SMTL ID : 9nrb.1

Crystal structure of H5 hemagglutinin Q226L mutant from the influenza virus A/duck/France/1611008h/16 with LSTc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

hetero-3-3-mer

Ligands

3 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 3 residues within 4Å: Chain A: N.168, T.170, N.239 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 4 residues within 4Å: Chain C: N.168, N.239, A.241 Chain E: S.220 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.4: 5 residues within 4Å: Chain F: E.147, E.150, S.151, N.154, T.156 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:E.147

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

NAG-NAG.3: 3 residues within 4Å: Chain E: N.168, N.239, A.241 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.239

1 x GAL- NAG- GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose

GAL-NAG-GAL-SIA.5: 13 residues within 4Å: Chain A: Y.94, L.132, V.134, S.135, A.136, W.152, I.154, H.182, N.185, E.189, L.193, L.225, G.227 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.152, A:I.154 Hydrogen bonds: A:Y.94, A:V.134, A:A.136, A:N.185, A:E.189

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

NAG.6: 3 residues within 4Å: Chain A: Q.18, K.25, N.26 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.25 Hydrogen bonds: A:N.26 NAG.7: 5 residues within 4Å: Chain A: T.39, H.40, N.41, A.287, N.289 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.41 Hydrogen bonds: A:T.39 NAG.8: 1 residues within 4Å: Chain C: N.26 No protein-ligand interaction detected (PLIP) NAG.9: 6 residues within 4Å: Chain C: T.39, H.40, N.41, A.287, I.288, N.289 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:N.41 Hydrogen bonds: C:T.39 NAG.10: 5 residues within 4Å: Chain D: E.147, E.150, S.151, N.154, T.156 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.147, D:S.151, D:N.154 NAG.11: 5 residues within 4Å: Chain E: E.37, T.39, H.40, N.41, N.289 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.289

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rios Carrasco, M. et al., The Q226L mutation can convert a highly pathogenic H5 2.3.4.4e virus to bind human-type receptors. Proc.Natl.Acad.Sci.USA (2025)

Release Date

2025-04-23

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

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