9N0Y | pdb_00009n0y

PP2A-B55 Holoenzyme with Eya3


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.71 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

Cryo-EM structures reveal the PP2A-B55 alpha and Eya3 interaction that can be disrupted by a peptide inhibitor.

Shi, S.Li, X.Alderman, C.Wick, L.Huang, W.Foulon, N.Zhang, L.Rossi, J.Hu, W.Cui, S.Zheng, H.Taylor, D.J.Ford, H.L.Zhao, R.

(2025) J Biological Chem 301: 110287-110287

  • DOI: https://doi.org/10.1016/j.jbc.2025.110287
  • Primary Citation of Related Structures:  
    9N0Y, 9N0Z

  • PubMed Abstract: 

    We have previously shown that Eya3 recruits PP2A-B55α to dephosphorylate pT58 on Myc, increasing Myc stability and enhancing primary tumor growth of triple-negative breast cancer (TNBC). However, the molecular details of how Eya3 recruits PP2A-B55α remain unclear. Here we determined the cryo-EM structures of PP2A-B55α bound with Eya3, with an inhibitory peptide B55i, and in its unbound state. These studies demonstrate that Eya3 binds B55α through an extended peptide in the NTD of Eya3. The Eya3 peptide, PP2A-B55α substrates, and protein/peptide inhibitors including B55i bind to a similar area on the B55α surface but the molecular details of the binding differ. We further demonstrated that the B55i peptide inhibits the B55α and Eya3 interaction in vitro. The B55i peptide expressed on a plasmid increases Myc pT58 and decreases Myc protein levels in TNBC cells, suggesting the potential of B55i or similar peptides as therapies for TNBC.


  • Organizational Affiliation
    • Department of Biochemistry and Molecular Genetics, University of Colorado Anschutz Medical Campus, Aurora, CO 80045.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform584Homo sapiensMutation(s): 0 
Gene Names: PPP2R1A
UniProt & NIH Common Fund Data Resources
Find proteins for P30153 (Homo sapiens)
Explore P30153 
Go to UniProtKB:  P30153
PHAROS:  P30153
GTEx:  ENSG00000105568 
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UniProt GroupP30153
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform451Homo sapiensMutation(s): 0 
Gene Names: PPP2R2A
UniProt & NIH Common Fund Data Resources
Find proteins for P63151 (Homo sapiens)
Explore P63151 
Go to UniProtKB:  P63151
PHAROS:  P63151
GTEx:  ENSG00000221914 
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UniProt GroupP63151
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform309Homo sapiensMutation(s): 0 
Gene Names: PPP2CA
EC: 3.1.3.16
UniProt & NIH Common Fund Data Resources
Find proteins for P67775 (Homo sapiens)
Explore P67775 
Go to UniProtKB:  P67775
PHAROS:  P67775
GTEx:  ENSG00000113575 
Entity Groups  
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UniProt GroupP67775
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Protein phosphatase EYA3573Homo sapiensMutation(s): 0 
Gene Names: EYA3
EC: 3.1.3.48
UniProt & NIH Common Fund Data Resources
Find proteins for Q99504 (Homo sapiens)
Explore Q99504 
Go to UniProtKB:  Q99504
PHAROS:  Q99504
GTEx:  ENSG00000158161 
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UniProt GroupQ99504
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.71 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21_5207

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM145289

Revision History  (Full details and data files)

  • Version 1.0: 2025-06-18
    Type: Initial release
  • Version 1.1: 2025-07-09
    Changes: Data collection, Database references