3RZ2 | pdb_00003rz2

Crystal of Prl-1 complexed with peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 
    0.201 (Depositor), 0.212 (DCC) 
  • R-Value Work: 
    0.180 (Depositor), 0.195 (DCC) 

wwPDB Validation 3D Report Full Report

Validation slider image for 3RZ2

This is version 1.3 of the entry. See complete history

Literature

PRL-1 protein promotes ERK1/2 and RhoA protein activation through a non-canonical interaction with the Src homology 3 domain of p115 Rho GTPase-activating protein.

Bai, Y.Luo, Y.Liu, S.Zhang, L.Shen, K.Dong, Y.Walls, C.D.Quilliam, L.A.Wells, C.D.Cao, Y.Zhang, Z.Y.

(2011) J Biological Chem 286: 42316-42324

  • DOI: https://doi.org/10.1074/jbc.M111.286302
  • Primary Citation Related Structures: 
    3RZ2

  • PubMed Abstract: 

    Phosphatases of the regenerating liver (PRL) play oncogenic roles in cancer development and metastasis. Although previous studies indicate that PRL-1 promotes cell growth and migration by activating both the ERK1/2 and RhoA pathways, the mechanism by which it activates these signaling events remains unclear. We have identified a PRL-1-binding peptide (Peptide 1) that shares high sequence identity with a conserved motif in the Src homology 3 (SH3) domain of p115 Rho GTPase-activating protein (GAP). p115 RhoGAP directly binds PRL-1 in vitro and in cells via its SH3 domain. Structural analyses of the PRL-1·Peptide 1 complex revealed a novel protein-protein interaction whereby a sequence motif within the PxxP ligand-binding site of the p115 RhoGAP SH3 domain occupies a folded groove within PRL-1. This prevents the canonical interaction between the SH3 domain of p115 RhoGAP and MEKK1 and results in activation of ERK1/2. Furthermore, PRL-1 binding activates RhoA signaling by inhibiting the catalytic activity of p115 RhoGAP. The results demonstrate that PRL-1 binding to p115 RhoGAP provides a coordinated mechanism underlying ERK1/2 and RhoA activation.


  • Organizational Affiliation
    • Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana 46202.

Macromolecule Content 

  • Total Structure Weight: 46.06 kDa 
  • Atom Count: 2,463 
  • Modeled Residue Count: 322 
  • Deposited Residue Count: 402 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Protein tyrosine phosphatase type IVA 1
A, B
189Rattus norvegicusMutation(s): 0 
Gene Names: norway ratorganism_taxid: 10116Prl1Ptp4a1
EC: 3.1.3.48
UniProt
Find proteins for Q78EG7 (Rattus norvegicus)
Explore Q78EG7 
Go to UniProtKB:  Q78EG7
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ78EG7
Sequence Annotations
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Reference Sequence
Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Prl-1 (PTP4A1)
C, D
12N/AMutation(s): 0 

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free:  0.201 (Depositor), 0.212 (DCC) 
  • R-Value Work:  0.180 (Depositor), 0.195 (DCC) 
Space Group: I 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 146.513α = 90
b = 146.513β = 90
c = 146.513γ = 90
Software Package:
Software NamePurpose
HKL-3000data collection
AMoREphasing
CNSrefinement
HKL-3000data reduction
HKL-3000data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-10-26
    Type: Initial release
  • Version 1.1: 2013-06-19
    Changes: Database references
  • Version 1.2: 2014-10-29
    Changes: Structure summary
  • Version 1.3: 2024-11-06
    Changes: Data collection, Database references, Structure summary