SMTL ID : 9d32.1

Structure of the HKU5 RBD bound to the P. abramus ACE2 receptor

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.10 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.1: 4 residues within 4Å: Chain A: N.393 Chain B: Y.161, G.162, K.163 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.161 Hydrogen bonds: A:N.393

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

NAG.2: 3 residues within 4Å: Chain A: N.60, N.65, R.346 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.65 NAG.3: 3 residues within 4Å: Chain A: E.159, N.283, N.286 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.286 NAG.4: 1 residues within 4Å: Chain A: N.438 No protein-ligand interaction detected (PLIP) NAG.5: 5 residues within 4Å: Chain A: H.423, G.426, D.549, S.551, N.552 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.426, A:N.552 NAG.6: 4 residues within 4Å: Chain A: Q.88, Q.108, N.110, N.201 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.108, A:N.201 NAG.7: 4 residues within 4Å: Chain A: N.222, Y.223, S.224, Y.227 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.223, A:Y.227 Hydrogen bonds: A:S.224 NAG.9: 2 residues within 4Å: Chain B: N.62, K.65 No protein-ligand interaction detected (PLIP) NAG.10: 1 residues within 4Å: Chain B: N.139 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.139

1 x ZN: ZINC ION(Non-covalent)

ZN.8: 3 residues within 4Å: Chain A: H.380, H.384, E.408 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.380, A:H.384, A:E.408, A:E.408

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Park, Y.J. et al., Molecular basis of convergent evolution of ACE2 receptor utilization among HKU5 coronaviruses. Cell (2025)

Release Date

2025-02-19

Peptides

Angiotensin-converting enzyme: A
Spike glycoprotein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Angiotensin-converting enzyme

Spike glycoprotein

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