SMTL ID : 7kmh.1

LY-CoV488 neutralizing antibody against SARS-CoV-2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.72 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NAG.1: 7 residues within 4Å: Chain C: F.10, G.11, F.14, N.15, V.39, L.40 Ligands: PRO.3 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Ligand interactions Hydrophobic interactions: C:F.14, C:L.40 Water bridges: C:N.15 Hydrogen bonds: P.3

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain C: S.47, T.48, G.76, V.79, Y.180 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.48, C:G.76

1 x PRO: PROLINE(Non-covalent)

PRO.3: 6 residues within 4Å: Chain C: F.14, N.15, S.45, F.46, W.108 Ligands: NAG.1 1 PLIP interactions: 1 interactions with chain C, Hydrophobic interactions: C:W.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jones, B.E. et al., The neutralizing antibody, LY-CoV555, protects against SARS-CoV-2 infection in nonhuman primates. Sci Transl Med (2021)

Release Date

2021-01-27

Peptides

LY-CoV488 Fab heavy chain: A
LY-CoV488 Fab light chain: B
Spike protein S1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

LY-CoV488 Fab heavy chain

LY-CoV488 Fab light chain

Spike protein S1

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