Biological Assembly 1  

 3D View: Structure

Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 69.79 kDa 
• Atom Count: 5240 
• Residue Count: 626 
• Unique protein chains: 3

1OAK

CRYSTAL STRUCTURE OF THE VON WILLEBRAND FACTOR (VWF) A1 DOMAIN IN COMPLEX WITH THE FUNCTION BLOCKING NMC-4 FAB

• DOI: 10.2210/pdb1OAK/pdb

• Classification: COMPLEX (WILLEBRAND/IMMUNOGLOBULIN)
• Organism(s): Mus musculus, Homo sapiens
• Expression System: Mus musculus, Escherichia coli
• Mutation(s): No 


• Deposited: 1997-12-18 Released: 1998-10-21 
• Deposition Author(s): Celikel, R., Varughese, K.I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.274 
• R-Value Work: 0.201 
• R-Value Observed: 0.201 

Literature

Crystal structure of the von Willebrand factor A1 domain in complex with the function blocking NMC-4 Fab.

Celikel, R., Varughese, K.I., Madhusudan, Yoshioka, A., Ware, J., Ruggeri, Z.M.

(1998) Nat Struct Biol 5: 189-194

• PubMed: 9501911 
• DOI: 10.1038/nsb0398-189
• Primary Citation of Related Structures:  
  1OAK


• PubMed Abstract: 
  

The presence of one or more copies of von Willebrand factor type A domains identifies a superfamily of proteins usually involved in biological processes controlled by specific molecular interactions, often adhesive in nature. We have solved the crystal structure of the prototypic von Willebrand factor A1 domain, essential for the antihemorrhagic activity of platelets, in complex with the function blocking antibody, NMC-4, at 2.2 A resolution. This has led to the recognition of a putative binding groove for the platelet receptor, glycoprotein Ib alpha, formed by two adjacent alpha-helices and a beta-strand. The structure also shows a contact interface between A1 domain pairs, suggesting a hypothetical mechanism for the regulation of protein assembly and heterologous ligand binding mediated by homophilic interactions of type A domains.

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Related Citations: 

• Crystal Structure of Nmc-4 Fab Anti-Von Willebrand Factor A1 Domain
  Celikel, R., Madhusudan, Varughese, K.I., Shima, M., Yoshioka, A., Ware, J., Ruggeri, Z.M.
  (1997) Blood Cells Mol Dis 23: 123

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Organizational Affiliation: 

Roon Research Center for Arteriosclerosis and Thrombosis, The Scripps Research Institute, La Jolla, California 92037, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NMC-4 IGG1	L	212	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
NMC-4 IGG1	H	223	Mus musculus	Mutation(s): 0  Gene Names: Ighg1, Igh-4
Find proteins for P01868 (Mus musculus) Explore P01868  Go to UniProtKB:  P01868

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
VON WILLEBRAND FACTOR	A	196	Homo sapiens	Mutation(s): 0  Gene Names: VWF, F8VWF
Find proteins for P04275 (Homo sapiens) Explore P04275  Go to UniProtKB:  P04275
NIH Common Fund Data Resources
PHAROS:  P04275 GTEx:  ENSG00000110799

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.274 
• R-Value Work: 0.201 
• R-Value Observed: 0.201 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 208.2	α = 90
b = 61.9	β = 108.6
c = 72.9	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASES	phasing
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-12-18 
• Released Date: 1998-10-21 
Deposition Author(s): Celikel, R., Varughese, K.I.

Revision History 

• Version 1.0: 1998-10-21
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance