SMTL ID : 7ps0.1 (1 other biounit)

Crystal structure of the receptor binding domain of SARS-CoV-2 beta variant spike glycoprotein in complex with beta-24 Fabs

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.92 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NAG.1: 5 residues within 4Å: Chain A: F.20, G.21, F.24, N.25, V.49 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.24 Hydrogen bonds: A:N.25

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain B: Q.1, V.2, R.99 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.2 Salt bridges: B:R.99 SO4.3: 3 residues within 4Å: Chain C: S.61, R.63, Q.81 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:S.61, C:Q.81, C:E.83 Salt bridges: C:R.63 SO4.4: 4 residues within 4Å: Chain B: A.135, K.224 Chain C: S.125, S.126 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.126

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

2021-12-15

Peptides

Spike protein S1: A
Beta-24 heavy chain: B
Beta-24 light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
H

C
L

Spike protein S1

Beta-24 heavy chain

Beta-24 light chain

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