SMTL ID : 8wpy.1

Cryo-EM structure of SARS-CoV-2 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- BMA- FUC: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUC.1: 9 residues within 4Å: Chain A: Y.32, Y.100, I.111, D.115 Chain B: Y.50 Chain G: F.20, G.21, F.24, N.25 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.32, A:I.111, A:D.115

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

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