SMTL ID : 8thf.1

SARS-CoV-2 BA.1 S-6P-no-RBD

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

12 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain C: N.507, L.712, Q.716 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain A: N.507, L.712, Q.861 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: N.591, S.593 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 4 residues within 4Å: Chain A: N.888, T.890, H.891, F.893 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 1 residues within 4Å: Chain A: N.924 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 1 residues within 4Å: Chain B: N.507 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 3 residues within 4Å: Chain B: N.591, S.593, Q.594 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 2 residues within 4Å: Chain B: N.888, H.891 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 1 residues within 4Å: Chain B: N.924 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 3 residues within 4Å: Chain C: N.591, S.593, Q.594 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 2 residues within 4Å: Chain C: N.888, H.891 No protein-ligand interaction detected (PLIP) NAG-NAG.12: 1 residues within 4Å: Chain C: N.924 No protein-ligand interaction detected (PLIP)

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

NAG.13: 1 residues within 4Å: Chain A: N.406 Ligand excluded by PLIP NAG.14: 2 residues within 4Å: Chain A: E.265, N.266 Ligand excluded by PLIP NAG.15: 2 residues within 4Å: Chain A: Y.445, N.447 Ligand excluded by PLIP NAG.16: 1 residues within 4Å: Chain A: N.499 Ligand excluded by PLIP NAG.17: 2 residues within 4Å: Chain A: E.862, N.864 Ligand excluded by PLIP NAG.18: 4 residues within 4Å: Chain B: Y.15, T.16, N.17, N.48 Ligand excluded by PLIP NAG.19: 1 residues within 4Å: Chain B: N.406 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain B: E.265, N.266 Ligand excluded by PLIP NAG.21: 1 residues within 4Å: Chain B: N.447 Ligand excluded by PLIP NAG.22: 3 residues within 4Å: Chain B: N.499 Chain C: I.584, Y.586 Ligand excluded by PLIP NAG.23: 2 residues within 4Å: Chain B: E.862, N.864 Ligand excluded by PLIP NAG.24: 2 residues within 4Å: Chain C: N.406, T.408 Ligand excluded by PLIP NAG.25: 3 residues within 4Å: Chain C: N.264, E.265, N.266 Ligand excluded by PLIP NAG.26: 3 residues within 4Å: Chain A: I.584, Y.586 Chain C: N.499 Ligand excluded by PLIP NAG.27: 3 residues within 4Å: Chain C: A.496, E.862, N.864 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, G. et al., Universal subunit vaccine protects against multiple SARS-CoV-2 variants and SARS-CoV. Npj Vaccines (2024)

Release Date

2024-07-17

Peptides

Spike protein S1,Spike glycoprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Spike protein S1,Spike glycoprotein