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

Crystal structure of P[19] rotavirus VP8* complexed with mucin core 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x NGA- GAL- NAG: beta-D-galactopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-galactopyranose

NGA-GAL-NAG.1: 9 residues within 4Å: Chain A: L.104, H.106, G.107, R.109, W.111, T.122, R.146, E.149 Ligands: THR.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.106, A:R.146, A:G.107, A:R.109, A:R.146 Water bridges: A:G.107, A:G.108, A:T.122

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

SO4.2: 4 residues within 4Å: Chain A: K.91, Y.124, S.125, T.126 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.126, A:T.126 Water bridges: A:T.126, A:T.126 Salt bridges: A:K.91

1 x GOL: GLYCEROL(Non-functional Binders)

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

1 x THR: THREONINE(Non-functional Binders)

THR.4: 2 residues within 4Å: Ligands: NGA-GAL-NAG.1, NGA-GAL-NAG.1 4 PLIP interactions: 4 Ligand-Ligand interactions Hydrogen bonds: T.4, T.4, T.4, T.4

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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