SMTL ID : 2rfu.1

Crystal structure of influenza B virus hemagglutinin in complex with LSTc receptor analog

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-3-3-mer

Ligands

12 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG-NAG.1: 5 residues within 4Å: Chain A: S.12, P.13, V.15, N.25, Y.334 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: N.123, A.127, V.137, Q.268 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain A: K.45, E.289, N.301 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 5 residues within 4Å: Chain A: I.30, N.330 Chain B: W.21, I.45, T.49 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 5 residues within 4Å: Chain C: S.12, P.13, V.15, N.25, Y.334 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 4 residues within 4Å: Chain C: N.123, A.127, V.137, Q.268 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 3 residues within 4Å: Chain C: K.45, E.289, N.301 No protein-ligand interaction detected (PLIP) NAG-NAG.12: 5 residues within 4Å: Chain C: I.30, N.330 Chain D: W.21, I.45, T.49 No protein-ligand interaction detected (PLIP) NAG-NAG.17: 5 residues within 4Å: Chain E: S.12, P.13, V.15, N.25, Y.334 No protein-ligand interaction detected (PLIP) NAG-NAG.18: 4 residues within 4Å: Chain E: N.123, A.127, V.137, Q.268 No protein-ligand interaction detected (PLIP) NAG-NAG.19: 3 residues within 4Å: Chain E: K.45, E.289, N.301 No protein-ligand interaction detected (PLIP) NAG-NAG.20: 5 residues within 4Å: Chain E: I.30, N.330 Chain F: W.21, I.45, T.49 No protein-ligand interaction detected (PLIP)

3 x NAG- GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-GAL-SIA.5: 10 residues within 4Å: Chain A: T.139, S.140, G.141, V.160, D.193, Q.197, L.201, L.237, P.238, S.240 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:L.237, A:T.139, A:G.141, A:D.193, A:Q.197, A:S.240 Hydrophobic interactions: A:L.201 NAG-GAL-SIA.13: 10 residues within 4Å: Chain C: T.139, S.140, G.141, V.160, D.193, Q.197, L.201, L.237, P.238, S.240 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:L.237, C:T.139, C:G.141, C:D.193, C:Q.197, C:S.240 Hydrophobic interactions: C:L.201 NAG-GAL-SIA.21: 10 residues within 4Å: Chain E: T.139, S.140, G.141, V.160, D.193, Q.197, L.201, L.237, P.238, S.240 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:L.237, E:T.139, E:G.141, E:D.193, E:Q.197, E:S.240 Hydrophobic interactions: E:L.201

9 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.6: 3 residues within 4Å: Chain A: N.145, G.149, N.150 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.147, A:N.150, A:N.150 NAG.7: 1 residues within 4Å: Chain A: N.163 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.163 NAG.8: 2 residues within 4Å: Chain B: N.145, T.147 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.147, B:T.147 NAG.14: 3 residues within 4Å: Chain C: N.145, G.149, N.150 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.147, C:N.150, C:N.150 NAG.15: 1 residues within 4Å: Chain C: N.163 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.163 NAG.16: 2 residues within 4Å: Chain D: N.145, T.147 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:T.147, D:T.147 NAG.22: 3 residues within 4Å: Chain E: N.145, G.149, N.150 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:T.147, E:N.150, E:N.150 NAG.23: 1 residues within 4Å: Chain E: N.163 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.163 NAG.24: 2 residues within 4Å: Chain F: N.145, T.147 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:T.147, F:T.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Q. et al., Structural basis for receptor specificity of influenza B virus hemagglutinin. Proc.Natl.Acad.Sci.Usa (2007)

Release Date

2008-02-05

Peptides

Influenza B hemagglutinin (HA): ACE
Influenza B hemagglutinin (HA): BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Influenza B hemagglutinin (HA)

Influenza B hemagglutinin (HA)

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