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Structural basis of JAZ repression of MYC transcription factors in jasmonate signalling

Nature volume 525, pages 269273 (10 September 2015) | Download Citation

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Abstract

The plant hormone jasmonate plays crucial roles in regulating plant responses to herbivorous insects and microbial pathogens and is an important regulator of plant growth and development1,2,3,4,5,6,7. Key mediators of jasmonate signalling include MYC transcription factors, which are repressed by jasmonate ZIM-domain (JAZ) transcriptional repressors in the resting state. In the presence of active jasmonate, JAZ proteins function as jasmonate co-receptors by forming a hormone-dependent complex with COI1, the F-box subunit of an SCF-type ubiquitin E3 ligase8,9,10,11. The hormone-dependent formation of the COI1–JAZ co-receptor complex leads to ubiquitination and proteasome-dependent degradation of JAZ repressors and release of MYC proteins from transcriptional repression3,10,12. The mechanism by which JAZ proteins repress MYC transcription factors and how JAZ proteins switch between the repressor function in the absence of hormone and the co-receptor function in the presence of hormone remain enigmatic. Here we show that Arabidopsis MYC3 undergoes pronounced conformational changes when bound to the conserved Jas motif of the JAZ9 repressor. The Jas motif, previously shown to bind to hormone as a partly unwound helix, forms a complete α-helix that displaces the amino (N)-terminal helix of MYC3 and becomes an integral part of the MYC N-terminal fold. In this position, the Jas helix competitively inhibits MYC3 interaction with the MED25 subunit of the transcriptional Mediator complex. Our structural and functional studies elucidate a dynamic molecular switch mechanism that governs the repression and activation of a major plant hormone pathway.

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Change history

  • 09 September 2015

    A formatting issue in Extended Data Fig. 4 was corrected.

Accessions

Data deposits

Atomic coordinates and structure factors for the reported crystal structures have been deposited in the Protein Data Bank under accession numbers 4RRU, 4RQW, 4RS9, 4YZ6 and 4YWC (see Extended Data Table 1).

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Acknowledgements

This research is supported by the Gordon and Betty Moore Foundation (GBMF3037, to S.Y.H.), the China Scholarship Council (to F.Z.), Van Andel Research Institute (to H.E.X. and K.M.), the National Institutes of Health (R01 GM102545 to K.M. and R01AI060761 to S.Y.H.), and the Department of Energy (the Chemical Sciences, Geosciences, and Biosciences Division, Office of Basic Energy Sciences, Office of Science Grant DE–FG02–91ER20021 (to S.Y.H.). We thank S. Grant for administrative support and staff members of the Life Science Collaborative Access Team of the Advanced Photon Source for assistance in data collection at the beam lines of sector 21, which is in part funded by the Michigan Economic Development Corporation and the Michigan Technology Tri-Corridor (grant 085P1000817). Use of the Advanced Photon Source was supported by the Office of Science of the US Department of Energy, under contract number DE-AC02-06CH11357. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health. We also thank G. Howe and K. Aung for reading the manuscript.

Author information

Author notes

    • Feng Zhang
    • , Jian Yao
    •  & Jiyuan Ke

    These authors contributed equally to this work.

Affiliations

  1. Laboratory of Structural Sciences and Laboratory of Structural Biology and Biochemistry, Van Andel Research Institute, Grand Rapids, Michigan 49503, USA

    • Feng Zhang
    • , Jiyuan Ke
    • , X. Edward Zhou
    • , Jian Chen
    • , H. Eric Xu
    •  & Karsten Melcher
  2. DOE Plant Research Laboratory, Michigan State University, East Lansing, Michigan 48824, USA

    • Feng Zhang
    • , Jian Yao
    • , Li Zhang
    • , Xiu-Fang Xin
    •  & Sheng Yang He
  3. College of Plant Protection, Nanjing Agricultural University, No. 1 Weigang, 210095, Nanjing, Jiangsu Province, China

    • Feng Zhang
    •  & Mingguo Zhou
  4. Department of Biological Sciences, Western Michigan University, Kalamazoo, Michigan 49008, USA

    • Jian Yao
  5. Department of Plant Biology, Michigan State University, East Lansing, Michigan 48824, USA

    • Li Zhang
    •  & Sheng Yang He
  6. Department of Molecular Therapeutics, Translational Research Institute, The Scripps Research Institute, Scripps Florida, Jupiter, Florida 33458, USA

    • Vinh Q. Lam
    •  & Patrick R. Griffin
  7. College of Life Sciences, Zhejiang Sci-Tech University, Hangzhou 310018, Zhejiang, China

    • Jian Chen
  8. Department of Molecular Pharmacology and Biological Chemistry, Life Sciences Collaborative Access Team, Synchrotron Research Center, Northwestern University, Argonne, Illinois 60439, USA

    • Joseph Brunzelle
  9. Key Laboratory of Receptor Research, VARI-SIMM Center, Center for Structure and Function of Drug Targets, Shanghai Institute of Materia Medica, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China

    • H. Eric Xu
  10. Howard Hughes Medical Institute, Michigan State University, East Lansing, Michigan 48824, USA

    • Sheng Yang He

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Contributions

H.E.X., K.M., M.Z. and S.Y.H. conceived the project and designed experiments, F.Z., J.Y., J.K., L.Z., V.Q.L., X.F.X., X.E.Z., J.C., J.B. and P.R.G. performed and/or interpreted experiments. K.M., F.Z., J.Y. and S.Y.H. wrote the manuscript with support from all authors.

Competing interests

The authors declare no competing financial interests.

Corresponding authors

Correspondence to H. Eric Xu or Karsten Melcher or Sheng Yang He.

Extended data

Supplementary information

PDF files

  1. 1.

    Supplementary Information

    This file contains Supplementary Table 1 and Supplementary Figures 1-2.

Videos

  1. 1.

    Conformational changes in MYC3 N-terminal domain (aa 5-242) upon JasJAZ9 peptide binding.

    All the structures are shown in cartoon representation. MYC3 N-terminal domain structure is colored in cyan for JID domain, green for TAD domain, red for the partial α1 helix and yellow for the rest of the protein. JasJAZ9 peptide is colored in pink. Although the α1’/α1 helices are well-resolved in the apo MYC3 structure, only partial α1 helix is shown since the rest of the α1 helix is disordered in the MYC3(5-242)–JasJAZ9 complex structure. The movie was made using the Chimera program with the superimposed apo MYC3(5-242) and JasJAZ9 bound MYC3(5-242) structures.

  2. 2.

    Conformational changes in JasJAZ9 peptide transitioning from MYC3-bound state to COI1-bound state

    All the structures are shown in cartoon representation with COI1 colored in blue and JasJAZ9 peptide colored in pink. JA-Ile is shown as a space-filling model. The starting conformation of JasJAZ9 peptide is shown as an α-helix based on JasJAZ9- bound MYC3 complex structure. JasJAZ9 peptide undergoes conformational change at the N terminus upon binding to COI1 and JA-Ile. The movie was made using the Chimera program with the superimposed JasJAZ9-bound MYC3 (this study) and JasJAZ1-bound COI123 structures.

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DOI

https://doi.org/10.1038/nature14661

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