PDBsum entry 1fvu

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protein metals Protein-protein interface(s) links
Toxin PDB id
Protein chains
133 a.a. *
121 a.a. *
_MG ×2
Waters ×603
* Residue conservation analysis
PDB id:
Name: Toxin
Title: Crystal structure of botrocetin
Structure: Botrocetin alpha chain. Chain: a, c. Synonym: platelet coagglutinin alpha. Botrocetin beta chain. Chain: b, d. Synonym: platelet coagglutinin beta
Source: Bothrops jararaca. Jararaca. Organism_taxid: 8724. Secretion: venom. Secretion: venom
Biol. unit: Dimer (from PQS)
1.80Å     R-factor:   0.199     R-free:   0.218
Authors: U.Sen,S.Vasudevan,G.Subbarao,R.A.Mcclintoc,R.Celikel, Z.M.Ruggeri,K.I.Varughese
Key ref:
U.Sen et al. (2001). Crystal structure of the von Willebrand factor modulator botrocetin. Biochemistry, 40, 345-352. PubMed id: 11148028 DOI: 10.1021/bi0021737
20-Sep-00     Release date:   14-Feb-01    
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Protein chains
Pfam   ArchSchema ?
P22029  (LECBA_BOTJA) -  Snaclec botrocetin subunit alpha
133 a.a.
133 a.a.
Protein chains
Pfam   ArchSchema ?
P22030  (LECBB_BOTJA) -  Snaclec botrocetin subunit beta
125 a.a.
121 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     extracellular region   1 term 
  Biochemical function     carbohydrate binding     1 term  


DOI no: 10.1021/bi0021737 Biochemistry 40:345-352 (2001)
PubMed id: 11148028  
Crystal structure of the von Willebrand factor modulator botrocetin.
U.Sen, S.Vasudevan, G.Subbarao, R.A.McClintock, R.Celikel, Z.M.Ruggeri, K.I.Varughese.
The binding of von Willebrand factor (vWF) to the platelet receptor, glycoprotein (GP) Ib-IX-V complex, has a key role in the initiation of thrombus formation and is regulated by interactions with extracellular matrix components under the influence of hemodynamic forces. To a certain extent, these effects can be mimicked in vitro by two nonphysiologic modulators, ristocetin and botrocetin. The latter, isolated from the venom of the snake Bothrops jararaca, is a 31-kDa heterodimeric protein that forms a soluble complex with vWF. As an initial step toward understanding the mechanisms that regulate vWF function, we have solved the crystal structure of botrocetin at 1.8 A resolution. Botrocetin exhibits homology with other snake proteins, but contains only one metal binding site as compared to two in Factor IX binding protein and Factor IX/X binding protein and none in flavocetin. A distinctive feature of botrocetin is the presence of a negatively charged surface that may play a role in the association with the vWF A1 domain.

Literature references that cite this PDB file's key reference

  PubMed id Reference
19634988 M.A.Wouters, S.W.Fan, and N.L.Haworth (2010).
Disulfides as redox switches: from molecular mechanisms to functional significance.
  Antioxid Redox Signal, 12, 53-91.  
18597489 E.Hooley, E.Papagrigoriou, A.Navdaev, A.V.Pandey, J.M.Clemetson, K.J.Clemetson, and J.Emsley (2008).
The crystal structure of the platelet activator aggretin reveals a novel (alphabeta)2 dimeric structure.
  Biochemistry, 47, 7831-7837.
PDB code: 3bx4
17437137 V.Pletnev, R.Huether, L.Habegger, W.Schultz, and W.Duax (2007).
Rational proteomics of PKD1. I. Modeling the three dimensional structure and ligand specificity of the C_lectin binding domain of Polycystin-1.
  J Mol Model, 13, 891-896.  
15665869 K.Fukuda, T.Doggett, I.J.Laurenzi, R.C.Liddington, and T.G.Diacovo (2005).
The snake venom protein botrocetin acts as a biological brace to promote dysfunctional platelet aggregation.
  Nat Struct Mol Biol, 12, 152-159.
PDB codes: 1u0n 1u0o
15576563 P.Paaventhan, C.Kong, J.S.Joseph, M.C.Chung, and P.R.Kolatkar (2005).
Structure of rhodocetin reveals noncovalently bound heterodimer interface.
  Protein Sci, 14, 169-175.
PDB code: 1sb2
14684891 T.Batuwangala, M.Leduc, J.M.Gibbins, C.Bon, and E.Y.Jones (2004).
Structure of the snake-venom toxin convulxin.
  Acta Crystallogr D Biol Crystallogr, 60, 46-53.
PDB code: 1uos
14580195 K.Horii, D.Okuda, T.Morita, and H.Mizuno (2003).
Structural characterization of EMS16, an antagonist of collagen receptor (GPIa/IIa) from the venom of Echis multisquamatus.
  Biochemistry, 42, 12497-12502.
PDB code: 1ukm
12851390 N.Maita, K.Nishio, E.Nishimoto, T.Matsui, Y.Shikamoto, T.Morita, J.E.Sadler, and H.Mizuno (2003).
Crystal structure of von Willebrand factor A1 domain complexed with snake venom, bitiscetin: insight into glycoprotein Ibalpha binding mechanism induced by snake venom proteins.
  J Biol Chem, 278, 37777-37781.
PDB code: 1uex
12579041 Z.M.Ruggeri (2003).
Von Willebrand factor.
  Curr Opin Hematol, 10, 142-149.  
12121649 K.Fukuda, T.A.Doggett, L.A.Bankston, M.A.Cruz, T.G.Diacovo, and R.C.Liddington (2002).
Structural basis of von Willebrand factor activation by the snake toxin botrocetin.
  Structure, 10, 943-950.
PDB codes: 1ijb 1ijk
11914494 S.Liu, Z.Zhu, J.Sun, Z.Zhu, Q.Huang, M.Teng, and L.Niu (2002).
Purification, crystallization and preliminary X-ray crystallographic analysis of agkaggregin, a C-type lectin-like protein from Agkistrodon acutus venom.
  Acta Crystallogr D Biol Crystallogr, 58, 675-678.  
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