SMTL ID : 1sfk.4 (3 other biounits)

Core (C) protein from West Nile Virus, subtype Kunjin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-octamer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain B: T.22 Chain D: T.22 Ligands: CA.4 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Metal complexes: B:T.22, D:T.22 CA.4: 3 residues within 4Å: Chain B: T.22 Chain D: T.22 Ligands: CA.1 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Metal complexes: B:T.22, D:T.22 CA.7: 3 residues within 4Å: Chain E: T.22 Chain G: T.22 Ligands: CA.10 2 PLIP interactions: 1 interactions with chain G, 1 interactions with chain E Metal complexes: G:T.22, E:T.22 CA.10: 3 residues within 4Å: Chain E: T.22 Chain G: T.22 Ligands: CA.7 2 PLIP interactions: 1 interactions with chain G, 1 interactions with chain E Metal complexes: G:T.22, E:T.22

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 6 residues within 4Å: Chain B: R.10 Chain D: R.10, S.14, G.20, P.21 Ligands: CL.5 Ligand excluded by PLIP CL.5: 6 residues within 4Å: Chain B: R.10, S.14, G.20, P.21 Chain D: R.10 Ligands: CL.2 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain E: R.10 Chain G: S.14, G.20, P.21 Ligands: CL.11 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain E: S.14, G.20, P.21 Chain G: R.10 Ligands: CL.8 Ligand excluded by PLIP

4 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.3: 4 residues within 4Å: Chain A: A.11, L.15, F.31 Chain B: L.8 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.15, B:L.8 PG4.6: 4 residues within 4Å: Chain C: A.11, L.15, F.31 Chain D: L.8 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:L.15, D:L.8 PG4.9: 6 residues within 4Å: Chain A: K.9 Chain E: L.8, A.11, F.31 Chain F: F.32, I.37 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain A Hydrophobic interactions: F:F.32, F:I.37 Hydrogen bonds: A:K.9 PG4.12: 6 residues within 4Å: Chain C: K.9 Chain G: L.8, A.11, F.31 Chain H: F.32, I.37 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain H Hydrogen bonds: C:K.9 Hydrophobic interactions: H:F.32, H:I.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dokland, T. et al., West nile virus core protein; tetramer structure and ribbon formation. Structure (2004)

Release Date

2004-08-09

Peptides

Core protein: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
E

D
F

E
G

F
H

G
G

H
H

Core protein

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