SMTL ID : 8hws.1

The complex structure of Omicron BA.4 RBD with BD604, S309, and S304

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-1-1-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 9 residues within 4Å: Chain A: F.6, D.7, F.10, N.11, V.35 Chain F: R.98, Y.100, D.115 Chain G: Y.50 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:Y.100 Hydrogen bonds: F:R.98, F:D.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, Q. et al., An updated atlas of antibody evasion by SARS-CoV-2 Omicron sub-variants including BQ.1.1 and XBB. Cell Rep Med (2023)

Release Date

2023-12-06

Peptides

Spike protein S2': A
BD-604 Fab Heavy chain: B
BD-604 Fab Light chain: C
S304 Fab Heavy Chain: D
S304 Fab Light Chain: E
S309 Fab Heavy Chain: F
S309 Fab Light Chain: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

D
D

E
E

F
I

G
J

Spike protein S2'

BD-604 Fab Heavy chain

BD-604 Fab Light chain

S304 Fab Heavy Chain

S304 Fab Light Chain

S309 Fab Heavy Chain

S309 Fab Light Chain

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