SMTL ID : 5vu4.4 (3 other biounits)

Crystal structure of the A/Hong Kong/1/1968 (H3N2) influenza virus hemagglutinin G225Q/L226A mutant in complex with 6'-SLN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

hetero-3-3-mer

Ligands

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

NAG-NAG-BMA.1: 5 residues within 4Å: Chain A: N.159, T.161 Chain C: S.213, P.215, W.216 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:W.216

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.2: 5 residues within 4Å: Chain A: S.39, N.279, V.291, N.292 Chain B: E.69 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 5 residues within 4Å: Chain C: S.39, N.279, V.291, N.292 Chain D: E.69 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 6 residues within 4Å: Chain E: S.39, N.279, V.291, N.292, K.293 Chain F: E.69 No protein-ligand interaction detected (PLIP)

1 x GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose(Non-covalent)

GAL-SIA.3: 11 residues within 4Å: Chain A: Y.92, G.128, G.129, S.130, N.131, W.147, T.149, H.177, E.184, L.188, S.222 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.147, A:T.149 Hydrogen bonds: A:G.129, A:N.131, A:N.131, A:E.184, A:S.222

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.4: 7 residues within 4Å: Chain C: N.159, T.161, R.201 Chain E: T.181, S.213, P.215, W.216 5 PLIP interactions: 2 interactions with chain E, 3 interactions with chain C Hydrogen bonds: E:W.216, C:R.201 Hydrophobic interactions: C:T.161 Water bridges: E:W.216, E:W.216, C:R.201, C:R.201

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.6: 5 residues within 4Å: Chain A: S.213, P.215, W.216 Chain E: N.159, T.161 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.216

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

NAG.8: 2 residues within 4Å: Chain A: N.32, A.33 No protein-ligand interaction detected (PLIP) NAG.9: 2 residues within 4Å: Chain C: N.32, T.312 No protein-ligand interaction detected (PLIP) NAG.11: 5 residues within 4Å: Chain E: Q.74, N.75, E.113, F.114, I.115 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:N.75 Water bridges: E:Q.74, E:R.144 NAG.12: 2 residues within 4Å: Chain E: N.32, T.34 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:N.32, E:T.34, E:T.34

2 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)

SIA.10: 11 residues within 4Å: Chain C: Y.92, G.128, G.129, S.130, N.131, W.147, T.149, H.177, E.184, L.188, S.222 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:W.147, C:T.149 Hydrogen bonds: C:G.129, C:N.131, C:N.131, C:E.184, C:S.222 Water bridges: C:G.129 SIA.13: 11 residues within 4Å: Chain E: Y.92, G.128, G.129, S.130, N.131, W.147, T.149, H.177, E.184, L.188, S.222 7 PLIP interactions: 7 interactions with chain E Hydrophobic interactions: E:T.149 Hydrogen bonds: E:Y.92, E:G.129, E:N.131, E:N.131, E:E.184, E:S.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, N.C. et al., Diversity of Functionally Permissive Sequences in the Receptor-Binding Site of Influenza Hemagglutinin. Cell Host Microbe (2017)

Release Date

2017-06-28

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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