5THP image
Entry Detail
PDB ID:
5THP
Keywords:
Title:
Rhodocetin in complex with the integrin alpha2-A domain
Biological Source:
Host Organism:
PDB Version:
Deposition Date:
2016-09-30
Release Date:
2017-08-02
Method Details:
Experimental Method:
Resolution:
3.01 Å
R-Value Free:
0.27
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
P 41
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Snaclec rhodocetin subunit gamma
Chain IDs:A, D, G, J, M, P
Chain Length:135
Number of Molecules:6
Biological Source:Calloselasma rhodostoma
Polymer Type:polypeptide(L)
Description:Snaclec rhodocetin subunit delta
Chain IDs:B, E, H, K, N, Q
Chain Length:124
Number of Molecules:6
Biological Source:Calloselasma rhodostoma
Polymer Type:polypeptide(L)
Description:Integrin alpha-2
Chain IDs:C, F, I, L, O, R
Chain Length:217
Number of Molecules:6
Biological Source:Homo sapiens
Primary Citation
Dramatic and concerted conformational changes enable rhodocetin to block alpha 2 beta 1 integrin selectively.
PLoS Biol. 15 e2001492 e2001492 (2017)
PMID: 28704364 DOI: 10.1371/journal.pbio.2001492

Abstact

The collagen binding integrin α2β1 plays a crucial role in hemostasis, fibrosis, and cancer progression amongst others. It is specifically inhibited by rhodocetin (RC), a C-type lectin-related protein (CLRP) found in Malayan pit viper (Calloselasma rhodostoma) venom. The structure of RC alone reveals a heterotetramer arranged as an αβ and γδ subunit in a cruciform shape. RC specifically binds to the collagen binding A-domain of the integrin α2 subunit, thereby blocking collagen-induced platelet aggregation. However, until now, the molecular basis for this interaction has remained unclear. Here, we present the molecular structure of the RCγδ-α2A complex solved to 3.0 Å resolution. Our findings show that RC undergoes a dramatic structural reorganization upon binding to α2β1 integrin. Besides the release of the nonbinding RCαβ tandem, the RCγ subunit interacts with loop 2 of the α2A domain as result of a dramatic conformational change. The RCδ subunit contacts the integrin α2A domain in the "closed" conformation through its helix C. Combined with epitope-mapped antibodies, conformationally locked α2A domain mutants, point mutations within the α2A loop 2, and chemical modifications of the purified toxin protein, this molecular structure of RCγδ-α2A complex explains the inhibitory mechanism and specificity of RC for α2β1 integrin.

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