SMTL ID : 1hgg.1

BINDING OF INFLUENZA VIRUS HEMAGGLUTININ TO ANALOGS OF ITS CELL-SURFACE RECEPTOR, SIALIC ACID: ANALYSIS BY PROTON NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY AND X-RAY CRYSTALLOGRAPHY

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 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(Post Translational Modification)

NAG-NAG-BMA.1: 10 residues within 4Å: Chain A: N.165, T.167, R.207, V.242, V.244 Chain E: S.219, P.221, W.222, S.227 Ligands: BGC-GAL-SIA.8 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: A:V.242 Hydrogen bonds: E:W.222 NAG-NAG-BMA.4: 12 residues within 4Å: Chain A: T.187, S.219, R.220, P.221, W.222, S.227 Chain C: N.165, V.166, T.167, V.242, V.244 Ligands: BGC-GAL-SIA.2 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:W.222 Hydrophobic interactions: C:V.242 NAG-NAG-BMA.7: 10 residues within 4Å: Chain C: S.219, P.221, W.222, S.227 Chain E: N.165, V.166, T.167, V.242, V.244 Ligands: BGC-GAL-SIA.5 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain E Hydrogen bonds: C:W.222 Hydrophobic interactions: E:V.242

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

BGC-GAL-SIA.2: 19 residues within 4Å: Chain A: Y.98, G.134, G.135, S.136, N.137, A.138, S.145, W.153, T.155, H.183, T.187, E.190, L.194, W.222, G.225, L.226, S.228 Ligands: NAG-NAG-BMA.4, NAG-NAG-BMA.4 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:E.190, A:G.225, A:Y.98, A:G.135, A:S.136, A:N.137, A:H.183, A:S.228 Hydrophobic interactions: A:W.153, A:T.155 BGC-GAL-SIA.3: 17 residues within 4Å: Chain A: T.65, D.68, E.89, S.95, Y.100, D.101, V.102, P.103, Y.105, A.106, R.109, R.269 Chain B: E.69, F.70, S.71, E.72 Chain C: R.208 12 PLIP interactions: 1 interactions with chain C, 6 interactions with chain A, 5 interactions with chain B Hydrogen bonds: C:R.208, A:T.65, A:S.95, A:Y.100, A:Y.100, A:V.102, A:Y.105, A:Y.105, A:R.109, A:R.269, A:R.269, B:E.69, B:S.71, B:S.71, B:E.72 Water bridges: A:R.269 Hydrophobic interactions: B:E.72 BGC-GAL-SIA.5: 17 residues within 4Å: Chain C: Y.98, G.134, G.135, S.136, N.137, A.138, W.153, T.155, H.183, T.187, E.190, L.194, W.222, G.225, L.226, S.228 Ligands: NAG-NAG-BMA.7 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:E.190, C:Y.98, C:Y.98, C:G.135, C:S.136, C:N.137, C:H.183, C:S.228 Hydrophobic interactions: C:W.153, C:T.155 BGC-GAL-SIA.6: 17 residues within 4Å: Chain C: T.65, D.68, E.89, S.95, Y.100, D.101, V.102, P.103, Y.105, A.106, R.109, R.269 Chain D: E.69, F.70, S.71, E.72 Chain E: R.208 12 PLIP interactions: 1 interactions with chain E, 6 interactions with chain C, 5 interactions with chain D Hydrogen bonds: E:R.208, C:T.65, C:S.95, C:Y.100, C:Y.100, C:V.102, C:Y.105, C:Y.105, C:R.109, C:R.269, C:R.269, D:E.69, D:S.71, D:S.71, D:E.72 Water bridges: C:R.269 Hydrophobic interactions: D:E.72 BGC-GAL-SIA.8: 18 residues within 4Å: Chain E: Y.98, G.134, G.135, S.136, N.137, A.138, W.153, T.155, H.183, T.187, E.190, L.194, W.222, G.225, L.226, S.228 Ligands: NAG-NAG-BMA.1, NAG-NAG-BMA.1 8 PLIP interactions: 8 interactions with chain E Hydrogen bonds: E:E.190, E:E.190, E:Y.98, E:G.135, E:S.136, E:N.137, E:H.183, E:S.228 Hydrophobic interactions: E:W.153, E:T.155 BGC-GAL-SIA.9: 17 residues within 4Å: Chain A: R.208 Chain E: T.65, D.68, E.89, S.95, Y.100, D.101, V.102, P.103, Y.105, A.106, R.109, R.269 Chain F: E.69, F.70, S.71, E.72 11 PLIP interactions: 5 interactions with chain E, 1 interactions with chain A, 5 interactions with chain F Hydrogen bonds: E:T.65, E:Y.100, E:Y.100, E:Y.105, A:R.208, E:V.102, F:E.69, F:S.71, F:S.71, F:E.72, E:Y.105, E:R.109, E:R.269, E:R.269 Hydrophobic interactions: F:E.72 Water bridges: E:R.269

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

NAG.10: 6 residues within 4Å: Chain A: N.38, A.39, T.40, T.318 Chain B: N.49, L.52 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.38, A:T.318 NAG.11: 5 residues within 4Å: Chain A: Q.80, N.81, F.120, I.121, R.150 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.81 NAG.12: 7 residues within 4Å: Chain A: S.45, S.46, S.47, N.285, N.296, V.297, N.298 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.297 Hydrogen bonds: A:N.285, A:V.297, A:N.298 NAG.13: 5 residues within 4Å: Chain B: A.147, E.150, S.151, N.154, T.156 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.150 NAG.14: 6 residues within 4Å: Chain C: N.38, A.39, T.40, T.318 Chain D: N.49, L.52 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.38, C:T.318 NAG.15: 5 residues within 4Å: Chain C: Q.80, N.81, F.120, I.121, R.150 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.81 NAG.16: 7 residues within 4Å: Chain C: S.45, S.46, S.47, N.285, N.296, V.297, N.298 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:V.297 Hydrogen bonds: C:N.285, C:N.298 NAG.17: 5 residues within 4Å: Chain D: A.147, E.150, S.151, N.154, T.156 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.150 NAG.18: 6 residues within 4Å: Chain E: N.38, A.39, T.40, T.318 Chain F: N.49, L.52 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.38, E:T.318 NAG.19: 5 residues within 4Å: Chain E: Q.80, N.81, F.120, I.121, R.150 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.81 NAG.20: 7 residues within 4Å: Chain E: S.45, S.46, S.47, N.285, N.296, V.297, N.298 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:V.297 Hydrogen bonds: E:N.285, E:N.298 NAG.21: 5 residues within 4Å: Chain F: A.147, E.150, S.151, N.154, T.156 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sauter, N.K. et al., Binding of influenza virus hemagglutinin to analogs of its cell-surface receptor, sialic acid: analysis by proton nuclear magnetic resonance spectroscopy and X-ray crystallography. Biochemistry (1992)

Release Date

1994-01-31

Peptides

HEMAGGLUTININ, CHAIN HA1: ACE
HEMAGGLUTININ, CHAIN HA2: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

HEMAGGLUTININ, CHAIN HA1

HEMAGGLUTININ, CHAIN HA2

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