7KSR

PRC2:EZH1_A from a dimeric PRC2 bound to a nucleosome

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Structures of monomeric and dimeric PRC2:EZH1 reveal flexible modules involved in chromatin compaction.

Grau, D., Zhang, Y., Lee, C.H., Valencia-Sanchez, M., Zhang, J., Wang, M., Holder, M., Svetlov, V., Tan, D., Nudler, E., Reinberg, D., Walz, T., Armache, K.J.

(2021) Nat Commun 12: 714-714

  • DOI: 10.1038/s41467-020-20775-z
  • Primary Citation of Related Structures:  
    7KSO, 7KSR, 7KTP, 7KTQ

  • PubMed Abstract: 

    • Polycomb repressive complex 2 (PRC2) is a histone methyltransferase critical for maintaining gene silencing during eukaryotic development. In mammals, PRC2 activity is regulated in part by the selective incorporation of one of two paralogs of the catalytic subunit, EZH1 or EZH2 ...

    Polycomb repressive complex 2 (PRC2) is a histone methyltransferase critical for maintaining gene silencing during eukaryotic development. In mammals, PRC2 activity is regulated in part by the selective incorporation of one of two paralogs of the catalytic subunit, EZH1 or EZH2. Each of these enzymes has specialized biological functions that may be partially explained by differences in the multivalent interactions they mediate with chromatin. Here, we present two cryo-EM structures of PRC2:EZH1, one as a monomer and a second one as a dimer bound to a nucleosome. When bound to nucleosome substrate, the PRC2:EZH1 dimer undergoes a dramatic conformational change. We demonstrate that mutation of a divergent EZH1/2 loop abrogates the nucleosome-binding and methyltransferase activities of PRC2:EZH1. Finally, we show that PRC2:EZH1 dimers are more effective than monomers at promoting chromatin compaction, and the divergent EZH1/2 loop is essential for this function, thereby tying together the methyltransferase, nucleosome-binding, and chromatin-compaction activities of PRC2:EZH1. We speculate that the conformational flexibility and the ability to dimerize enable PRC2 to act on the varied chromatin substrates it encounters in the cell.

    Organizational Affiliation: 

    Skirball Institute of Biomolecular Medicine, Department of Biochemistry and Molecular Pharmacology, New York University Grossman School of Medicine, New York, NY, USA. karim-jean.armache@nyulangone.org.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Histone-lysine N-methyltransferase EZH1A747Homo sapiensMutation(s): 0 
Gene Names: EZH1, KIAA0388
EC: 2.1.1.356
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Find proteins for Q92800 (Homo sapiens)
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PHAROS:  Q92800
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UniProt GroupQ92800
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Histone-binding protein RBBP4B [auth D]425Homo sapiensMutation(s): 0 
Gene Names: RBBP4, RBAP48
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Find proteins for Q09028 (Homo sapiens)
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PHAROS:  Q09028
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Polycomb protein SUZ12C739Homo sapiensMutation(s): 0 
Gene Names: SUZ12, CHET9, JJAZ1, KIAA0160
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Find proteins for Q15022 (Homo sapiens)
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Polycomb protein EEDD [auth B]441Homo sapiensMutation(s): 0 
Gene Names: EED
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Find proteins for O75530 (Homo sapiens)
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01 GM115882

Revision History  (Full details and data files)

  • Version 1.0: 2021-02-03
    Type: Initial release
  • Version 1.1: 2021-02-24
    Changes: Database references