SMTL ID : 6zqu.1

Cryo-EM structure of mature Dengue virus 2 at 3.1 angstrom resolution

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-mer

Ligands

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 7 residues within 4Å: Chain A: H.149, N.153, T.155, K.157, H.158 Chain C: W.101, G.102 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.153 NAG.2: 3 residues within 4Å: Chain A: N.67, F.90, M.118 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.90 NAG.3: 7 residues within 4Å: Chain A: W.101, G.102 Chain C: H.149, N.153, T.155, K.157, H.158 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:H.149 Hydrogen bonds: C:N.153, C:K.157 NAG.4: 4 residues within 4Å: Chain C: N.67, R.89, F.90, M.118 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:F.90 Hydrogen bonds: C:N.67 NAG.5: 4 residues within 4Å: Chain E: H.149, N.153, T.155, H.158 No protein-ligand interaction detected (PLIP) NAG.6: 4 residues within 4Å: Chain E: N.67, R.89, F.90, M.118 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.67, E:R.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Renner, M. et al., Flavivirus maturation leads to the formation of an occupied lipid pocket in the surface glycoproteins. Nat Commun (2021)

Release Date

2021-01-20

Peptides

Genome polyprotein: ACE
Genome polyprotein: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

Genome polyprotein

Genome polyprotein