SMTL ID : 5e2z.1

Crystal structure of H5 hemagglutinin Q226L mutant from the influenza virus A/duck/Egypt/10185SS/2010 (H5N1) with LSTa

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

hetero-3-3-mer

Ligands

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

NAG-FUL-NAG.1: 5 residues within 4Å: Chain A: N.168, N.239, D.240, A.241 Chain C: S.220 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.239 NAG-FUL-NAG.5: 5 residues within 4Å: Chain A: S.220 Chain E: N.168, N.239, D.240, A.241 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain A Hydrogen bonds: E:N.239 Water bridges: A:K.221

2 x GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose(Non-covalent)

GAL-SIA.2: 11 residues within 4Å: Chain A: Y.95, V.134, S.135, S.136, W.152, H.182, E.189, R.192, L.193, G.224, L.225 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.152 Hydrogen bonds: A:V.134, A:S.136, A:H.182, A:R.192 GAL-SIA.6: 12 residues within 4Å: Chain E: Y.95, G.133, V.134, S.135, S.136, W.152, H.182, N.185, E.189, R.192, L.193, L.225 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:S.136, E:V.134, E:S.136, E:H.182, E:N.185, E:R.192 Hydrophobic interactions: E:W.152

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

NAG-FUL-NAG-FUC.3: 5 residues within 4Å: Chain C: N.168, N.239, D.240, A.241 Chain E: S.220 No protein-ligand interaction detected (PLIP)

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

NAG-GAL-SIA.4: 12 residues within 4Å: Chain C: Y.95, G.133, V.134, S.135, S.136, W.152, H.182, E.189, R.192, L.193, K.221, L.225 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:K.221, C:S.136, C:Y.95, C:V.134, C:S.136, C:H.182, C:R.192 Salt bridges: C:K.221 Hydrophobic interactions: C:W.152

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

NAG.7: 2 residues within 4Å: Chain A: Q.19, N.27 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.27 NAG.8: 2 residues within 4Å: Chain C: Q.19, N.27 No protein-ligand interaction detected (PLIP) NAG.9: 2 residues within 4Å: Chain E: Q.19, N.27 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, X. et al., Structural Basis for a Switch in Receptor Binding Specificity of Two H5N1 Hemagglutinin Mutants. Cell Rep (2015)

Release Date

2015-12-02

Peptides

Hemagglutinin: ACE
Hemagglutinin: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

C
A

E
E

B
D

D
B

F
F

Hemagglutinin

Hemagglutinin

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