SMTL ID : 5ca6.1 (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: 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:T.123, A:R.147, A:E.150 Water bridges: A:Y.112 GOL.2: 7 residues within 4Å: Chain A: P.23, T.24, I.25, V.28, I.29, F.139, C.140 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.24, A:I.25, A:V.28 Water bridges: A:A.22 GOL.3: 5 residues within 4Å: Chain A: P.94, F.96, G.116, T.117 Ligands: FMT.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.117 Water bridges: A:T.117, A:T.117

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

FMT.4: 4 residues within 4Å: Chain A: W.39, F.59, K.82, P.85 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.82, A:K.82 FMT.5: 2 residues within 4Å: Chain A: T.117 Ligands: GOL.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.117 Water bridges: A:S.71 FMT.6: 3 residues within 4Å: Chain A: K.76, P.94, F.96 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.76

1 x PLM: PALMITIC ACID(Non-covalent)

PLM.7: 17 residues within 4Å: Chain A: P.13, Q.31, G.32, R.38, L.40, A.41, T.42, D.79, S.81, H.92, V.104, K.106, Y.126, T.128, Y.131, V.134, N.135 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:P.13, A:L.40, A:L.40, A:V.104, A:K.106, A:Y.126, A:Y.126, A:Y.126, A:Y.126, A:V.134 Hydrogen bonds: A:T.128, A:T.128 Water bridges: A:S.127 Salt bridges: A:R.38, A:H.92

Links

RCSB   PDBe   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
A

porcine rotavirus TFR-41 VP8*

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