2PF4 | pdb_00002pf4

Crystal structure of the full-length simian virus 40 small t antigen complexed with the protein phosphatase 2A Aalpha subunit


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 
    0.304 (Depositor) 
  • R-Value Work: 
    0.244 (Depositor), 0.237 (DCC) 
  • R-Value Observed: 
    0.247 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 2PF4

This is version 1.4 of the entry. See complete history

Literature

Structural basis of PP2A inhibition by small t antigen.

Cho, U.S.Morrone, S.Sablina, A.A.Arroyo, J.D.Hahn, W.C.Xu, W.

(2007) PLoS Biol 5: e202-e202

  • DOI: https://doi.org/10.1371/journal.pbio.0050202
  • Primary Citation Related Structures: 
    2PF4

  • PubMed Abstract: 

    The SV40 small t antigen (ST) is a potent oncoprotein that perturbs the function of protein phosphatase 2A (PP2A). ST directly interacts with the PP2A scaffolding A subunit and alters PP2A activity by displacing regulatory B subunits from the A subunit. We have determined the crystal structure of full-length ST in complex with PP2A A subunit at 3.1 A resolution. ST consists of an N-terminal J domain and a C-terminal unique domain that contains two zinc-binding motifs. Both the J domain and second zinc-binding motif interact with the intra-HEAT-repeat loops of HEAT repeats 3-7 of the A subunit, which overlaps with the binding site of the PP2A B56 subunit. Intriguingly, the first zinc-binding motif is in a position that may allow it to directly interact with and inhibit the phosphatase activity of the PP2A catalytic C subunit. These observations provide a structural basis for understanding the oncogenic functions of ST.


  • Organizational Affiliation
    • Department of Biological Structure, University of Washington, Seattle, Washington, United States of America.

Macromolecule Content 

  • Total Structure Weight: 344.17 kDa 
  • Atom Count: 22,802 
  • Modeled Residue Count: 2,904 
  • Deposited Residue Count: 3,052 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform
A, B, C, D
589Mus musculusMutation(s): 0 
Gene Names: Ppp2r1a
UniProt
Find proteins for Q76MZ3 (Mus musculus)
Explore Q76MZ3 
Go to UniProtKB:  Q76MZ3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ76MZ3
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Small T antigen
E, F, G, H
174Betapolyomavirus macacaeMutation(s): 0 
Gene Names: small t antigen
UniProt
Find proteins for P03081 (Simian virus 40)
Explore P03081 
Go to UniProtKB:  P03081
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP03081
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free:  0.304 (Depositor) 
  • R-Value Work:  0.244 (Depositor), 0.237 (DCC) 
  • R-Value Observed: 0.247 (Depositor) 
Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 94.711α = 115.64
b = 105.501β = 109.55
c = 111.937γ = 94.11
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
SHARPphasing
DMphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-08-07
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.2: 2013-05-22
    Changes: Database references
  • Version 1.3: 2017-10-18
    Changes: Refinement description
  • Version 1.4: 2023-08-30
    Changes: Data collection, Database references, Derived calculations, Refinement description