SMTL ID : 7dea.1

Structure of an avian influenza H5 hemagglutinin from the influenza virus A/duck Northern China/22/2017 (H5N6)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.84 Å

Oligo State

hetero-3-3-mer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain B: N.164, N.235, A.237 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.235 NAG-NAG.2: 3 residues within 4Å: Chain D: N.164, N.235, A.237 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: N.164, N.235 No protein-ligand interaction detected (PLIP)

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

NAG.4: 2 residues within 4Å: Chain A: Q.15, N.23 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.15, A:N.23 NAG.5: 1 residues within 4Å: Chain A: N.124 No protein-ligand interaction detected (PLIP) NAG.6: 1 residues within 4Å: Chain B: N.23 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.23 NAG.7: 1 residues within 4Å: Chain B: N.124 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.124 NAG.8: 1 residues within 4Å: Chain D: N.23 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.15, D:N.23 NAG.9: 2 residues within 4Å: Chain D: P.123, N.124 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:P.123 Hydrogen bonds: D:N.124

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, H. et al., Haemagglutinin and neuraminidase acid stability in H5N6 avian influenza virus confers infection adaptation in mammals. To Be Published

Release Date

2021-11-03

Peptides

Hemagglutinin: ABD
Hemagglutinin: CEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
E

D
C

C
F

E
D

F
B

Hemagglutinin

Hemagglutinin