SMTL ID : 3sis.2 (1 other biounit)

Crystal structure of Porcine CRW-8 Rotavirus VP8* in complex with aceramido-GM3_Gc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x GLC- GAL- NGC: N-glycolyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-alpha-D-glucopyranose

GLC-GAL-NGC.1: 8 residues within 4Å: Chain A: R.40, H.94, G.95, N.117, G.126, Y.127, Y.128, S.129 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.127 Hydrogen bonds: A:R.40, A:R.40, A:N.117, A:Y.127, A:Y.127, A:S.129 Water bridges: A:S.83, A:T.92, A:H.94, A:H.94, A:G.95, A:G.126

1 x NA: SODIUM ION(Non-functional Binders)

NA.2: 6 residues within 4Å: Chain A: D.81, G.95, Y.104, T.115, Y.116, N.117 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.104, A:T.115, A:Y.116 Water bridges: A:G.126

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 8 residues within 4Å: Chain A: P.25, T.26, V.27, G.29, V.30, V.31, F.141, C.142 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.25, A:V.31 Hydrogen bonds: A:T.26, A:V.27 Water bridges: A:T.26, A:F.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yu, X. et al., Novel structural insights into rotavirus recognition of ganglioside glycan receptors. J.Mol.Biol. (2011)

Release Date

2011-09-28

Peptides

Outer capsid protein VP4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Outer capsid protein VP4

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