4S0G

Crystal structure of PTPN3 (PTPH1) in complex with Eps15 pTyr849 P850V peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.723 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.182 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Substrate Specificity and Plasticity of FERM-Containing Protein Tyrosine Phosphatases

Chen, K.E.Li, M.Y.Chou, C.C.Ho, M.R.Chen, G.C.Meng, T.C.Wang, A.H.-J.

(2015) Structure --: --

  • DOI: 10.1016/j.str.2015.01.017
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Epidermal growth factor receptor (EGFR) pathway substrate 15 (Eps15) is a newly identified substrate for protein tyrosine phosphatase N3 (PTPN3), which belongs to the FERM-containing PTP subfamily comprising five members including PTPN3, N4, N13, N14 ...

    Epidermal growth factor receptor (EGFR) pathway substrate 15 (Eps15) is a newly identified substrate for protein tyrosine phosphatase N3 (PTPN3), which belongs to the FERM-containing PTP subfamily comprising five members including PTPN3, N4, N13, N14, and N21. We solved the crystal structures of the PTPN3-Eps15 phosphopeptide complex and found that His812 of PTPN3 and Pro850 of Eps15 are responsible for the specific interaction between them. We defined the critical role of the additional residue Tyr676 of PTPN3, which is replaced by Ile939 in PTPN14, in recognition of tyrosine phosphorylated Eps15. The WPD loop necessary for catalysis is present in all members but not PTPN21. We identified that Glu instead of Asp in the WPE loop contributes to the catalytic incapability of PTPN21 due to an extended distance beyond protonation targeting a phosphotyrosine substrate. Together with in vivo validations, our results provide novel insights into the substrate specificity and plasticity of FERM-containing PTPs.


    Organizational Affiliation

    Institute of Biological Chemistry, Academia Sinica, Taipei 115, Taiwan.,Institute of Biological Chemistry, Academia Sinica, Taipei 115, Taiwan; Institute of Biochemical Sciences, College of Life Science, National Taiwan University, Taipei 115, Taiwan. Electronic address: tcmeng@gate.sinica.edu.tw.,Institute of Biological Chemistry, Academia Sinica, Taipei 115, Taiwan; Institute of Biochemical Sciences, College of Life Science, National Taiwan University, Taipei 115, Taiwan; National Core Facility for Protein Structural Analysis, Academia Sinica, Taipei 115, Taiwan; Graduate Institute of Translational Medicine, College of Medical Science and Technology, Taipei Medical University, Taipei 110, Taiwan. Electronic address: ahjwang@gate.sinica.edu.tw.,Institute of Biological Chemistry, Academia Sinica, Taipei 115, Taiwan; National Core Facility for Protein Structural Analysis, Academia Sinica, Taipei 115, Taiwan.,Institute of Biological Chemistry, Academia Sinica, Taipei 115, Taiwan; Institute of Biochemical Sciences, College of Life Science, National Taiwan University, Taipei 115, Taiwan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Tyrosine-protein phosphatase non-receptor type 3
A
306Homo sapiensMutation(s): 2 
Gene Names: PTPN3 (PTPH1)
EC: 3.1.3.48
Find proteins for P26045 (Homo sapiens)
Go to Gene View: PTPN3
Go to UniProtKB:  P26045
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Peptide from Epidermal growth factor receptor substrate 15
B
9Homo sapiensMutation(s): 1 
Gene Names: EPS15 (AF1P)
Find proteins for P42566 (Homo sapiens)
Go to Gene View: EPS15
Go to UniProtKB:  P42566
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
PTR
Query on PTR
B
L-PEPTIDE LINKINGC9 H12 N O6 PTYR
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.723 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.182 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 58.051α = 90.00
b = 67.332β = 90.00
c = 68.985γ = 90.00
Software Package:
Software NamePurpose
BSSdata collection
HKL-2000data scaling
PHASESphasing
PHENIXrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-03-11
    Type: Initial release