6R8I

PP4R3A EVH1 domain bound to FxxP motif


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.52 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.189 
  • R-Value Observed: 0.191 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

A Consensus Binding Motif for the PP4 Protein Phosphatase.

Ueki, Y.Kruse, T.Weisser, M.B.Sundell, G.N.Larsen, M.S.Y.Mendez, B.L.Jenkins, N.P.Garvanska, D.H.Cressey, L.Zhang, G.Davey, N.Montoya, G.Ivarsson, Y.Kettenbach, A.N.Nilsson, J.

(2019) Mol Cell 76: 953

  • DOI: https://doi.org/10.1016/j.molcel.2019.08.029
  • Primary Citation of Related Structures:  
    6R8I

  • PubMed Abstract: 

    Dynamic protein phosphorylation constitutes a fundamental regulatory mechanism in all organisms. Phosphoprotein phosphatase 4 (PP4) is a conserved and essential nuclear serine and threonine phosphatase. Despite the importance of PP4, general principles of substrate selection are unknown, hampering the study of signal regulation by this phosphatase. Here, we identify and thoroughly characterize a general PP4 consensus-binding motif, the FxxP motif. X-ray crystallography studies reveal that FxxP motifs bind to a conserved pocket in the PP4 regulatory subunit PPP4R3. Systems-wide in silico searches integrated with proteomic analysis of PP4 interacting proteins allow us to identify numerous FxxP motifs in proteins controlling a range of fundamental cellular processes. We identify an FxxP motif in the cohesin release factor WAPL and show that this regulates WAPL phosphorylation status and is required for efficient cohesin release. Collectively our work uncovers basic principles of PP4 specificity with broad implications for understanding phosphorylation-mediated signaling in cells.


  • Organizational Affiliation

    Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein phosphatase 4 regulatory subunit 3A118Homo sapiensMutation(s): 0 
Gene Names: PPP4R3AKIAA2010PP4R3ASMEK1MSTP033
UniProt & NIH Common Fund Data Resources
Find proteins for Q6IN85 (Homo sapiens)
Explore Q6IN85 
Go to UniProtKB:  Q6IN85
PHAROS:  Q6IN85
GTEx:  ENSG00000100796 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6IN85
Sequence Annotations
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
SER-LEU-PRO-PHE-THR-PHE-LYS-VAL-PRO-ALA-PRO-PRO-PRO-SER-LEU-PRO-PRO-SER19Homo sapiensMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.52 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.189 
  • R-Value Observed: 0.191 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 60.586α = 90
b = 60.586β = 90
c = 91.902γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Cootmodel building
autoPROCdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Novo Nordisk FoundationDenmarkNNF14CC0001
Danish Council for Independent ResearchDenmark8021-00101B
Novo Nordisk FoundationDenmarkNNF18OC0053124
Swedish Research CouncilDenmark2016-04965
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM119455, P20GM113132
Science Foundation IrelandIreland13/SIRG/2193
LundbeckfondenDenmark2017-3212
Swiss National Science FoundationSwitzerlandP2EZP3_178624
Novo Nordisk FoundationDenmarkNNF0024386
Novo Nordisk FoundationDenmarkNNF17SA0030214

Revision History  (Full details and data files)

  • Version 1.0: 2019-10-16
    Type: Initial release
  • Version 1.1: 2020-01-01
    Changes: Database references
  • Version 1.2: 2022-03-30
    Changes: Author supporting evidence, Database references, Refinement description
  • Version 1.3: 2024-01-24
    Changes: Data collection, Refinement description