SMTL ID : 8z7g.1

Cryo-EM structure of SARS-CoV-2 S trimer in the early fusion intermediate conformation (E-FIC) (focused refinement of intact S2)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

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

NAG.1: 1 residues within 4Å: Chain A: N.1134 Ligand excluded by PLIP NAG.2: 4 residues within 4Å: Chain A: N.1098, T.1100, H.1101, F.1103 Ligand excluded by PLIP NAG.3: 1 residues within 4Å: Chain A: N.1074 Ligand excluded by PLIP NAG.4: 3 residues within 4Å: Chain A: T.716, N.717 Chain B: G.1124 Ligand excluded by PLIP NAG.5: 1 residues within 4Å: Chain A: N.801 Ligand excluded by PLIP NAG.6: 4 residues within 4Å: Chain A: S.708, N.709, N.710, S.711 Ligand excluded by PLIP NAG.7: 1 residues within 4Å: Chain B: N.1134 Ligand excluded by PLIP NAG.8: 4 residues within 4Å: Chain B: N.1098, T.1100, H.1101, F.1103 Ligand excluded by PLIP NAG.9: 1 residues within 4Å: Chain B: N.1074 Ligand excluded by PLIP NAG.10: 3 residues within 4Å: Chain B: T.716, N.717 Chain C: G.1124 Ligand excluded by PLIP NAG.11: 1 residues within 4Å: Chain B: N.801 Ligand excluded by PLIP NAG.12: 4 residues within 4Å: Chain B: S.708, N.709, N.710, S.711 Ligand excluded by PLIP NAG.13: 1 residues within 4Å: Chain C: N.1134 Ligand excluded by PLIP NAG.14: 4 residues within 4Å: Chain C: N.1098, T.1100, H.1101, F.1103 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain C: N.1074 Ligand excluded by PLIP NAG.16: 3 residues within 4Å: Chain A: G.1124 Chain C: T.716, N.717 Ligand excluded by PLIP NAG.17: 1 residues within 4Å: Chain C: N.801 Ligand excluded by PLIP NAG.18: 4 residues within 4Å: Chain C: S.708, N.709, N.710, S.711 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Z. et al., Cryo-EM structure of SARS-CoV-2 S trimer in the early fusion intermediate conformation (E-FIC) (focused refinement of intact S2). To Be Published

Release Date

2025-02-05

Peptides

Spike glycoprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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Spike glycoprotein

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