SMTL ID : 8xbf.1

Cryo-EM structure of SARS-CoV-2 S-BQ.1 in complex with antibody O5C2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-2-2-mer

Ligands

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

NAG.1: 1 residues within 4Å: Chain A: N.160 Ligand excluded by PLIP NAG.2: 2 residues within 4Å: Chain A: E.276, N.277 Ligand excluded by PLIP NAG.3: 3 residues within 4Å: Chain A: N.704 Chain B: I.789, Y.791 Ligand excluded by PLIP NAG.4: 2 residues within 4Å: Chain A: N.712, Q.1066 Ligand excluded by PLIP NAG.5: 4 residues within 4Å: Chain A: N.1093, T.1095, H.1096, F.1098 Ligand excluded by PLIP NAG.6: 2 residues within 4Å: Chain A: G.1080, N.1129 Ligand excluded by PLIP NAG.7: 3 residues within 4Å: Chain B: Q.110, E.127, N.160 Ligand excluded by PLIP NAG.8: 3 residues within 4Å: Chain A: L.555 Chain B: E.276, N.277 Ligand excluded by PLIP NAG.9: 3 residues within 4Å: Chain B: N.704 Chain C: I.789, Y.791 Ligand excluded by PLIP NAG.10: 1 residues within 4Å: Chain B: N.712 Ligand excluded by PLIP NAG.11: 4 residues within 4Å: Chain B: N.1093, T.1095, H.1096, F.1098 Ligand excluded by PLIP NAG.12: 2 residues within 4Å: Chain B: G.1080, N.1129 Ligand excluded by PLIP NAG.13: 1 residues within 4Å: Chain C: N.160 Ligand excluded by PLIP NAG.14: 3 residues within 4Å: Chain B: K.552, K.553 Chain C: N.277 Ligand excluded by PLIP NAG.15: 2 residues within 4Å: Chain A: Y.791 Chain C: N.704 Ligand excluded by PLIP NAG.16: 3 residues within 4Å: Chain C: N.712, F.713, Q.921 Ligand excluded by PLIP NAG.17: 4 residues within 4Å: Chain C: N.1093, T.1095, H.1096, F.1098 Ligand excluded by PLIP NAG.18: 1 residues within 4Å: Chain C: N.1129 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, Y.H. et al., Functional and structural investigation of a broadly neutralizing SARS-CoV-2 antibody. JCI Insight (2024)

Release Date

2024-06-19

Peptides

Spike glycoprotein: ABC
O5C2, heavy chain: DF
O5C2, light chain: EG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

F
F

E
E

G
G

Spike glycoprotein

O5C2, heavy chain

O5C2, light chain