3ASP image
Deposition Date 2010-12-17
Release Date 2012-01-25
Last Version Date 2024-03-13
Entry Detail
PDB ID:
3ASP
Keywords:
Title:
Crystal structure of P domain from Norovirus Funabashi258 stain in the complex with A-antigen
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.60 Å
R-Value Free:
0.20
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 31
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Capsid protein
Gene (Uniprot):capsid
Chain IDs:A, B
Chain Length:326
Number of Molecules:2
Biological Source:Norwalk-like virus
Ligand Molecules
Peptide-like Molecules
PRD_900131
Primary Citation
Structural basis for the recognition of Lewis antigens by genogroup I norovirus
J.Virol. 86 11138 11150 (2012)
PMID: 22855491 DOI: 10.1128/JVI.00278-12

Abstact

Noroviruses (NoVs) bind to histo-blood group antigens, namely, ABH antigens and Lewis antigens. We previously showed the NoVs GI/2, GI/3, GI/4, and GI/8 were able to strongly bind to Lewis a (Le(a)) antigen, which is expressed by individuals who are nonsecretors. In this study, to investigate how Lewis antigens interact with GI NoV virion protein 1 (VP1), we determined the crystal structures of the P domain of the VP1 protein from the Funabashi 258 (FUV258) strain (GI/2) in complexes with Le(a), Le(b), H type 1, or A type 1 antigens. The structures were compared with those of the NV/68 strain (GI/1), which does not bind to the Le(a) antigen. The four loop structures, loop P, loop S, loop A, and loop B, continuously deviated by more than 2 Å in length between the Cα atoms of the corresponding residues of the FUV258 and NV/68 P domains. The most pronounced differences between the two VP1 proteins were observed in the structures of loop P. In the FUV258 P domain, loop P protruded toward the next protomer, forming a Le(a) antigen-binding site. The Gln389 residue make a significant contribution to the binding of the Le(a) antigen through the stabilization of loop P as well as through direct interactions with the α4-fucosyl residue (α4Fuc) of the Le(a) antigen. Mutation of the Gln389 residue dramatically affected the degree of binding of the Lewis antigens. Collectively, these results suggest that loop P and the amino acid residue at position 389 affect Lewis antigen binding.

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Primary Citation of related structures