6S4C

Crystal Structure of the vWFA2 subdomain of type VII collagen


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.178 

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This is version 1.2 of the entry. See complete history


Literature

Structural and biophysical characterization of the type VII collagen vWFA2 subdomain leads to identification of two binding sites.

Gebauer, J.M.Flachsenberg, F.Windler, C.Richer, B.Baumann, U.Seeger, K.

(2020) FEBS Open Bio 10: 580-592

  • DOI: https://doi.org/10.1002/2211-5463.12807
  • Primary Citation of Related Structures:  
    6S4C

  • PubMed Abstract: 

    Type VII collagen is an extracellular matrix protein, which is important for skin stability; however, detailed information at the molecular level is scarce. The second vWFA (von Willebrand factor type A) domain of type VII collagen mediates important interactions, and immunization of mice induces skin blistering in certain strains. To understand vWFA2 function and the pathophysiological mechanisms leading to skin blistering, we structurally characterized this domain by X-ray crystallography and NMR spectroscopy. Cell adhesion assays identified two new interactions: one with β1 integrin via its RGD motif and one with laminin-332. The latter interaction was confirmed by surface plasmon resonance with a K D of about 1 mm. These data show that vWFA2 has additional functions in the extracellular matrix besides interacting with type I collagen.


  • Organizational Affiliation

    Institute of Biochemistry, University of Cologne, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Collagen alpha-1(VII) chain196Mus musculusMutation(s): 0 
Gene Names: Col7a1
UniProt
Find proteins for Q63870 (Mus musculus)
Explore Q63870 
Go to UniProtKB:  Q63870
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ63870
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.178 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 123.034α = 90
b = 123.034β = 90
c = 63.749γ = 120
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
ARP/wARPmodel building
PDB_EXTRACTdata extraction
PHASERphasing
PHENIXrefinement

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB829
German Research FoundationGermanyEXC 306
German Research FoundationGermanyRTG1727

Revision History  (Full details and data files)

  • Version 1.0: 2020-02-19
    Type: Initial release
  • Version 1.1: 2020-04-15
    Changes: Database references
  • Version 1.2: 2024-01-24
    Changes: Data collection, Database references, Derived calculations, Refinement description