3TG3

Crystal structure of the MAPK binding domain of MKP7


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.675 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.239 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

A Distinct Interaction Mode Revealed by the Crystal Structure of the Kinase p38alpha with the MAPK Binding Domain of the Phosphatase MKP5.

Zhang, Y.Y.Wu, J.W.Wang, Z.X.

(2011) Sci.Signal. 4: ra88-ra88

  • DOI: 10.1126/scisignal.2002241
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The mitogen-activated protein kinase (MAPK) cascades play a pivotal role in a myriad of cellular functions. The specificity and efficiency of MAPK signaling are controlled by docking interactions between MAPKs an ...

    The mitogen-activated protein kinase (MAPK) cascades play a pivotal role in a myriad of cellular functions. The specificity and efficiency of MAPK signaling are controlled by docking interactions between MAPKs and their cognate proteins. Many MAPK-interacting partners, including substrates, MAPK kinases, phosphatases, and scaffolding proteins, have linear sequence motifs that mediate the interaction with the common docking site on MAPKs. We report the crystal structure of p38α in complex with the MAPK binding domain (KBD) from MAPK phosphatase 5 (MKP5) at 2.7 Å resolution. In contrast to the well-known docking mode, the KBD binds p38α in a bipartite manner, in which two distinct helical regions of KBD engage the p38α docking site, which is situated on the back of the p38α active site. We also determined the crystal structure of the KBD of MKP7, which closely resembles the MKP5 KBD, suggesting that the mechanism of molecular recognition by the KBD of MKP5 is conserved in the cytoplasmic p38- and c-Jun N-terminal kinase-specific MKP subgroup. This previously unknown binding mode provides new insights into how MAPKs interact with their binding partners to achieve functional specificity.


    Organizational Affiliation

    Ministry of Education Key Laboratory for Protein Science, School of Life Sciences, Tsinghua University, Beijing 100084, PR China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Dual specificity protein phosphatase 16
A, B, C, D
142Homo sapiensMutation(s): 0 
Gene Names: DUSP16 (KIAA1700, MKP7)
EC: 3.1.3.16, 3.1.3.48
Find proteins for Q9BY84 (Homo sapiens)
Go to Gene View: DUSP16
Go to UniProtKB:  Q9BY84
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
C, D
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.675 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.239 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 40.497α = 91.18
b = 47.479β = 97.29
c = 64.512γ = 96.81
Software Package:
Software NamePurpose
PHASERphasing
HKL-2000data scaling
HKL-2000data reduction
CrystalCleardata collection
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-03-14
    Type: Initial release