7SOY

The structure of the PP2A-B56gamma1 holoenzyme-PME-1 complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 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

Coupling to short linear motifs creates versatile PME-1 activities in PP2A holoenzyme demethylation and inhibition.

Li, Y.Balakrishnan, V.K.Rowse, M.Wu, C.G.Bravos, A.P.Yadav, V.K.Ivarsson, Y.Strack, S.Novikova, I.V.Xing, Y.

(2022) Elife 11

  • DOI: https://doi.org/10.7554/eLife.79736
  • Primary Citation of Related Structures:  
    7SOY

  • PubMed Abstract: 

    Protein phosphatase 2A (PP2A) holoenzymes target broad substrates by recognizing short motifs via regulatory subunits. PP2A methylesterase 1 (PME-1) is a cancer-promoting enzyme and undergoes methylesterase activation upon binding to the PP2A core enzyme. Here, we showed that PME-1 readily demethylates different families of PP2A holoenzymes and blocks substrate recognition in vitro. The high-resolution cryoelectron microscopy structure of a PP2A-B56 holoenzyme-PME-1 complex reveals that PME-1 disordered regions, including a substrate-mimicking motif, tether to the B56 regulatory subunit at remote sites. They occupy the holoenzyme substrate-binding groove and allow large structural shifts in both holoenzyme and PME-1 to enable multipartite contacts at structured cores to activate the methylesterase. B56 interface mutations selectively block PME-1 activity toward PP2A-B56 holoenzymes and affect the methylation of a fraction of total cellular PP2A. The B56 interface mutations allow us to uncover B56-specific PME-1 functions in p53 signaling. Our studies reveal multiple mechanisms of PME-1 in suppressing holoenzyme functions and versatile PME-1 activities derived from coupling substrate-mimicking motifs to dynamic structured cores.


  • Organizational Affiliation

    McArdle Laboratory for Cancer Research, Department of Oncology, University of Wisconsin at Madison, School of Medicine and Public Health, Madison, United States.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform589Homo sapiensMutation(s): 0 
Gene Names: PPP2R1A
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Find proteins for P30153 (Homo sapiens)
Explore P30153 
Go to UniProtKB:  P30153
PHAROS:  P30153
GTEx:  ENSG00000105568 
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UniProt GroupP30153
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Isoform Gamma-1 of Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform449Homo sapiensMutation(s): 0 
Gene Names: PPP2R5CKIAA0044
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Find proteins for Q13362 (Homo sapiens)
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PHAROS:  Q13362
GTEx:  ENSG00000078304 
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UniProt GroupQ13362
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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
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Find proteins for P67775 (Homo sapiens)
Explore P67775 
Go to UniProtKB:  P67775
PHAROS:  P67775
GTEx:  ENSG00000113575 
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UniProt GroupP67775
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Protein phosphatase methylesterase 1D [auth P]386Homo sapiensMutation(s): 1 
Gene Names: PPME1PME1PP2593PRO0750
EC: 3.1.1.89
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Find proteins for Q9Y570 (Homo sapiens)
Explore Q9Y570 
Go to UniProtKB:  Q9Y570
PHAROS:  Q9Y570
GTEx:  ENSG00000214517 
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UniProt GroupQ9Y570
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
American Cancer SocietyRSG-10-153-01-DMC
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01 GM096060-01
Other privateA19-3376-5007

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-31
    Type: Initial release
  • Version 1.1: 2024-06-05
    Changes: Data collection