1XWJ | pdb_00001xwj

Vinculin head (1-258) in complex with the talin vinculin binding site 3 (1945-1969)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 
    0.281 (Depositor), 0.280 (DCC) 
  • R-Value Work: 
    0.241 (Depositor), 0.242 (DCC) 

wwPDB Validation 3D Report Full Report

Validation slider image for 1XWJ

This is version 1.3 of the entry. See complete history

Literature

Structural and Dynamic Characterization of a Vinculin Binding Site in the Talin Rod

Gingras, A.R.Vogel, K.P.Steinhoff, H.J.Ziegler, W.H.Patel, B.Emsley, J.Critchley, D.R.Roberts, G.C.Barsukov, I.L.

(2006) Biochemistry 45: 1805-1817

  • DOI: https://doi.org/10.1021/bi052136l
  • Primary Citation Related Structures: 
    1XWJ, 2B0H

  • PubMed Abstract: 

    Talin is a key protein involved in linking integrins to the actin cytoskeleton. The long flexible talin rod domain contains a number of binding sites for vinculin, a cytoskeletal protein important in stabilizing integrin-mediated cell-matrix junctions. Here we report the solution structure of a talin rod polypeptide (residues 1843-1973) which contains a single vinculin binding site (VBS; residues 1944-1969). Like other talin rod polypeptides, it consists of a helical bundle, in this case a four-helix bundle with a right-handed topology. The residues in the VBS important for vinculin binding were identified by studying the binding of a series of VBS-related peptides to the vinculin Vd1 domain. The key binding determinants are buried in the interior of the helical bundle, suggesting that a substantial structural change in the talin polypeptide is required for vinculin binding. Direct evidence for this was obtained by NMR and EPR spectroscopy. [1H,15N]-HSQC spectra of the talin fragment indicate that vinculin binding caused approximately two-thirds of the protein to adopt a flexible random coil. For EPR spectroscopy, nitroxide spin labels were attached to the talin polypeptide via appropriately located cysteine residues. Measurements of inter-nitroxide distances in doubly spin-labeled protein showed clearly that the helical bundle is disrupted and the mobility of the helices, except for the VBS helix, is markedly increased. Binding of vinculin to talin is thus a clear example of the unusual phenomenon of protein unfolding being required for protein/protein interaction.


  • Organizational Affiliation
    • Department of Biochemistry, University of Leicester, Henry Wellcome Building, P.O. Box 138, Lancaster Road, Leicester LE1 9HN, United Kingdom.

Macromolecule Content 

  • Total Structure Weight: 34.23 kDa 
  • Atom Count: 2,144 
  • Modeled Residue Count: 277 
  • Deposited Residue Count: 306 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Vinculin280Gallus gallusMutation(s): 0 
UniProt
Find proteins for P12003 (Gallus gallus)
Explore P12003 
Go to UniProtKB:  P12003
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP12003
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Talin26N/AMutation(s): 0 
UniProt
Find proteins for P54939 (Gallus gallus)
Explore P54939 
Go to UniProtKB:  P54939
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP54939
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free:  0.281 (Depositor), 0.280 (DCC) 
  • R-Value Work:  0.241 (Depositor), 0.242 (DCC) 
Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.173α = 90
b = 72.434β = 90
c = 96.372γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement
CNSphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-10-11
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-03-13
    Changes: Data collection, Database references