SMTL ID : 5ca6.2 (1 other biounit)

Crystallographic structure of apo porcine rotavirus TFR-41 VP8*

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: R.110, Y.112 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.110 GOL.2: 6 residues within 4Å: Chain A: M.105, F.107, Y.112, T.123, R.147, E.150 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.123, A:R.147, A:R.147 Water bridges: A:Y.112, A:Y.112 GOL.3: 4 residues within 4Å: Chain A: W.39, F.59, K.82, P.85 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.82, A:K.82 Water bridges: A:F.59

1 x FMT: FORMIC ACID(Non-functional Binders)

FMT.4: 2 residues within 4Å: Chain A: T.122, T.123 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.123, A:T.123, A:T.123

1 x VCA: VACCENIC ACID(Non-covalent)

VCA.5: 18 residues within 4Å: Chain A: P.13, I.19, V.30, G.32, L.40, A.41, T.42, D.79, S.81, H.92, V.104, K.106, Y.126, S.127, T.128, Y.131, V.134, N.135 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:P.13, A:I.19, A:V.30, A:L.40, A:L.40, A:D.79, A:V.104, A:V.104, A:K.106, A:Y.126, A:Y.126, A:Y.126, A:Y.126, A:V.134 Hydrogen bonds: A:S.127, A:T.128, A:Y.131 Water bridges: A:R.38 Salt bridges: A:H.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yu, X. et al., Substantial Receptor-induced Structural Rearrangement of Rotavirus VP8*: Potential Implications for Cross-Species Infection. Chembiochem (2015)

Release Date

2016-06-08

Peptides

porcine rotavirus TFR-41 VP8*: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

porcine rotavirus TFR-41 VP8*

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