2VRP image
Deposition Date 2008-04-09
Release Date 2008-07-08
Last Version Date 2024-10-16
Entry Detail
PDB ID:
2VRP
Title:
Structure of rhodocytin
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.41 Å
R-Value Free:
0.27
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
I 2 2 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:AGGRETIN ALPHA CHAIN
Chain IDs:A
Chain Length:136
Number of Molecules:1
Biological Source:CALLOSELASMA RHODOSTOMA
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:AGGRETIN BETA CHAIN
Chain IDs:B
Chain Length:123
Number of Molecules:1
Biological Source:CALLOSELASMA RHODOSTOMA
Primary Citation
Crystal Structure of Rhodocytin, a Ligand for the Platelet-Activating Receptor Clec-2.
Protein Sci. 17 1611 ? (2008)
PMID: 18583525 DOI: 10.1110/PS.035568.108

Abstact

Binding of the snake venom protein rhodocytin to CLEC-2, a receptor on the surface of human platelets, initiates a signaling cascade leading to platelet activation and aggregation. We have previously solved the structure of CLEC-2. The 2.4 A resolution crystal structure of rhodocytin presented here demonstrates that it is the first snake venom or other C-type lectin-like protein to assemble as a non-disulfide linked (alphabeta)(2) tetramer. Rhodocytin is highly adapted for interaction with CLEC-2 and displays a concave binding surface, which is highly complementary to the experimentally determined binding interface on CLEC-2. Using computational dynamic methods, surface electrostatic charge and hydrophobicity analyses, and protein-protein docking predictions, we propose that the (alphabeta)(2) rhodocytin tetramer induces clustering of CLEC-2 receptors on the platelet surface, which will trigger major signaling events resulting in platelet activation and aggregation.

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