SMTL ID : 8qsq.1

Locally refined SARS-CoV-2 BA-2.86 Spike receptor binding domain (RBD) complexed with angiotensin converting enzyme 2 (ACE2)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain B: N.304, M.305, T.306, Q.307 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.304 NAG.2: 3 residues within 4Å: Chain B: S.402, D.525, N.528 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.402, B:S.402, B:N.528 NAG.3: 3 residues within 4Å: Chain B: F.267, N.414, W.576 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.267 Hydrogen bonds: B:N.414 NAG.4: 3 residues within 4Å: Chain B: N.35, T.37, Q.322 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.35 NAG.5: 2 residues within 4Å: Chain B: K.8, N.72 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.8 NAG.6: 5 residues within 4Å: Chain B: Q.63, Q.83, N.85, V.89, N.176 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Q.83 Hydrogen bonds: B:N.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, C. et al., A structure-function analysis shows SARS-CoV-2 BA.2.86 balances antibody escape and ACE2 affinity. Cell Rep Med (2024)

Release Date

2024-05-08

Peptides

Spike protein S2': A
Processed angiotensin-converting enzyme 2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Spike protein S2'

Processed angiotensin-converting enzyme 2

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