SMTL ID : 8zhp.1

Dimer of SARS-CoV-2 S1 in complex with H18 and R1-32 Fabs

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-2-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: G.329, F.332, N.333 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.332 NAG.2: 2 residues within 4Å: Chain F: G.329, N.333 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, Q. et al., Antibodies utilizing VL6-57 light chains target a convergent cryptic epitope on SARS-CoV-2 spike protein and potentially drive the genesis of Omicron variants. Nat Commun (2024)

Release Date

2024-08-21

Peptides

Spike glycoprotein: AF
Heavy chain of R1-32 Fab: BG
Light chain of R1-32 Fab: CH
Light chain of H18 Fab: DI
Heavy chain of H18 Fab: EJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

F
A

B
D

G
B

C
E

H
F

D
L

I
I

E
H

J
G

Spike glycoprotein

Heavy chain of R1-32 Fab

Light chain of R1-32 Fab

Light chain of H18 Fab

Heavy chain of H18 Fab

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