SMTL ID : 7r6x.1

SARS-CoV-2 spike receptor-binding domain (RBD) in complex with S2E12 Fab, S309 Fab, and S304 Fab

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

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

Ligands

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

NAG.1: 6 residues within 4Å: Chain C: F.15, G.16, N.20, V.44 Chain D: Y.50 Chain E: Y.100 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain E Hydrophobic interactions: C:F.15, C:V.44 Hydrogen bonds: C:N.20, E:Y.100

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 1 residues within 4Å: Chain C: F.54 Ligand excluded by PLIP CL.3: 4 residues within 4Å: Chain D: T.97, F.98 Chain E: E.46, W.47 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Starr, T.N. et al., SARS-CoV-2 RBD antibodies that maximize breadth and resistance to escape. Nature (2021)

Release Date

2021-07-21

Peptides

Monoclonal antibody S304 Fab light chain: A
Monoclonal antibody S304 Fab heavy chain: B
Spike protein S1: C
Monoclonal antibody S309 Fab light chain: D
Monoclonal antibody S309 Fab heavy chain: E
Monoclonal antibody S2E12 Fab light chain: F
Monoclonal antibody S2E12 Fab heavy chain: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
R

D
B

E
A

F
D

G
C

Monoclonal antibody S304 Fab light chain

Monoclonal antibody S304 Fab heavy chain

Spike protein S1

Monoclonal antibody S309 Fab light chain

Monoclonal antibody S309 Fab heavy chain

Monoclonal antibody S2E12 Fab light chain

Monoclonal antibody S2E12 Fab heavy chain

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