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Edited by Mark Estelle, University of California, San Diego, La Jolla, CA, and approved June 13, 2017 (received for review February 22, 2017)
Significance
In most biological processes, genes have to be activated and/or repressed. In plants, the TOPLESS protein is essential for gene repression through its action as a corepressor bridging transcription factor with chromatin remodeling complexes. Here we combine biochemical and structural studies to describe the structure of TOPLESS, how it tetramerizes, and how it interacts with its protein partners. We show that both the tetramerization interface and the binding site for protein partners have been conserved since algae, highlighting the ancestrality of TOPLESS function. Comparison of this plant protein with one of its animal counterparts also shows how corepressors can use a common domain differently to achieve similar properties, illustrating the tinkering of evolution in transcriptional repression.
Abstract
Transcriptional repression involves a class of proteins called corepressors that link transcription factors to chromatin remodeling complexes. In plants such as Arabidopsis thaliana, the most prominent corepressor is TOPLESS (TPL), which plays a key role in hormone signaling and development. Here we present the crystallographic structure of the Arabidopsis TPL N-terminal region comprising the LisH and CTLH (C-terminal to LisH) domains and a newly identified third region, which corresponds to a CRA domain. Comparing the structure of TPL with the mammalian TBL1, which shares a similar domain structure and performs a parallel corepressor function, revealed that the plant TPLs have evolved a new tetramerization interface and unique and highly conserved surface for interaction with repressors. Using site-directed mutagenesis, we validated those surfaces in vitro and in vivo and showed that TPL tetramerization and repressor binding are interdependent. Our results illustrate how evolution used a common set of protein domains to create a diversity of corepressors, achieving similar properties with different molecular solutions.
Footnotes
- ↵1To whom correspondence may be addressed. Email: teva.vernoux{at}ens-lyon.fr, nanao{at}esrf.fr, or renaud.dumas{at}cea.fr.
Author contributions: M.H.N., T.V., R.D., and F.P. designed research; R.M.-A., M.H.N., A.L., T.V.-P., D.M., C.G.-A., G.B., and R.D. performed research; R.M.-A., M.H.N., A.L., T.V.-P., D.M., T.V., R.D., and F.P. analyzed data; and R.M.-A., M.H.N., T.V., R.D., and F.P. wrote the paper.
The authors declare no conflict of interest.
This article is a PNAS Direct Submission.
Data deposition: The atomic coordinates have been deposited in the Protein Data Bank, www.wwpdb.org (PDB ID codes 5NQV and 5NQS).
This article contains supporting information online at www.pnas.org/lookup/suppl/doi:10.1073/pnas.1703054114/-/DCSupplemental.
Freely available online through the PNAS open access option.
- Raquel Martin-Arevalilloa,
- Max H. Nanaob,c,1,
- Antoine Larrieud,
- Thomas Vinos-Poyoa,
- David Masta,d,
- Carlos Galvan-Ampudiad,
- Géraldine Brunoudd,
- Teva Vernouxd,1,
- Renaud Dumasa,1, and
- François Parcya
- aLaboratoire de Physiologie Cellulaire et Végétale, Université Grenoble Alpes, CNRS, Commissariat à l'Energie Atomique et aux Energies Alternatives/Biosciences and Biotechnology Institute of Grenoble, Institut National de la Recherche Agronomique (INRA), F-38000 Grenoble, France;
- bStructural Biology Group, European Synchrotron Radiation Facility, F-38000 Grenoble, France;
- cEuropean Molecular Biology Laboratory Grenoble, 38042 Grenoble Cedex 9, France;
- dLaboratoire de Reproduction et Développement des Plantes, Université de Lyon, Ecole Normale Supérieure de Lyon, Université Claude Bernard Lyon 1, CNRS, INRA, F-69364 Lyon, France
Edited by Mark Estelle, University of California, San Diego, La Jolla, CA, and approved June 13, 2017 (received for review February 22, 2017)
Significance
In most biological processes, genes have to be activated and/or repressed. In plants, the TOPLESS protein is essential for gene repression through its action as a corepressor bridging transcription factor with chromatin remodeling complexes. Here we combine biochemical and structural studies to describe the structure of TOPLESS, how it tetramerizes, and how it interacts with its protein partners. We show that both the tetramerization interface and the binding site for protein partners have been conserved since algae, highlighting the ancestrality of TOPLESS function. Comparison of this plant protein with one of its animal counterparts also shows how corepressors can use a common domain differently to achieve similar properties, illustrating the tinkering of evolution in transcriptional repression.
Abstract
Transcriptional repression involves a class of proteins called corepressors that link transcription factors to chromatin remodeling complexes. In plants such as Arabidopsis thaliana, the most prominent corepressor is TOPLESS (TPL), which plays a key role in hormone signaling and development. Here we present the crystallographic structure of the Arabidopsis TPL N-terminal region comprising the LisH and CTLH (C-terminal to LisH) domains and a newly identified third region, which corresponds to a CRA domain. Comparing the structure of TPL with the mammalian TBL1, which shares a similar domain structure and performs a parallel corepressor function, revealed that the plant TPLs have evolved a new tetramerization interface and unique and highly conserved surface for interaction with repressors. Using site-directed mutagenesis, we validated those surfaces in vitro and in vivo and showed that TPL tetramerization and repressor binding are interdependent. Our results illustrate how evolution used a common set of protein domains to create a diversity of corepressors, achieving similar properties with different molecular solutions.
- TOPLESS
- corepressor
- auxin signaling
- crystal structure
- tetramerization
Footnotes
- ↵1To whom correspondence may be addressed. Email: teva.vernoux{at}ens-lyon.fr, nanao{at}esrf.fr, or renaud.dumas{at}cea.fr.
Author contributions: M.H.N., T.V., R.D., and F.P. designed research; R.M.-A., M.H.N., A.L., T.V.-P., D.M., C.G.-A., G.B., and R.D. performed research; R.M.-A., M.H.N., A.L., T.V.-P., D.M., T.V., R.D., and F.P. analyzed data; and R.M.-A., M.H.N., T.V., R.D., and F.P. wrote the paper.
The authors declare no conflict of interest.
This article is a PNAS Direct Submission.
Data deposition: The atomic coordinates have been deposited in the Protein Data Bank, www.wwpdb.org (PDB ID codes 5NQV and 5NQS).
This article contains supporting information online at www.pnas.org/lookup/suppl/doi:10.1073/pnas.1703054114/-/DCSupplemental.
Freely available online through the PNAS open access option.
Structure of the TOPLESS corepressor
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