SMTL ID : 7xmx.1

Cryo-EM structure of SARS-CoV-2 spike glycoprotein in complex with three F61 Fab

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: N.1098, T.1100, H.1101, F.1103 Ligand excluded by PLIP NAG.2: 2 residues within 4Å: Chain A: N.280, N.282 Ligand excluded by PLIP NAG.3: 1 residues within 4Å: Chain A: N.657 Ligand excluded by PLIP NAG.4: 2 residues within 4Å: Chain A: N.801, S.803 Ligand excluded by PLIP NAG.5: 2 residues within 4Å: Chain A: N.709, G.1131 Ligand excluded by PLIP NAG.6: 1 residues within 4Å: Chain A: N.1074 Ligand excluded by PLIP NAG.7: 1 residues within 4Å: Chain A: N.603 Ligand excluded by PLIP NAG.8: 4 residues within 4Å: Chain A: Q.115, N.165, T.167 Chain B: L.518 Ligand excluded by PLIP NAG.9: 4 residues within 4Å: Chain B: N.1098, T.1100, H.1101, F.1103 Ligand excluded by PLIP NAG.10: 2 residues within 4Å: Chain B: N.280, N.282 Ligand excluded by PLIP NAG.11: 1 residues within 4Å: Chain B: N.657 Ligand excluded by PLIP NAG.12: 2 residues within 4Å: Chain B: N.801, S.803 Ligand excluded by PLIP NAG.13: 2 residues within 4Å: Chain B: N.709, G.1131 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain B: N.1074 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain B: N.603 Ligand excluded by PLIP NAG.16: 2 residues within 4Å: Chain B: N.616, T.618 Ligand excluded by PLIP NAG.17: 4 residues within 4Å: Chain C: N.1098, T.1100, H.1101, F.1103 Ligand excluded by PLIP NAG.18: 2 residues within 4Å: Chain C: N.280, N.282 Ligand excluded by PLIP NAG.19: 1 residues within 4Å: Chain C: N.657 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain C: N.801, S.803 Ligand excluded by PLIP NAG.21: 2 residues within 4Å: Chain C: N.709, G.1131 Ligand excluded by PLIP NAG.22: 1 residues within 4Å: Chain C: N.1074 Ligand excluded by PLIP NAG.23: 1 residues within 4Å: Chain C: N.603 Ligand excluded by PLIP NAG.24: 2 residues within 4Å: Chain C: N.616, Q.644 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, X. et al., Structural basis of a two-antibody cocktail exhibiting highly potent and broadly neutralizing activities against SARS-CoV-2 variants including diverse Omicron sublineages. Cell Discov (2022)

Release Date

2022-11-23

Peptides

Spike glycoprotein: ABC
F61 heavy chain: DFH
F61 light chain: EGI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
E

F
H

H
K

E
F

G
I

I
L

Spike glycoprotein

F61 heavy chain

F61 light chain

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