SMTL ID : 5vks.1 (1 other biounit)

Crystal structure of P[19] rotavirus VP8* complexed with LNFPI

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

monomer

Ligands

1 x GLC- 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)-alpha-D-glucopyranose

GLC-GAL-NAG-GAL-FUC.1: 9 residues within 4Å: Chain A: L.104, H.106, G.107, R.109, W.111, T.121, T.122, R.146, E.149 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.146, A:T.122 Hydrogen bonds: A:T.122, A:T.122, A:E.149, A:R.109, A:R.109, A:R.146, A:E.149

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 2 residues within 4Å: Chain A: R.109, T.126 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.109

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: S.128, N.129, L.130, N.131 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.15, A:S.128, A:L.130, A:N.131 Water bridges: A:N.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Y. et al., Structural basis of glycan specificity of P[19] VP8*: Implications for rotavirus zoonosis and evolution. PLoS Pathog. (2017)

Release Date

2017-11-08

Peptides

Outer capsid protein VP4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Outer capsid protein VP4

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