SMTL ID : 3s11.1

Crystal structure of H5N1 influenza virus hemagglutinin, strain 437-10

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-3-3-mer

Ligands

2 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.173, N.244, A.246 Chain C: P.225 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 5 residues within 4Å: Chain A: P.225 Chain E: N.173, N.244, D.245, A.246 No protein-ligand interaction detected (PLIP)

1 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(Post Translational Modification)

NAG-NAG-BMA.2: 5 residues within 4Å: Chain C: N.173, N.244, D.245, A.246 Chain E: P.225 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.244

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

NAG.4: 3 residues within 4Å: Chain A: Q.23, K.30, N.31 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.30 Hydrogen bonds: A:N.31 NAG.7: 2 residues within 4Å: Chain C: K.30, N.31 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:K.30 NAG.9: 1 residues within 4Å: Chain E: N.31 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.31

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 7 residues within 4Å: Chain A: V.24, D.25, R.318, V.320 Chain B: V.100, L.101, N.104 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:N.104, A:D.25, A:D.25, A:V.320 GOL.8: 7 residues within 4Å: Chain C: V.24, D.25, R.318, L.319, V.320 Chain D: V.100, N.104 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:D.25, C:R.318, C:R.318, C:R.318, C:V.320, D:N.104 GOL.10: 8 residues within 4Å: Chain E: V.24, D.25, R.318, L.319, V.320 Chain F: V.100, L.101, N.104 7 PLIP interactions: 6 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:D.25, E:D.25, E:D.25, E:R.318, E:R.318, E:V.320, F:N.104

1 x TAM: TRIS(HYDROXYETHYL)AMINOMETHANE(Non-covalent)

TAM.6: 1 residues within 4Å: Chain A: G.147 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.147, A:S.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

DuBois, R.M. et al., Acid stability of the hemagglutinin protein regulates H5N1 influenza virus pathogenicity. Plos Pathog. (2011)

Release Date

2011-12-14

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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