SMTL ID : 3pa1.3 (2 other biounits)

Crystal Structure of P Domain from Norwalk Virus Strain Vietnam 026 in complex with HBGA type A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.48 Å

Oligo State

monomer

Ligands

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 7 residues within 4Å: Chain A: L.60, T.62, G.63, A.66, R.68, L.91, K.174 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.62, A:R.68 EDO.2: 5 residues within 4Å: Chain A: Q.58, N.90, L.91, N.92, L.106 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.92, A:N.92 Water bridges: A:L.91, A:L.91, A:N.92 EDO.3: 3 residues within 4Å: Chain A: R.68, R.122, K.174 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.68, A:R.122 Water bridges: A:K.174 EDO.4: 2 residues within 4Å: Chain A: R.224, N.235 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.224, A:R.224 Water bridges: A:Y.31, A:Y.31, A:Y.31, A:Y.31, A:N.235 EDO.5: 6 residues within 4Å: Chain A: L.53, Q.54, G.55, T.57, V.102, L.106 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.57 Water bridges: A:G.55, A:D.101 EDO.6: 2 residues within 4Å: Chain A: Q.58, L.59 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.59 EDO.7: 4 residues within 4Å: Chain A: P.11, E.245, Q.248, H.249 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.248 Water bridges: A:Q.252

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.8: 2 residues within 4Å: Chain A: E.140, K.230 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.230 Water bridges: A:E.140

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hansman, G.S. et al., Crystal Structures of GII.10 and GII.12 Norovirus Protruding Domains in Complex with Histo-Blood Group Antigens Reveal Details for a Potential Site of Vulnerability. J.Virol. (2011)

Release Date

2011-05-11

Peptides

Capsid protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Capsid protein

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