SMTL ID : 8hc8.1

SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with YB13-292 Fab, focused refinement of Fab region

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-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 A: F.7, D.8, F.11, N.12, V.36, N.39 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.11, A:V.36 Hydrogen bonds: A:N.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yu, H. et al., Somatically hypermutated antibodies isolated from SARS-CoV-2 Delta infected patients cross-neutralize heterologous variants. Nat Commun (2023)

Release Date

2023-01-25

Peptides

Spike protein S1: A
Heavy chain of YB13-292 Fab: B
Light chain of YB13-292 Fab: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
H

C
L

Spike protein S1

Heavy chain of YB13-292 Fab

Light chain of YB13-292 Fab

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