SMTL ID : 7wk0.1

Local refine of Omicron spike bitrimer with 6m6 antibody

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-mer

Ligands

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

NAG.1: 7 residues within 4Å: Chain C: F.8, D.9, F.12, N.13, V.37, L.38, N.40 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:F.12, C:V.37, C:L.38 Hydrogen bonds: C:V.37, C:N.40 NAG.2: 6 residues within 4Å: Chain F: F.8, D.9, F.12, N.13, V.37, L.41 4 PLIP interactions: 4 interactions with chain F Hydrophobic interactions: F:F.12 Hydrogen bonds: F:D.9, F:N.13, F:V.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Y. et al., A broadly neutralizing antibody against SARS-CoV-2 Omicron variant infection exhibiting a novel trimer dimer conformation in spike protein binding. Cell Res. (2022)

Release Date

2022-07-13

Peptides

6m6 heavy chain: AD
6m6 light chain: BE
Spike protein S1: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

B
B

E
E

C
C

F
F

6m6 heavy chain

6m6 light chain

Spike protein S1

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