5MMZ

Structure of PRL-1 in complex with the Bateman domain of CNNM2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.227 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural Basis of the Oncogenic Interaction of Phosphatase PRL-1 with the Magnesium Transporter CNNM2.

Gimenez-Mascarell, P.Oyenarte, I.Hardy, S.Breiderhoff, T.Stuiver, M.Kostantin, E.Diercks, T.Pey, A.L.Ereno-Orbea, J.Martinez-Chantar, M.L.Khalaf-Nazzal, R.Claverie-Martin, F.Muller, D.Tremblay, M.L.Martinez-Cruz, L.A.

(2017) J Biol Chem 292: 786-801

  • DOI: https://doi.org/10.1074/jbc.M116.759944
  • Primary Citation of Related Structures:  
    5LXQ, 5MMZ

  • PubMed Abstract: 

    Phosphatases of regenerating liver (PRLs), the most oncogenic of all protein-tyrosine phosphatases (PTPs), play a critical role in metastatic progression of cancers. Recent findings established a new paradigm by uncovering that their association with magnesium transporters of the cyclin M (CNNM) family causes a rise in intracellular magnesium levels that promote oncogenic transformation. Recently, however, essential roles for regulation of the circadian rhythm and reproduction of the CNNM family have been highlighted. Here, we describe the crystal structure of PRL-1 in complex with the Bateman module of CNNM2 (CNNM2 BAT ), which consists of two cystathionine β-synthase (CBS) domains (IPR000664) and represents an intracellular regulatory module of the transporter. The structure reveals a heterotetrameric association, consisting of a disc-like homodimer of CNNM2 BAT bound to two independent PRL-1 molecules, each one located at opposite tips of the disc. The structure highlights the key role played by Asp-558 at the extended loop of the CBS2 motif of CNNM2 in maintaining the association between the two proteins and proves that the interaction between CNNM2 and PRL-1 occurs via the catalytic domain of the phosphatase. Our data shed new light on the structural basis underlying the interaction between PRL phosphatases and CNNM transporters and provides a hypothesis about the molecular mechanism by which PRL-1, upon binding to CNNM2, might increase the intracellular concentration of Mg 2+ thereby contributing to tumor progression and metastasis. The availability of this structure sets the basis for the rational design of compounds modulating PRL-1 and CNNM2 activities.


  • Organizational Affiliation

    From the Structural Biology Unit, Center for Cooperative Research in Biosciences (CIC bioGUNE), Technology Park of Bizkaia, 48160 Derio, Bizkaia, Spain.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Metal transporter CNNM2156Mus musculusMutation(s): 0 
Gene Names: Cnnm2Acdp2
UniProt & NIH Common Fund Data Resources
Find proteins for Q3TWN3 (Mus musculus)
Explore Q3TWN3 
Go to UniProtKB:  Q3TWN3
IMPC:  MGI:2151054
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ3TWN3
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Protein tyrosine phosphatase type IVA 1173Mus musculusMutation(s): 0 
Gene Names: Ptp4a1Prl1
EC: 3.1.3.48
UniProt & NIH Common Fund Data Resources
Find proteins for Q63739 (Mus musculus)
Explore Q63739 
Go to UniProtKB:  Q63739
IMPC:  MGI:1277096
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ63739
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.227 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.73α = 90
b = 128.478β = 90
c = 153.909γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
Cootmodel building
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2016-12-21
    Type: Initial release
  • Version 1.1: 2017-02-01
    Changes: Database references
  • Version 1.2: 2017-12-20
    Changes: Structure summary
  • Version 1.3: 2024-01-17
    Changes: Data collection, Database references, Refinement description