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

Structural characterization of a GII.4 2004 norovirus variant (TCH05) bound to H pentasaccharide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.84 Å

Oligo State

homo-dimer

Ligands

3 x BGC- GAL- NAG- GAL- FUC: alpha-L-fucopyranose-(1-2)-beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose-(1-4)-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)

BGC-GAL-NAG-GAL-FUC.1: 4 residues within 4Å: Chain A: S.123, T.124, R.125, D.154 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.124, A:R.125, A:R.125, A:D.154 BGC-GAL-NAG-GAL-FUC.2: 4 residues within 4Å: Chain B: S.123, T.124, R.125, D.154 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.124, B:R.125, B:D.154 BGC-GAL-NAG-GAL-FUC.3: 5 residues within 4Å: Chain B: G.172, S.173, S.222, G.223, Y.224 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Y.224 Hydrogen bonds: B:G.223, B:S.222, B:G.172

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
D

Capsid

Related Entries With Identical Sequence