Structural study of the transcription mechanism by GRAS/IDD family essential for root development

• Project/Area Number: 17K07448
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Multi-year Fund
• Section: 一般
• Research Field: Plant molecular biology/Plant physiology
• Research Institution: The University of Tokyo (2018-2019); Yokohama City University (2017)
• Principal Investigator: Hirano Yoshinori 東京大学, 大学院薬学系研究科(薬学部), 助教 (50452529)
• Project Period (FY): 2017-04-01 – 2020-03-31
• Project Status: Completed (Fiscal Year 2019)
• Budget Amount: ¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000); Fiscal Year 2019: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000); Fiscal Year 2018: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000); Fiscal Year 2017: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
• Keywords: X線結晶構造解析 / 転写制御 / 分子認識 / GRASファミリー / 結晶構造解析 / IDDファミリー / 転写因子 / タンパク質間相互作用 / パターン形成 / 蛋白質 / 生体分子 / シグナル伝達 / 植物 / 発現制御

Outline of Final Research Achievements

We have performed structural and biochemical analyses of the plant proteins, GRAS family and transcription factor IDD family, essential for the plant root development. The crystal structure of the SCL3-IDD protein complex
revealed that SCL3 forms a homodimer and binds two BIRD/IDD transcription factors. The binding mode in SCL3-IDD complex is in sharp contrast to that found in a previous structure of the SHOOT-ROOT (SHR)-SCARECROW (SCR) heterodimer bound to BIRD/IDD transcription factors where N-terminal ZF motifs dock into the ZF-binding groove located at the alpha/beta core subdomain of SHR. We identified a conserved SDB motif in 12 out of 16 Arabidopsis BIRD/IDD-TF members. We also provide evidence that BIRD/IDD binds SHR/SCR and SCL3 simultaneously. These results expand and deepen our knowledge of the molecular mechanisms by which GRAS and BIRD/IDD members mediate cross-talk and networking of signaling pathways.

Academic Significance and Societal Importance of the Research Achievements

植物の根の形態形成は成長過程と調和して転写制御をオン・オフにするため、複雑に制御されている。本研究では根の形態形成に重要な2つのファミリーGRAS, IDDファミリーについてその立体構造解析と分子相互作用解析の結果から、GRASファミリーとIDDファミリーの相互作用様式には多様性があることを示し、結合する組み合わせによって様々な転写制御複合体を形成し得ることを明らかにした。本成果は植物の複雑な転写制御機構の理解を深めると期待される。

Research Products

• [Journal Article] Polar recruitment of RLD by LAZY1-like protein during gravity signaling in root branch angle control (2020)
  • Author(s): Furutani Masahiko、Hirano Yoshinori、Nishimura Takeshi、Nakamura Moritaka、Taniguchi Masatoshi、Suzuki Kanako、Oshida Ryuichiro、Kondo Chiemi、Sun Song、Kato Kagayaki、Fukao Yoichiro、Hakoshima Toshio、Morita Miyo Terao
  • Journal Title: Nature Communications Volume: 11 Issue: 1 Pages: 1-13
  • DOI: 10.1038/s41467-019-13729-7
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Structural basis of phosphatidylcholine recognition by the C2-domain of cytosolic phospholipase A2α (2019)
  • Author(s): Hirano Yoshinori、Gao Yong-Guang、Stephenson Daniel J、Vu Ngoc T、Malinina Lucy、Simanshu Dhirendra K、Chalfant Charles E、Patel Dinshaw J、Brown Rhoderick E
  • Journal Title: eLife Volume: 8
  • DOI: 10.7554/elife.44760
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Strigolactone perception and deactivation by a hydrolase receptor DWARF14 (2019)
  • Author(s): Seto Y,Yasui R,Kameoka H,Tamiru M,Cao M,Terauchi R,Sakurada A,Hirano R,Kisugi T,Hanada A,Umehara M,Seo E,Akiyama Ki,Burke J,Takeda-Kamiya N,Li W,Hirano Y,Hakoshima T,Mashiguchi K,Noel JP,Kyozuka J,Yamaguchi S
  • Journal Title: Nature Communications Volume: 10 Issue: 1 Pages: 191-191
  • DOI: 10.1038/s41467-018-08124-7
  • NAID: 120006550404
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] The force‐sensing device region of α‐catenin is an intrinsically disordered segment in the absence of intramolecular stabilization of the autoinhibitory form (2018)
  • Author(s): Hirano, Y., Amano, Y., Yonemura, S. and Hakoshima, T.
  • Journal Title: Genes to Cells Volume: 23 Issue: 5 Pages: 16-16
  • DOI: 10.1111/gtc.12578
  • Peer Reviewed / Open Access
• [Presentation] 重力シグナリングに関わるLZY 及びRLD の機能解析 (2018)
  • Author(s): 古谷将彦，西村岳志，押田龍一郎，谷口雅俊，平野良憲、箱嶋敏雄、森田(寺尾)美代
  • Organizer: 第５９回日本植物生理学会年会
• [Remarks] 植物の根に重力方向を伝える新しい因子の発見 ～オーキシンを重力側へより多く分配するしくみ～
  • URL: http://www.f.u-tokyo.ac.jp/topics.html?page=1&key=1578474649
• [Remarks] 植物の根に重力方向を伝える新しい因子の発見 ～ オーキシンを重力側へより多く分配するしくみ
  • URL: https://www.u-tokyo.ac.jp/focus/ja/press/z0111_00013.html