SMTL ID : 6v46.1

The crystal structure of hemagglutinin from A/turkey/Ontario/6118/1968 (H8N4)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

hetero-3-3-mer

Ligands

3 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 5 residues within 4Å: Chain A: K.70, K.135, N.138, G.142, R.224 No protein-ligand interaction detected (PLIP) NAG-NAG-FUC.3: 4 residues within 4Å: Chain C: K.135, N.138, G.142, R.224 No protein-ligand interaction detected (PLIP) NAG-NAG-FUC.5: 5 residues within 4Å: Chain E: K.70, K.135, N.138, G.142, R.224 No protein-ligand interaction detected (PLIP)

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.2: 5 residues within 4Å: Chain A: T.39, N.298, K.312, K.313, A.314 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 5 residues within 4Å: Chain C: T.39, N.298, K.312, K.313, A.314 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 5 residues within 4Å: Chain E: T.39, N.298, K.312, K.313, A.314 No protein-ligand interaction detected (PLIP)

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

NAG.7: 4 residues within 4Å: Chain A: W.126, N.127, N.164, E.165 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.126 Hydrogen bonds: A:R.125, A:E.165 NAG.8: 5 residues within 4Å: Chain C: R.125, W.126, N.127, N.164, E.165 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:W.126 Hydrogen bonds: C:R.125, C:E.165 NAG.9: 5 residues within 4Å: Chain E: R.125, W.126, N.127, N.164, E.165 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:W.126 Hydrogen bonds: E:R.125, E:E.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, H. et al., Molecular characterization and three-dimensional structures of avian H8, H11, H14, H15 and swine H4 influenza virus hemagglutinins. Heliyon (2020)

Release Date

2020-06-17

Peptides

Hemagglutinin HA1 chain: ACE
Hemagglutinin HA2 chain: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

Hemagglutinin HA1 chain

Hemagglutinin HA2 chain