセンサータンパク質Ire1pの基質認識機構の解析)2009

    • Author(s)
      Ikumi Kawahara, JunGoo Jee, Rikou Tanaka, Toshiyuki Kohno, Toshio Hakoshima, Yusuke Imagawa, Kenji Kohno, Yoshiyuki Tanaka, Chojiro Kojima
    • Organizer
      The 32nd Annual Meeting of the Molecular Biology Society of Japan(日本分子生物学会年会)
    • Place of Presentation
      Pacifico Yokohama, Yokohama, Japan
    • Related Report
      2010 Final Research Report
  • [Presentation] コールドショックベクターと可溶性タグの組み合わせによる発現系構築とNMRへの応用2009

    • Author(s)
      林こころ、児嶋長次郎
    • Organizer
      第48回NMR討論会
    • Place of Presentation
      九州大学医学部百年講堂、福岡
    • Related Report
      2010 Final Research Report
  • [Presentation] オキシステロール結合タンパク質OSBPのdisorder領域と小胞体膜貫通タンパク質VAP-Aとの複合体形成機構2009

    • Author(s)
      古板恭子、Jee JunGoo、深田はるみ、三島正規、児嶋長次郎
    • Organizer
      第48回NMR討論会
    • Place of Presentation
      九州大学医学部百年講堂、福岡
    • Related Report
      2010 Final Research Report
  • [Presentation] Non-linear Sampling Utilized for Low-concentration Protein Sample2009

    • Author(s)
      児嶋長次郎
    • Organizer
      The 3rd Biannual Asia-Pacific NMR Symposium
    • Place of Presentation
      Ramada Plaza Jeju Hotel, Jeju, Korea
    • Related Report
      2010 Final Research Report
  • [Presentation] コールドショ ックベクターを用いた可溶性タンパク質発現技術2009

    • Author(s)
      林こころ、児嶋長次郎
    • Organizer
      第82回日本生化学会大会
    • Place of Presentation
      神戸ポートアイランド、神戸
    • Related Report
      2010 Final Research Report
  • [Presentation] NMR studies of HAC1 mRNA2009

    • Author(s)
      Ikumi Kawahara, Kaichiro Haruta, Chojiro Kojima, Yoshiyuki Tanaka
    • Organizer
      The 6th International Symposium on Nucleic Acids Chemistry 2009
    • Place of Presentation
      Takayama Public Cultural Hall, Takayama, Japan
    • Related Report
      2010 Final Research Report
  • [Presentation] コールドショ ックベクターと可溶性タグの組み合わせによるタンパク質試料調製技術2009

    • Author(s)
      林こころ、児嶋長次郎
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ、熊本
    • Related Report
      2010 Final Research Report
  • [Presentation] pCold-GST : A simple and efficient protein production system2009

    • Author(s)
      児嶋長次郎
    • Organizer
      International Symposium on Molecular Soft Interactions in Biological Systems
    • Place of Presentation
      Senri Life Science Center, Toyonaka, Japan
    • Related Report
      2010 Final Research Report
  • [Presentation] NMRを用いた小胞体ストレスセンサータンパク質Irelpの基質認識機構の解析2009

    • Author(s)
      河原郁美
    • Organizer
      第32回 日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜(横浜市)
    • Related Report
      2009 Annual Research Report
  • [Presentation] A novel cold-shock vector for protein expression in E. coli2008

    • Author(s)
      児嶋長次郎
    • Organizer
      Korea-Japan Bilateral Symposium on Biological NMR
    • Place of Presentation
      Seoul National University, Seoul, Korea
    • Year and Date
      2008-04-25
    • Related Report
      2010 Final Research Report
  • [Presentation] タンパク質NMRの新技術-濃度下限への挑戦-2008

    • Author(s)
      児嶋長次郎
    • Organizer
      BMB2008(第31回日本分子生物学会年会・第81回日本生化学会大会合同大会)
    • Place of Presentation
      神戸ポートアイランド、神戸
    • Related Report
      2010 Final Research Report
  • [Presentation] 可溶性タンパク質発現に有効な新規大腸菌大量発現系の構築と応用2008

    • Author(s)
      林こころ、児嶋長次郎
    • Organizer
      BMB2008(第31回日本分子生物学会年会・第81回日本生化学会大会合同大会)
    • Place of Presentation
      神戸ポートアイランド、神戸
    • Related Report
      2010 Final Research Report
  • [Presentation] ステロールセンサータンパク質OSBPの小胞体局在機構2008

    • Author(s)
      古板恭子、Jee JunGoo、深田はるみ、三島正規、児嶋長次郎
    • Organizer
      BMB2008(第31回日本分子生物学会年会・第81回日本生化学会大会合同大会)
    • Place of Presentation
      神戸ポートアイランド、神戸
    • Related Report
      2010 Final Research Report
  • [Presentation] 酵母Ire1pによって部位特異的な切断を受けるRNAのNMR構造解析2008

    • Author(s)
      河原郁美、Jee JunGoo、箱嶋敏雄、今川佑介、河野憲二、児嶋長次郎
    • Organizer
      第47回NMR討論会
    • Place of Presentation
      筑波大学大学会館講堂、つくば
    • Related Report
      2010 Final Research Report
  • [Presentation] コールドショックベクター、pCold-GSTの構築とNMRへの応用2008

    • Author(s)
      林こころ、児嶋長次郎
    • Organizer
      47回NMR討論会
    • Place of Presentation
      筑波大学大学会館講堂、つくば
    • Related Report
      2010 Final Research Report
  • [Presentation] 超高感度タンパク質立体構造解析技術の開発2008

    • Author(s)
      Jee JunGoo、西ヶ谷有輝、田中利好、河野俊之、児嶋長次郎
    • Organizer
      第47回NMR討論会
    • Place of Presentation
      筑波大学大学会館講堂、つくば
    • Related Report
      2010 Final Research Report
  • [Presentation] A Novel Cold-Shock Vector Containing GST for Soluble NMR Sample Production2008

    • Author(s)
      林こころ, 児嶋長次郎
    • Organizer
      XXIIIRD International Conferences on Magnetic Resonance in Biological Systems (ICMRBS)
    • Place of Presentation
      Sheraton San Diego Hotel & Marina, San Diego, USA
    • Related Report
      2010 Final Research Report
  • [Presentation] コールドショックベクターと可溶性タグを組み合わせた新規大腸菌大量発現系2008

    • Author(s)
      林こころ、児嶋長次郎
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀、東京
    • Related Report
      2010 Final Research Report
  • [Presentation] コレステロール代謝制御因子OSBPの小胞体局在機構の構造的基盤2008

    • Author(s)
      古板恭子、Jee JunGoo、三島正規、児嶋長次郎
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀、東京
    • Related Report
      2010 Final Research Report
  • [Presentation] 蛋白質NMR 技術の高速化と高感度化2008

    • Author(s)
      児嶋長次郎
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀、東京
    • Related Report
      2010 Final Research Report
  • [Presentation] 酵母Irelpによって部位特異的な切断を受けるRNAのNMR構造解析2008

    • Author(s)
      河原郁美
    • Organizer
      第4 7回NMR討論会
    • Place of Presentation
      筑波大学
    • Related Report
      2008 Annual Research Report
  • [Book] 基礎から学ぶ構造生物学(「第9章膜タンパク質の構造第2節膜タンパク質の構造研究手法とその解析法」)2008

    • Author(s)
      児嶋長次郎
    • Publisher
      共立出版
    • Related Report
      2010 Final Research Report
  • [Book] 基礎から学ぶ構造生物学(「第3章膜タンパク質の構造第1節膜タンパク質の特徴」)2008

    • Author(s)
      児嶋長次郎
    • Publisher
      共立出版
    • Related Report
      2010 Final Research Report
  • [Remarks] ホームページ等

    • URL

      http://www.protein.osaka-u.ac.jp/biophys/bussei.html

    • Related Report
      2010 Final Research Report
  • [Remarks]

    • URL

      http://bsw3.naist.jp/kojima/kojima.html

    • Related Report
      2010 Final Research Report

URL: 

Published: 2008-04-01   Modified: 2016-04-21  

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