1UEX

Crystal structure of von Willebrand Factor A1 domain complexed with snake venom bitiscetin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.194 

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This is version 1.2 of the entry. See complete history

Literature

Crystal structure of von Willebrand factor A1 domain complexed with snake venom, bitiscetin. Insight into glycoprotein Ibalpha binding mechanism induced by snake venom proteins.

Maita, N.Nishio, K.Nishimoto, E.Matsui, T.Shikamoto, Y.Morita, T.Sadler, J.E.Mizuno, H.

(2003) J.Biol.Chem. 278: 37777-37781

  • DOI: 10.1074/jbc.M305566200

  • PubMed Abstract: 
  • Bitiscetin, a platelet adhesion inducer isolated from venom of the snake Bitis arietans, activates the binding of the von Willebrand factor (VWF) A1 domain to glycoprotein Ib (GPIb) in vitro. This activation requires the formation of a bitiscetin-VWF ...

    Bitiscetin, a platelet adhesion inducer isolated from venom of the snake Bitis arietans, activates the binding of the von Willebrand factor (VWF) A1 domain to glycoprotein Ib (GPIb) in vitro. This activation requires the formation of a bitiscetin-VWF A1 complex, suggesting an allosteric mechanism of action. Here, we report the crystal structure of bitiscetin-VWF A1 domain complex solved at 2.85 A. In the complex structure, helix alpha5 of VWF A1 domain lies on a concave depression on bitiscetin, and binding sites are located at both ends of the depression. The binding sites correspond well with those proposed previously based on alanine-scanning mutagenesis (Matsui, T., Hamako, J., Matsushita, T., Nakayama, T., Fujimura, Y., and Titani, K. (2002) Biochemistry 41, 7939-7946). Against our expectations, the structure of the VWF A1 domain bound to bitiscetin does not differ significantly from the structure of the free A1 domain. These results are similar to the case of botrocetin, another snake-derived inducer of platelet aggregation, although the binding modes of botrocetin and bitiscetin are different. The modeled structure of the ternary bitiscetin-VWF A1-GPIb complex suggests that an electropositive surface of bitiscetin may interact with a favorably positioned anionic region of GPIb. These results suggest that snake venom proteins induce VWF A1-GPIbalpha binding by interacting with both proteins, and not by causing conformational changes in VWF A1.


    Organizational Affiliation

    Department of Biochemistry, National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
bitiscetin alpha chain
A
131Bitis arietansMutation(s): 0 
Find proteins for Q7LZK5 (Bitis arietans)
Go to UniProtKB:  Q7LZK5
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
bitiscetin beta chain
B
125Bitis arietansMutation(s): 0 
Find proteins for Q7LZK8 (Bitis arietans)
Go to UniProtKB:  Q7LZK8
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
von Willebrand Factor
C
209Homo sapiensMutation(s): 0 
Gene Names: VWF (F8VWF)
Find proteins for P04275 (Homo sapiens)
Go to Gene View: VWF
Go to UniProtKB:  P04275
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.194 
  • Space Group: P 43
Unit Cell:
Length (Å)Angle (°)
a = 89.282α = 90.00
b = 89.282β = 90.00
c = 53.394γ = 90.00
Software Package:
Software NamePurpose
CCP4data scaling
MOSFLMdata reduction
AMoREphasing
CNSrefinement
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-09-30
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance