SMTL ID : 3ku3.1

Crystal structure of a H2N2 influenza virus hemagglutinin, avian like

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

hetero-3-3-mer

Ligands

6 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.166, T.168, W.237, T.239 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain B: E.147, N.150, N.154, T.156 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:E.147 Hydrogen bonds: B:E.147 NAG-NAG.6: 4 residues within 4Å: Chain C: N.166, T.168, W.237, T.239 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 4 residues within 4Å: Chain D: E.147, N.150, N.154, T.156 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:E.147 Hydrogen bonds: D:E.147 NAG-NAG.11: 4 residues within 4Å: Chain E: N.166, T.168, W.237, T.239 No protein-ligand interaction detected (PLIP) NAG-NAG.12: 4 residues within 4Å: Chain F: E.147, N.150, N.154, T.156 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:E.147 Hydrogen bonds: F:E.147

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

NAG.3: 2 residues within 4Å: Chain A: K.17, N.25 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.17, A:N.25 NAG.8: 2 residues within 4Å: Chain C: K.17, N.25 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.17, C:N.25 NAG.13: 2 residues within 4Å: Chain E: K.17, N.25 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:K.17, E:N.25

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain A: L.119, P.120, R.123, W.124, G.163 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.120 EDO.9: 5 residues within 4Å: Chain C: L.119, P.120, R.123, W.124, G.163 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:P.120 EDO.14: 5 residues within 4Å: Chain E: L.119, P.120, R.123, W.124, G.163 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:P.120

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 6 residues within 4Å: Chain A: C.6, I.324 Chain B: W.14, H.25, N.135, C.137 No protein-ligand interaction detected (PLIP) PEG.10: 6 residues within 4Å: Chain C: C.6, I.324 Chain D: W.14, H.25, N.135, C.137 No protein-ligand interaction detected (PLIP) PEG.15: 6 residues within 4Å: Chain E: C.6, I.324 Chain F: W.14, H.25, N.135, C.137 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, R. et al., Structure, receptor binding, and antigenicity of influenza virus hemagglutinins from the 1957 H2N2 pandemic. J.Virol. (2010)

Release Date

2010-01-19

Peptides

Hemagglutinin HA1 chain: 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 HA1 chain

Hemagglutinin HA2 chain

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