SMTL ID : 3htt.1

The hemagglutinin structure of an avian H1N1 influenza A virus in complex with 2,3-sialyllactose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

hetero-3-3-mer

Ligands

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

NAG-NDG.1: 8 residues within 4Å: Chain A: N.64, E.66, E.86, N.87, C.90, A.135, S.137, R.221 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.64, A:E.66, A:E.86, A:R.221 Water bridges: A:A.135, A:S.137, A:R.221 NAG-NDG.5: 8 residues within 4Å: Chain C: N.64, E.66, E.86, N.87, C.90, A.135, S.137, R.221 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.64, C:E.66, C:E.86, C:E.86, C:R.221 Water bridges: C:A.135, C:S.137, C:R.221 NAG-NDG.9: 8 residues within 4Å: Chain E: N.64, E.66, E.86, N.87, C.90, A.135, S.137, R.221 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.64, E:E.66, E:E.86, E:R.221 Water bridges: E:A.135, E:S.137, E:R.221

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

GLC-GAL-SIA.2: 11 residues within 4Å: Chain A: Y.91, K.130, V.132, T.133, A.134, W.150, H.180, E.187, L.191, Q.223, G.225 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:E.187, A:Q.223, A:Q.223, A:Y.91, A:V.132, A:V.132, A:T.133, A:A.134, A:E.187, A:Q.223 Water bridges: A:A.224, A:K.219, A:K.219, A:G.225 Hydrophobic interactions: A:L.191 GLC-GAL-SIA.6: 11 residues within 4Å: Chain C: Y.91, K.130, V.132, T.133, A.134, W.150, H.180, E.187, L.191, Q.223, G.225 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:E.187, C:E.187, C:Q.223, C:Q.223, C:V.132, C:V.132, C:A.134, C:E.187, C:Q.223 Water bridges: C:A.224, C:K.219, C:K.219, C:G.225 Hydrophobic interactions: C:L.191 GLC-GAL-SIA.10: 11 residues within 4Å: Chain E: Y.91, K.130, V.132, T.133, A.134, W.150, H.180, E.187, L.191, Q.223, G.225 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:E.187, E:Q.223, E:Q.223, E:Y.91, E:V.132, E:V.132, E:T.133, E:A.134, E:E.187, E:Q.223 Water bridges: E:A.224, E:K.219, E:K.219, E:G.225 Hydrophobic interactions: E:L.191

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

NAG.3: 1 residues within 4Å: Chain A: N.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.11 NAG.4: 4 residues within 4Å: Chain A: T.15, K.22, N.23, K.311 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.15 Water bridges: A:K.22 NAG.7: 1 residues within 4Å: Chain C: N.11 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.11 NAG.8: 4 residues within 4Å: Chain C: T.15, K.22, N.23, K.311 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:T.15 Water bridges: C:K.22 NAG.11: 1 residues within 4Å: Chain E: N.11 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.11 NAG.12: 4 residues within 4Å: Chain E: T.15, K.22, N.23, K.311 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:T.15 Hydrogen bonds: E:T.15 Water bridges: E:K.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lin, T. et al., The hemagglutinin structure of an avian H1N1 influenza A virus. Virology (2009)

Release Date

2009-08-11

Peptides

Hemagglutinin: ACE
Hemagglutinin HA2 chain: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Hemagglutinin

Hemagglutinin HA2 chain

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