SMTL ID : 4kom.1

The structure of hemagglutinin from avian-origin H7N9 influenza virus in complex with avian receptor analog 3'SLNLN (NeuAcα2-3Galβ1-4GlcNAcβ1-3Galβ1-4Glc)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-3-3-mer

Ligands

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

GAL-NAG-GAL-SIA.1: 13 residues within 4Å: Chain A: Y.86, G.122, A.123, T.124, S.125, W.140, L.142, H.172, E.179, L.183, Q.211, G.214, L.215 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.211, A:Q.211, A:A.123, A:S.125, A:H.172 Hydrophobic interactions: A:W.140, A:L.142 GAL-NAG-GAL-SIA.5: 13 residues within 4Å: Chain C: Y.86, G.122, A.123, T.124, S.125, W.140, L.142, H.172, E.179, L.183, Q.211, G.214, L.215 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Q.211, C:Q.211, C:A.123, C:S.125, C:H.172 Hydrophobic interactions: C:W.140, C:L.142 GAL-NAG-GAL-SIA.9: 13 residues within 4Å: Chain E: Y.86, G.122, A.123, T.124, S.125, W.140, L.142, H.172, E.179, L.183, Q.211, G.214, L.215 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:Q.211, E:Q.211, E:A.123, E:S.125, E:H.172 Hydrophobic interactions: E:W.140, E:L.142

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

NAG.2: 5 residues within 4Å: Chain A: N.26, A.27, T.28, T.307 Chain B: L.52 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.26 NAG.3: 2 residues within 4Å: Chain A: K.162, N.229 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.162, A:K.162, A:K.162, A:N.229 NAG.4: 4 residues within 4Å: Chain B: E.72, K.75, N.79, N.82 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:K.75 Hydrogen bonds: B:K.75, B:R.85 NAG.6: 5 residues within 4Å: Chain C: N.26, A.27, T.28, T.307 Chain D: L.52 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.26 NAG.7: 2 residues within 4Å: Chain C: K.162, N.229 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:K.162, C:K.162, C:K.162, C:N.229 NAG.8: 4 residues within 4Å: Chain D: E.72, K.75, N.79, N.82 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:K.75 Hydrogen bonds: D:K.75, D:R.85 NAG.10: 5 residues within 4Å: Chain E: N.26, A.27, T.28, T.307 Chain F: L.52 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.26 NAG.11: 2 residues within 4Å: Chain E: K.162, N.229 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:K.162, E:K.162, E:K.162, E:N.229 NAG.12: 4 residues within 4Å: Chain F: E.72, K.75, N.79, N.82 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:K.75 Hydrogen bonds: F:K.75, F:R.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shi, Y. et al., Structures and receptor binding of hemagglutinins from human-infecting H7N9 influenza viruses. Science (2013)

Release Date

2013-11-06

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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