SMTL ID : 4n63.1 (1 other biounit)

Crystal structure of hemagglutinin from an H7N9 influenza virus in complex with an O-linked glycan receptor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.75 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: 4 residues within 4Å: Chain A: N.28, T.30, T.309 Chain B: L.52 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 4 residues within 4Å: Chain C: N.28, T.30, T.309 Chain D: L.52 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 4 residues within 4Å: Chain E: N.28, T.30, T.309 Chain F: L.52 No protein-ligand interaction detected (PLIP)

3 x NGA- NAG- GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-galactopyranose

NGA-NAG-GAL-SIA.2: 15 residues within 4Å: Chain A: Y.88, G.124, A.125, T.126, S.127, W.142, L.144, H.174, V.177, E.181, L.185, Q.213, G.216, L.217, S.218 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.213, A:E.181, A:Q.213, A:S.218, A:A.125, A:S.127, A:H.174 Hydrophobic interactions: A:V.177, A:W.142, A:L.144 NGA-NAG-GAL-SIA.5: 15 residues within 4Å: Chain C: Y.88, G.124, A.125, T.126, S.127, W.142, L.144, H.174, V.177, E.181, L.185, Q.213, G.216, L.217, S.218 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:Q.213, C:E.181, C:Q.213, C:S.218, C:Y.88, C:A.125, C:S.127, C:H.174 Hydrophobic interactions: C:V.177, C:W.142, C:L.144 NGA-NAG-GAL-SIA.8: 15 residues within 4Å: Chain E: Y.88, G.124, A.125, T.126, S.127, W.142, L.144, H.174, V.177, E.181, L.185, Q.213, G.216, L.217, S.218 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:Q.213, E:E.181, E:Q.213, E:S.218, E:A.125, E:S.127, E:H.174 Hydrophobic interactions: E:V.177, E:W.142, E:L.144

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

NAG.3: 5 residues within 4Å: Chain B: E.72, K.75, G.78, N.79, N.82 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:K.75 Hydrogen bonds: B:E.72, B:K.75, B:N.82 Water bridges: B:R.85 NAG.6: 5 residues within 4Å: Chain D: E.72, K.75, G.78, N.79, N.82 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:K.75 Hydrogen bonds: D:E.72, D:K.75, D:N.82 Water bridges: D:R.85 NAG.9: 5 residues within 4Å: Chain F: E.72, K.75, G.78, N.79, N.82 5 PLIP interactions: 5 interactions with chain F Hydrophobic interactions: F:K.75 Hydrogen bonds: F:E.72, F:K.75, F:N.82 Water bridges: F:R.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, R. et al., Preferential recognition of avian-like receptors in human influenza A H7N9 viruses. Science (2013)

Release Date

2013-12-18

Peptides

Hemagglutinin HA1: ACE
Hemagglutinin HA2: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Hemagglutinin HA1

Hemagglutinin HA2

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