SMTL ID : 4op7.1

Crystal structure of P domain from norovirus strain NSW0514 in complex with HBGA type B (triglycan)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.92 Å

Oligo State

homo-dimer

Ligands

2 x GLA- FUC- GLA: alpha-L-fucopyranose-(1-2)-[alpha-D-galactopyranose-(1-3)]alpha-D-galactopyranose

GLA-FUC-GLA.1: 8 residues within 4Å: Chain A: S.120, T.121, R.122, H.124, D.151 Chain B: S.219, G.220, Y.221 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.121, A:R.122, A:R.122, A:D.151, B:G.220 Water bridges: A:D.151, A:H.124, B:K.125, B:K.125 Hydrophobic interactions: B:Y.221 GLA-FUC-GLA.2: 8 residues within 4Å: Chain A: S.219, G.220, Y.221 Chain B: S.120, T.121, R.122, H.124, D.151 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:T.121, B:R.122, B:R.122, B:D.151, A:G.220 Water bridges: B:D.151, B:D.151, B:H.124 Hydrophobic interactions: A:Y.221

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.3: 2 residues within 4Å: Chain B: D.248, K.270 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.270 Water bridges: B:D.248 IMD.4: 5 residues within 4Å: Chain A: L.49, L.55, L.98, Y.239 Chain B: E.13 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Singh, B.K. et al., Human noroviruses' fondness for histo-blood group antigens. J.Virol. (2015)

Release Date

2014-12-17

Peptides

VP1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

VP1

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