SMTL ID : 7mf1.1

Crystal structure of SARS-CoV-2 receptor binding domain in complex with neutralizing antibody 47D1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NAG-NAG-FUC.1: 4 residues within 4Å: Chain C: T.25, S.26, S.27, N.95 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.26, C:S.27

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

NAG.2: 4 residues within 4Å: Chain A: F.6, G.7, F.10, N.11 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.10 Hydrogen bonds: A:N.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, X. et al., Diverse immunoglobulin gene usage and convergent epitope targeting in neutralizing antibody responses to SARS-CoV-2. Cell Rep (2021)

Release Date

2021-05-12

Peptides

Spike protein S1: A
47D1 Fab heavy chain: B
47D1 Fab light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Spike protein S1

47D1 Fab heavy chain

47D1 Fab light chain

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