3KMW

Crystal structure of the ILK/alpha-parvin core complex (MgATP)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.199 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The pseudoactive site of ILK is essential for its binding to alpha-Parvin and localization to focal adhesions.

Fukuda, K.Gupta, S.Chen, K.Wu, C.Qin, J.

(2009) Mol.Cell 36: 819-830

  • DOI: 10.1016/j.molcel.2009.11.028
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Integrin-linked kinase (ILK) plays a pivotal role in connecting transmembrane receptor integrin to the actin cytoskeleton and thereby regulating diverse cell-adhesion-dependent processes. The kinase domain (KD) of ILK is indispensable for its functio ...

    Integrin-linked kinase (ILK) plays a pivotal role in connecting transmembrane receptor integrin to the actin cytoskeleton and thereby regulating diverse cell-adhesion-dependent processes. The kinase domain (KD) of ILK is indispensable for its function, but the underlying molecular basis remains enigmatic. Here we present the crystal structure of the ILK KD bound to its cytoskeletal regulator, the C-terminal calponin homology domain of alpha-parvin. While maintaining a canonical kinase fold, the ILK KD displays a striking pseudoactive site conformation. We show that rather than performing the kinase function, this conformation specifically recognizes alpha-parvin for promoting effective assembly of ILK into focal adhesions. The alpha-parvin-bound ILK KD can simultaneously engage integrin beta cytoplasmic tails. These results thus define ILK as a distinct pseudokinase that mechanically couples integrin and alpha-parvin for mediating cell adhesion. They also highlight functional diversity of the kinase fold and its "active" site in mediating many biological processes.


    Organizational Affiliation

    Department of Molecular Cardiology, Lerner Research Institute, Cleveland Clinic Foundation, 9500 Euclid Avenue, Cleveland, OH 44195, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Integrin-linked kinase
A
271Homo sapiensMutation(s): 2 
Gene Names: ILK (ILK1, ILK2)
EC: 2.7.11.1
Find proteins for Q13418 (Homo sapiens)
Go to Gene View: ILK
Go to UniProtKB:  Q13418
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Alpha-parvin
B
129Homo sapiensMutation(s): 0 
Gene Names: PARVA (MXRA2)
Find proteins for Q9NVD7 (Homo sapiens)
Go to Gene View: PARVA
Go to UniProtKB:  Q9NVD7
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ATP
Query on ATP

Download SDF File 
Download CCD File 
A
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.199 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 44.134α = 90.00
b = 117.103β = 101.96
c = 47.393γ = 90.00
Software Package:
Software NamePurpose
StructureStudiodata collection
AMoREphasing
d*TREKdata reduction
CNSrefinement
d*TREKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2009-11-11 
  • Released Date: 2009-12-29 
  • Deposition Author(s): Fukuda, K., Qin, J.

Revision History 

  • Version 1.0: 2009-12-29
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance