SMTL ID : 4oov.1

Crystal structure of P domain from norovirus strain Farmington Hills 2004

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 7 residues within 4Å: Chain A: F.27, F.34, Q.179, W.180, F.210, R.212, D.227 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.180, A:R.212, A:D.227 Water bridges: A:P.30, A:Q.179 EDO.2: 7 residues within 4Å: Chain A: L.263, F.264, H.282, L.284, V.285, I.286, M.307 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.282, A:V.285, A:V.285 EDO.3: 6 residues within 4Å: Chain A: L.49, L.50, G.51, T.53, I.94, L.98 2 PLIP interactions: 2 interactions with chain A Water bridges: A:L.49, A:G.51 EDO.4: 6 residues within 4Å: Chain A: Q.236, Q.240 Chain B: P.7, L.9, E.233, H.237 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:H.237 Water bridges: A:Q.236 EDO.5: 8 residues within 4Å: Chain B: F.27, S.31, F.34, Q.179, W.180, F.210, R.212, D.227 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:W.180, B:R.212, B:D.227, B:D.227 Water bridges: B:P.30, B:Q.179 EDO.6: 6 residues within 4Å: Chain B: L.49, L.50, G.51, T.53, I.94, L.98 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.53 Water bridges: B:L.49, B:L.49, B:G.51, B:G.51, B:H.194 EDO.7: 2 residues within 4Å: Chain B: V.193, H.194 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.194 Water bridges: B:L.195 EDO.8: 6 residues within 4Å: Chain B: L.263, F.264, H.282, L.284, V.285, I.286 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.282, B:V.285

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

Major capsid protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Major capsid protein

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