SMTL ID : 5y2j.1

Crystal structure of the oligomerization domain of NSP4 from rotavirus strain MF66

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-tetramer

Ligands

2 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 2 residues within 4Å: Chain A: H.38 Chain B: Q.44 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:Q.44, A:H.38, H2O.1 NI.3: 2 residues within 4Å: Chain B: H.38 Chain D: D.21 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: B:H.38, D:D.21, H2O.1, H2O.1

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 2 residues within 4Å: Chain B: E.48, I.49 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.48 EDO.4: 5 residues within 4Å: Chain C: D.21, T.25 Chain D: L.33, R.36, K.40 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:R.36, D:K.40, C:T.25 EDO.5: 1 residues within 4Å: Chain C: H.38 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:H.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, S. et al., New tetrameric forms of the rotavirus NSP4 with antiparallel helices. Arch. Virol. (2018)

Release Date

2018-03-14

Peptides

Nonstructural protein 4: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Nonstructural protein 4