6C23

Cryo-EM structure of PRC2 bound to cofactors AEBP2 and JARID2 in the Compact Active State


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.6 of the entry. See complete history


Literature

Structures of human PRC2 with its cofactors AEBP2 and JARID2.

Kasinath, V.Faini, M.Poepsel, S.Reif, D.Feng, X.A.Stjepanovic, G.Aebersold, R.Nogales, E.

(2018) Science 359: 940-944

  • DOI: 10.1126/science.aar5700
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Transcriptionally repressive histone H3 lysine 27 methylation by Polycomb repressive complex 2 (PRC2) is essential for cellular differentiation and development. Here we report cryo-electron microscopy structures of human PRC2 in a basal state and two ...

    Transcriptionally repressive histone H3 lysine 27 methylation by Polycomb repressive complex 2 (PRC2) is essential for cellular differentiation and development. Here we report cryo-electron microscopy structures of human PRC2 in a basal state and two distinct active states while in complex with its cofactors JARID2 and AEBP2. Both cofactors mimic the binding of histone H3 tails. JARID2, methylated by PRC2, mimics a methylated H3 tail to stimulate PRC2 activity, whereas AEBP2 interacts with the RBAP48 subunit, mimicking an unmodified H3 tail. SUZ12 interacts with all other subunits within the assembly and thus contributes to the stability of the complex. Our analysis defines the complete architecture of a functionally relevant PRC2 and provides a structural framework to understand its regulation by cofactors, histone tails, and RNA.


    Organizational Affiliation

    Howard Hughes Medical Institute, University of California, Berkeley, CA 94720, USA.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Polycomb protein SUZ12A, M, Q739Homo sapiensMutation(s): 0 
Gene Names: SUZ12CHET9JJAZ1KIAA0160
Find proteins for Q15022 (Homo sapiens)
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Go to UniProtKB:  Q15022
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PHAROS  Q15022
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Protein JumonjiE348Homo sapiensMutation(s): 0 
Gene Names: JARID2JMJ
Find proteins for Q92833 (Homo sapiens)
Explore Q92833 
Go to UniProtKB:  Q92833
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PHAROS  Q92833
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  • Reference Sequence

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Histone-lysine N-methyltransferase EZH2C, K746Homo sapiensMutation(s): 0 
Gene Names: EZH2KMT6
EC: 2.1.1.43 (PDB Primary Data), 2.1.1.356 (UniProt)
Find proteins for Q15910 (Homo sapiens)
Explore Q15910 
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PHAROS  Q15910
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  • Reference Sequence

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Polycomb protein EEDL441Homo sapiensMutation(s): 0 
Gene Names: EED
Find proteins for O75530 (Homo sapiens)
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PHAROS  O75530
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  • Reference Sequence

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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Histone-binding protein RBBP4N425Homo sapiensMutation(s): 0 
Gene Names: RBBP4RBAP48
Find proteins for Q09028 (Homo sapiens)
Explore Q09028 
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PHAROS  Q09028
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
JARID2-substrateO7Homo sapiensMutation(s): 0 
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  • Reference Sequence

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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Zinc finger protein AEBP2P295Homo sapiensMutation(s): 0 
Gene Names: AEBP2
Find proteins for Q6ZN18 (Homo sapiens)
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PHAROS  Q6ZN18
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
SUZ12Z135Homo sapiensMutation(s): 0 
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Protein JumonjiB345Homo sapiensMutation(s): 0 
Gene Names: JARID2JMJ
Find proteins for Q92833 (Homo sapiens)
Explore Q92833 
Go to UniProtKB:  Q92833
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PHAROS  Q92833
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
M3L
Query on M3L
BL-PEPTIDE LINKINGC9 H21 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United States--
European Research Council (ERC)European Union233226
European Research Council (ERC)European Union670821

Revision History 

  • Version 1.0: 2018-01-24
    Type: Initial release
  • Version 1.1: 2018-01-31
    Changes: Database references
  • Version 1.2: 2018-02-14
    Changes: Author supporting evidence
  • Version 1.3: 2018-03-07
    Changes: Database references
  • Version 1.4: 2018-10-03
    Changes: Data collection, Refinement description
  • Version 1.5: 2019-11-20
    Changes: Author supporting evidence
  • Version 1.6: 2019-12-18
    Changes: Other