SMTL ID : 7q0h.1

Crystal structure of the receptor binding domain of SARS-CoV-2 beta variant spike glycoprotein in complex with Beta-50 and Beta-54

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.65 Å

Oligo State

hetero-1-1-1-1-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- FUC: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-FUC.1: 13 residues within 4Å: Chain C: Y.50, T.57 Chain D: Q.3, D.103, L.105, M.107 Chain E: F.24, N.25, S.53, S.55, W.118, L.123, R.191 3 PLIP interactions: 1 interactions with chain E, 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: E:S.55, C:T.57 Hydrophobic interactions: D:L.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, C. et al., The antibody response to SARS-CoV-2 Beta underscores the antigenic distance to other variants. Cell Host Microbe (2022)

Release Date

2021-12-22

Peptides

Beta-54 Fab heavy chain: A
Beta-54 Fab light chain: B
Beta-50 Fab light chain: C
Beta-50 Fab heavy chain: D
Spike protein S1: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
B

D
A

E
E

Beta-54 Fab heavy chain

Beta-54 Fab light chain

Beta-50 Fab light chain

Beta-50 Fab heavy chain

Spike protein S1

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