SMTL ID : 7n4i.1

Crystal structure of SARS-CoV-2 receptor binding domain in complex with neutralizing human antibody WRAIR-2057.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

hetero-1-1-1-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: 7 residues within 4Å: Chain C: F.8, G.9, F.12, N.13, V.37, L.38, S.41 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 13 residues within 4Å: Chain A: F.174, P.175, A.176, V.177, S.185, L.186, S.187 Chain B: Q.160, E.161, S.162, S.176, S.177, T.178 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Q.160, B:T.178, B:T.178, A:P.175, A:S.185, A:S.187 GOL.3: 11 residues within 4Å: Chain A: Y.102, S.103, D.104, S.105, S.106 Chain B: Y.32, S.91, H.92, S.93, T.94, R.96 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:R.96, B:R.96, A:D.104 Water bridges: A:D.104, A:D.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dussupt, V. et al., Low-dose in vivo protection and neutralization across SARS-CoV-2 variants by monoclonal antibody combinations. Nat.Immunol. (2021)

Release Date

2021-10-06

Peptides

WRAIR-2057 Antibody Fab Heavy Chain: A
WRAIR-2057 Antibody Fab Light Chain: B
Spike protein S1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
C

WRAIR-2057 Antibody Fab Heavy Chain

WRAIR-2057 Antibody Fab Light Chain

Spike protein S1

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