SMTL ID : 6atk.1 (2 other biounits)

Crystal structure of the human coronavirus 229E spike protein receptor binding domain in complex with human aminopeptidase N

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.51 Å

Oligo State

hetero-1-1-mer

Ligands

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.1: 6 residues within 4Å: Chain A: S.22, Y.23, R.24, R.48, N.172, T.209 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.48 NAG-NAG.2: 3 residues within 4Å: Chain A: D.371, L.562, N.563 No protein-ligand interaction detected (PLIP)

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

NAG.3: 5 residues within 4Å: Chain A: V.40, N.66, E.121, G.122, E.123 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.40, A:E.121 Hydrogen bonds: A:N.66 NAG.4: 2 residues within 4Å: Chain A: K.230, N.257 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.230, A:N.257 NAG.5: 5 residues within 4Å: Chain A: K.179, L.181, S.193, P.195, N.203 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.179, A:S.193, A:N.203 NAG.6: 2 residues within 4Å: Chain A: T.615, N.619 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.615 NAG.8: 2 residues within 4Å: Chain A: N.511, T.513 No protein-ligand interaction detected (PLIP) NAG.9: 2 residues within 4Å: Chain B: N.37, T.39 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.7: 4 residues within 4Å: Chain A: H.326, H.330, E.349, Y.415 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.326, A:H.330, A:E.349, A:E.349

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wong, A.H.M. et al., Receptor-binding loops in alphacoronavirus adaptation and evolution. Nat Commun (2017)

Release Date

2017-12-06

Peptides

Aminopeptidase N: A
Spike glycoprotein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Aminopeptidase N

Spike glycoprotein

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