SMTL ID : 5bqy.1

Crystal structure of hemagglutinin of A/Chicken/Guangdong/S1311/2010 (H6N6) in complex with avian-like receptor LSTa

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.78 Å

Oligo State

hetero-3-3-mer

Ligands

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.1: 3 residues within 4Å: Chain A: V.30, L.32, N.290 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain B: N.154, T.156 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 1 residues within 4Å: Chain E: N.23 No protein-ligand interaction detected (PLIP)

1 x GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose(Non-covalent)

GAL-SIA.2: 13 residues within 4Å: Chain A: Y.91, S.129, G.130, V.131, S.132, S.133, W.149, I.151, H.180, E.187, L.191, G.222, Q.223 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.191 Hydrogen bonds: A:Y.91, A:V.131, A:V.131, A:S.133, A:Q.223, A:Q.223, A:Q.223

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

NAG-GAL-SIA.5: 13 residues within 4Å: Chain E: Y.91, S.129, G.130, V.131, S.132, S.133, W.149, I.151, H.180, E.187, L.191, G.222, Q.223 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:Q.223, E:Q.223, E:V.131, E:S.133, E:H.180, E:E.187, E:Q.223 Hydrophobic interactions: E:L.191

1 x NAG- NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-NAG.6: 4 residues within 4Å: Chain F: E.147, E.150, N.154, T.156 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:E.147

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

NAG.7: 1 residues within 4Å: Chain A: N.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.11 NAG.8: 2 residues within 4Å: Chain A: K.22, N.23 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.22 Water bridges: A:N.23 NAG.9: 2 residues within 4Å: Chain A: N.166, T.168 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.168 NAG.10: 1 residues within 4Å: Chain C: N.11 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.11 NAG.11: 1 residues within 4Å: Chain C: N.23 No protein-ligand interaction detected (PLIP) NAG.12: 3 residues within 4Å: Chain C: N.166, T.168, T.239 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:T.168 Hydrogen bonds: C:N.166, C:T.239, C:T.239 NAG.13: 2 residues within 4Å: Chain C: V.30, N.290 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:V.30 Hydrogen bonds: C:N.290 NAG.14: 1 residues within 4Å: Chain E: N.11 No protein-ligand interaction detected (PLIP) NAG.15: 4 residues within 4Å: Chain E: N.166, T.168, G.237, T.239 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:T.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ni, F. et al., Structural and Functional Studies of Influenza Virus A/H6 Hemagglutinin. Plos One (2015)

Release Date

2015-08-12

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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