SMTL ID : 8wpw.1

Cryo-EM structure of SARS-CoV-2 XBB.1.5 receptor-binding domain (RBD) complexed with CB6 mutant,S309, and S304 antibodies

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: 10 residues within 4Å: Chain A: R.98, Y.100, D.115 Chain B: Y.50 Chain G: H.21, F.24, N.25, V.49, N.52, F.53 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain G Hydrogen bonds: A:R.98, A:D.115, G:N.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Su, C. et al., An improved design method enables the ineffective etesevimab broadly and efficiently against SARS-CoV-2 Omicron subvariants. To Be Published

Release Date

2024-10-16

Peptides

S309 fab heavy chain: A
S309 fab light chain: B
CB6 fab mutant heavy chain: C
CB6 fab mutant light chain: D
S304 fab heavy chain: E
S304 fab light chain: F
Spike protein S1: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
H

F
L

G
R

S309 fab heavy chain

S309 fab light chain

CB6 fab mutant heavy chain

CB6 fab mutant light chain

S304 fab heavy chain

S304 fab light chain

Spike protein S1

Related Entries With Identical Sequence