SMTL ID : 6y3y.1

Human Coronavirus HKU1 Haemagglutinin-Esterase

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 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.1: 7 residues within 4Å: Chain A: F.70, N.72, T.74, Y.125, T.127, F.128, D.130 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.125 NAG-NAG-BMA-MAN.5: 7 residues within 4Å: Chain B: F.70, N.72, T.74, Y.125, T.127, F.128, D.130 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Y.125

2 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.2: 12 residues within 4Å: Chain A: D.249, R.251, N.254, D.259, I.260, S.263, F.273, N.275, S.276, S.277, A.278, N.279 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.279, A:N.279, A:N.254, A:N.279 NAG-NAG-BMA-MAN-MAN.6: 12 residues within 4Å: Chain B: D.249, R.251, N.254, D.259, I.260, S.263, F.273, N.275, S.276, S.277, A.278, N.279 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.279, B:N.279, B:N.254, B:N.279

2 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.3: 5 residues within 4Å: Chain A: H.12, H.15, L.301, Y.302, N.303 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.7: 5 residues within 4Å: Chain B: H.12, H.15, L.301, Y.302, N.303 No protein-ligand interaction detected (PLIP)

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.4: 2 residues within 4Å: Chain A: Y.315, N.317 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.315 NAG-NAG.8: 2 residues within 4Å: Chain B: Y.315, N.317 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.315

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

NAG.9: 1 residues within 4Å: Chain A: N.99 No protein-ligand interaction detected (PLIP) NAG.10: 1 residues within 4Å: Chain A: N.134 No protein-ligand interaction detected (PLIP) NAG.11: 1 residues within 4Å: Chain A: N.182 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.182 NAG.12: 1 residues within 4Å: Chain B: N.99 No protein-ligand interaction detected (PLIP) NAG.13: 1 residues within 4Å: Chain B: N.134 No protein-ligand interaction detected (PLIP) NAG.14: 1 residues within 4Å: Chain B: N.182 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.182

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hurdiss, D.L. et al., Cryo-EM structure of coronavirus-HKU1 haemagglutinin esterase reveals architectural changes arising from prolonged circulation in humans. Nat Commun (2020)

Release Date

2020-04-08

Peptides

Hemagglutinin-esterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Hemagglutinin-esterase