SMTL ID : 6y5g.1

Ectodomain of X-31 Haemagglutinin at pH 8

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-mer

Ligands

3 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.1: 6 residues within 4Å: Chain A: N.158, T.160, V.235 Chain D: S.212, P.214, W.215 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:W.215 Hydrophobic interactions: A:V.235 NAG-NAG-BMA-MAN-MAN.4: 6 residues within 4Å: Chain A: S.212, P.214, W.215 Chain C: N.158, T.160, V.235 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:W.215 Hydrophobic interactions: C:V.235 NAG-NAG-BMA-MAN-MAN.6: 6 residues within 4Å: Chain C: S.212, P.214, W.215 Chain D: N.158, T.160, V.235 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:V.235 Hydrogen bonds: C:W.215

6 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: 4 residues within 4Å: Chain A: N.278, V.290, N.291 Chain B: E.69 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain B: A.147, E.150, N.154 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain C: N.278, V.290, N.291 Chain E: E.69 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 4 residues within 4Å: Chain D: N.278, V.290, N.291 Chain F: E.69 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 3 residues within 4Å: Chain E: A.147, E.150, N.154 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 3 residues within 4Å: Chain F: A.147, E.150, N.154 No protein-ligand interaction detected (PLIP)

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

NAG.10: 1 residues within 4Å: Chain A: N.15 No protein-ligand interaction detected (PLIP) NAG.11: 2 residues within 4Å: Chain A: N.31, T.33 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.31 NAG.12: 5 residues within 4Å: Chain A: Q.73, N.74, E.112, F.113, I.114 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.74, A:E.112, A:E.112 NAG.13: 1 residues within 4Å: Chain C: N.15 No protein-ligand interaction detected (PLIP) NAG.14: 2 residues within 4Å: Chain C: N.31, T.33 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.31 NAG.15: 5 residues within 4Å: Chain C: Q.73, N.74, E.112, F.113, I.114 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.74, C:E.112, C:E.112 NAG.16: 1 residues within 4Å: Chain D: N.15 No protein-ligand interaction detected (PLIP) NAG.17: 2 residues within 4Å: Chain D: N.31, T.33 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.31 NAG.18: 5 residues within 4Å: Chain D: Q.73, N.74, E.112, F.113, I.114 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.74, D:E.112, D:E.112

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Benton, D.J. et al., Structural transitions in influenza haemagglutinin at membrane fusion pH. Nature (2020)

Release Date

2020-06-10

Peptides

X-31 Influenza Haemagglutinin HA1: ACD
X-31 Influenza Haemagglutinin HA2: BEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

D
E

B
B

E
D

F
F

X-31 Influenza Haemagglutinin HA1

X-31 Influenza Haemagglutinin HA2

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