3P8C

Structure and Control of the Actin Regulatory WAVE Complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.29 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.191 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Structure and control of the actin regulatory WAVE complex.

Chen, Z.Borek, D.Padrick, S.B.Gomez, T.S.Metlagel, Z.Ismail, A.M.Umetani, J.Billadeau, D.D.Otwinowski, Z.Rosen, M.K.

(2010) Nature 468: 533-538

  • DOI: https://doi.org/10.1038/nature09623
  • Primary Citation of Related Structures:  
    3P8C

  • PubMed Abstract: 

    Members of the Wiskott-Aldrich syndrome protein (WASP) family control cytoskeletal dynamics by promoting actin filament nucleation with the Arp2/3 complex. The WASP relative WAVE regulates lamellipodia formation within a 400-kilodalton, hetero-pentameric WAVE regulatory complex (WRC). The WRC is inactive towards the Arp2/3 complex, but can be stimulated by the Rac GTPase, kinases and phosphatidylinositols. Here we report the 2.3-ångstrom crystal structure of the WRC and complementary mechanistic analyses. The structure shows that the activity-bearing VCA motif of WAVE is sequestered by a combination of intramolecular and intermolecular contacts within the WRC. Rac and kinases appear to destabilize a WRC element that is necessary for VCA sequestration, suggesting the way in which these signals stimulate WRC activity towards the Arp2/3 complex. The spatial proximity of the Rac binding site and the large basic surface of the WRC suggests how the GTPase and phospholipids could cooperatively recruit the complex to membranes.


  • Organizational Affiliation

    Department of Biochemistry, University of Texas Southwestern Medical Center at Dallas, 5323 Harry Hines Boulevard, Dallas, Texas 75390, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Cytoplasmic FMR1-interacting protein 11,253Homo sapiensMutation(s): 0 
Gene Names: CYFIP1KIAA0068
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Find proteins for Q7L576 (Homo sapiens)
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Go to UniProtKB:  Q7L576
PHAROS:  Q7L576
GTEx:  ENSG00000273749 
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7L576
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Nck-associated protein 11,128Homo sapiensMutation(s): 0 
Gene Names: NCKAP1HEM2KIAA0587NAP1
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Go to UniProtKB:  Q9Y2A7
PHAROS:  Q9Y2A7
GTEx:  ENSG00000061676 
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UniProt GroupQ9Y2A7
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Wiskott-Aldrich syndrome protein family member 1C [auth D]279Homo sapiensMutation(s): 0 
Gene Names: WASF1KIAA0269SCAR1WAVE1
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Find proteins for Q92558 (Homo sapiens)
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Go to UniProtKB:  Q92558
PHAROS:  Q92558
GTEx:  ENSG00000112290 
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UniProt GroupQ92558
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Probable protein BRICK1D [auth E]75Homo sapiensMutation(s): 0 
Gene Names: C3orf10HSPC300MDS027
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Find proteins for Q8WUW1 (Homo sapiens)
Explore Q8WUW1 
Go to UniProtKB:  Q8WUW1
PHAROS:  Q8WUW1
GTEx:  ENSG00000254999 
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UniProt GroupQ8WUW1
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Abl interactor 2E [auth F]159Homo sapiensMutation(s): 0 
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PHAROS:  Q9NYB9
GTEx:  ENSG00000138443 
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
TRS
Query on TRS

Download Ideal Coordinates CCD File 
F [auth A]2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
GOL
Query on GOL

Download Ideal Coordinates CCD File 
K [auth A],
L [auth A],
M [auth A],
Q [auth B]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL
Query on CL

Download Ideal Coordinates CCD File 
G [auth A]
H [auth A]
I [auth A]
J [auth A]
N [auth B]
G [auth A],
H [auth A],
I [auth A],
J [auth A],
N [auth B],
O [auth B],
P [auth B]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.29 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.191 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 97.013α = 90
b = 113.982β = 90
c = 327.193γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
MLPHAREphasing
REFMACrefinement
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: 2010-12-01
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2011-09-21
    Changes: Database references
  • Version 1.3: 2017-08-02
    Changes: Refinement description, Source and taxonomy
  • Version 1.4: 2024-02-21
    Changes: Data collection, Database references, Derived calculations