SMTL ID : 9ccj.1

Dissecting human monoclonal antibody responses from mRNA and protein-based booster vaccinations against XBB1.5 SARS-CoV-2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

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: 2 residues within 4Å: Chain C: Y.12, N.45 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 5 residues within 4Å: Chain C: N.106, T.108, N.109, V.111, E.137 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.109

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

NAG.3: 2 residues within 4Å: Chain C: N.147, N.148 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:N.147 Hydrogen bonds: C:N.147 NAG.4: 3 residues within 4Å: Chain C: T.92, N.217, T.219 No protein-ligand interaction detected (PLIP) NAG.5: 3 residues within 4Å: Chain C: N.263, E.264, N.265 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.263, C:E.264

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fantin, R.F. et al., Dissecting human monoclonal antibody responses from mRNA- and protein-based XBB.1.5 COVID-19 monovalent vaccines. Biorxiv (2024)

Release Date

2025-03-12

Peptides

M2 Fab Heavy Chain: A
M2 Fab Light Chain: B
Spike glycoprotein: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
A

M2 Fab Heavy Chain

M2 Fab Light Chain

Spike glycoprotein