SMTL ID : 8wds.2 (1 other biounit)

Crystal structure of BF.7 RBD complexed with human ACE2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.40 Å

Oligo State

hetero-1-1-mer

Ligands

1 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.1: 3 residues within 4Å: Chain A: F.285, N.432, W.594 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.374, E.375, H.378, E.402 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.374, A:H.378, A:E.402, A:E.402

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

NAG.3: 3 residues within 4Å: Chain A: N.53, N.58, Q.340 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.340 Hydrogen bonds: A:N.53 NAG.4: 3 residues within 4Å: Chain A: K.26, N.90, T.92 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.26, A:T.92, A:T.92 NAG.5: 4 residues within 4Å: Chain A: S.420, D.543, S.545, N.546 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.420 NAG.6: 4 residues within 4Å: Chain A: Q.81, Q.101, N.103, N.194 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.81, A:Q.81, A:Q.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, W. et al., Key mechanistic features of the trade-off between antibody escape and host cell binding in the SARS-CoV-2 Omicron variant spike proteins. Embo J. (2024)

Release Date

2024-07-24

Peptides

Angiotensin-converting enzyme 2: A
Spike protein S1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Angiotensin-converting enzyme 2

Spike protein S1

Related Entries With Identical Sequence