6SUC

Human PTPRU D1 domain, oxidised form


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.215 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

The receptor PTPRU is a redox sensitive pseudophosphatase.

Hay, I.M.Fearnley, G.W.Rios, P.Kohn, M.Sharpe, H.J.Deane, J.E.

(2020) Nat Commun 11: 3219-3219

  • DOI: https://doi.org/10.1038/s41467-020-17076-w
  • Primary Citation of Related Structures:  
    6SUB, 6SUC

  • PubMed Abstract: 

    The receptor-linked protein tyrosine phosphatases (RPTPs) are key regulators of cell-cell communication through the control of cellular phosphotyrosine levels. Most human RPTPs possess an extracellular receptor domain and tandem intracellular phosphatase domains: comprising an active membrane proximal (D1) domain and an inactive distal (D2) pseudophosphatase domain. Here we demonstrate that PTPRU is unique amongst the RPTPs in possessing two pseudophosphatase domains. The PTPRU-D1 displays no detectable catalytic activity against a range of phosphorylated substrates and we show that this is due to multiple structural rearrangements that destabilise the active site pocket and block the catalytic cysteine. Upon oxidation, this cysteine forms an intramolecular disulphide bond with a vicinal "backdoor" cysteine, a process thought to reversibly inactivate related phosphatases. Importantly, despite the absence of catalytic activity, PTPRU binds substrates of related phosphatases strongly suggesting that this pseudophosphatase functions in tyrosine phosphorylation by competing with active phosphatases for the binding of substrates.


  • Organizational Affiliation

    Cambridge Institute for Medical Research, Hills Road, Cambridge, CB2 0XY, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Receptor-type tyrosine-protein phosphatase U297Homo sapiensMutation(s): 1 
Gene Names: PTPRUFMIPCP2PTPRO
EC: 3.1.3.48
UniProt & NIH Common Fund Data Resources
Find proteins for Q92729 (Homo sapiens)
Explore Q92729 
Go to UniProtKB:  Q92729
PHAROS:  Q92729
GTEx:  ENSG00000060656 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ92729
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.215 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 62.09α = 90
b = 107.92β = 90
c = 89.28γ = 90
Software Package:
Software NamePurpose
DIALSdata collection
PHENIXrefinement
Cootmodel building
XSCALEdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Royal SocietyUnited KingdomUF150682
Wellcome TrustUnited Kingdom109407

Revision History  (Full details and data files)

  • Version 1.0: 2020-07-08
    Type: Initial release
  • Version 1.1: 2024-01-24
    Changes: Data collection, Database references, Refinement description