SMTL ID : 3sld.1 (5 other biounits)

Structural characterization of a GII.4 2004 norovirus variant (TCH05) bound to A trisaccharide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.68 Å

Oligo State

homo-dimer

Ligands

2 x GAL- FUC- A2G: alpha-L-fucopyranose-(1-2)-[2-acetamido-2-deoxy-alpha-D-galactopyranose-(1-3)]beta-D-galactopyranose(Non-covalent)

GAL-FUC-A2G.1: 10 residues within 4Å: Chain A: S.123, T.124, R.125, H.127, D.154 Chain B: Q.111, K.128, S.222, G.223, Y.224 9 PLIP interactions: 4 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:G.126, B:K.128, B:S.222, B:S.222, B:G.223, A:T.124, A:R.125, A:R.125, A:D.154, B:S.222, B:S.222 Hydrophobic interactions: B:Y.224 Water bridges: B:G.172, B:G.172, B:G.172 GAL-FUC-A2G.2: 9 residues within 4Å: Chain A: K.128, S.222, G.223, Y.224 Chain B: S.123, T.124, R.125, H.127, D.154 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:Y.224 Hydrogen bonds: A:G.223, B:T.124, B:R.125, B:R.125, B:D.154, A:S.222

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Shanker, S. et al., Structural Analysis of Histo-Blood Group Antigen Binding Specificity in a Norovirus GII.4 Epidemic Variant: Implications for Epochal Evolution. J.Virol. (2011)

Release Date

2011-07-13

Peptides

Capsid: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Capsid

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