SMTL ID : 7pr0.3 (2 other biounits)

Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with FD-5D Fab

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: 3 residues within 4Å: Chain A: N.20, S.50, W.113 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.20, A:S.50, A:S.50

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain B: K.44, Q.50, P.64, R.66, D.87 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.44, B:K.44, B:R.66

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

CL.3: 1 residues within 4Å: Chain C: G.112 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, K.A. et al., Structures and therapeutic potential of anti-RBD human monoclonal antibodies against SARS-CoV-2. Theranostics (2022)

Release Date

2022-02-02

Peptides

Spike protein S1: A
FD-5D Fab light chain: B
FD-5D Fab heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
F

C
G

Spike protein S1

FD-5D Fab light chain

FD-5D Fab heavy chain

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