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

Crystal structure of the A/Hong Kong/1/1968 (H3N2) influenza virus hemagglutinin G225M/L226T/S228A mutant in complex with 6'-SLN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

hetero-3-3-mer

Ligands

3 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: 3 residues within 4Å: Chain A: N.32, A.33, T.34 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 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 NAG-NAG-BMA.4: 6 residues within 4Å: Chain C: N.159, T.161, V.236 Chain E: S.213, P.215, W.216 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain E Hydrophobic interactions: C:T.161, C:V.236 Hydrogen bonds: E:W.216

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.3: 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)

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

GAL-SIA.6: 12 residues within 4Å: Chain C: Y.92, G.128, G.129, S.130, N.131, W.147, H.177, E.184, L.188, W.216, M.219, A.222 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Y.92, C:G.129, C:N.131, C:N.131, C:H.177 GAL-SIA.8: 13 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, W.216, T.220, A.222 9 PLIP interactions: 9 interactions with chain E Hydrophobic interactions: E:W.147, E:T.149 Hydrogen bonds: E:Y.92, E:G.129, E:N.131, E:N.131, E:H.177, E:T.220 Water bridges: E:G.129

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.7: 6 residues within 4Å: Chain A: T.181, 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

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

NAG.9: 3 residues within 4Å: Chain A: Q.74, N.75, F.114 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.144 NAG.11: 2 residues within 4Å: Chain C: T.31, N.32 No protein-ligand interaction detected (PLIP) NAG.12: 3 residues within 4Å: Chain C: Q.74, N.75, F.114 No protein-ligand interaction detected (PLIP) NAG.13: 2 residues within 4Å: Chain E: N.32, T.312 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:T.312 NAG.14: 4 residues within 4Å: Chain E: S.39, N.279, V.291, N.292 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:N.279, E:V.291, E:N.292 NAG.16: 3 residues within 4Å: Chain F: E.150, N.154, T.156 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:T.156 Hydrogen bonds: F:E.150, F:N.154

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

SIA.10: 11 residues within 4Å: Chain A: Y.92, G.128, G.129, S.130, N.131, W.147, H.177, E.184, L.188, T.220, A.222 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.129, A:N.131, A:N.131, A:H.177

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

TAM.15: 1 residues within 4Å: Chain E: N.167 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.167, E:N.167

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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