SMTL ID : 8y7x.1

Structure of HCoV-HKU1A spike in the functionally anchored-3up conformation with 3TMPRSS2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-mer

Ligands

10 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: 2 residues within 4Å: Chain A: H.129, N.175 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: D.702, N.713, T.715, D.716 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain A: N.1202 Chain C: D.869, V.870, D.871, N.872, Q.992 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.869, C:N.872 NAG-NAG.4: 3 residues within 4Å: Chain B: H.129, V.132, N.175 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain B: D.702, N.713, T.715, D.716 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 5 residues within 4Å: Chain A: D.869, D.871, N.872, Q.992 Chain B: N.1202 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.869, A:N.872 NAG-NAG.7: 2 residues within 4Å: Chain C: H.129, N.175 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 4 residues within 4Å: Chain C: D.702, N.713, T.715, D.716 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 6 residues within 4Å: Chain B: D.869, D.871, N.872, Q.992 Chain C: V.1201, N.1202 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.872 NAG-NAG.10: 2 residues within 4Å: Chain C: N.45, N.259 No protein-ligand interaction detected (PLIP)

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

NAG.11: 3 residues within 4Å: Chain A: H.671, N.673, Y.734 Ligand excluded by PLIP NAG.12: 1 residues within 4Å: Chain A: N.767 Ligand excluded by PLIP NAG.13: 2 residues within 4Å: Chain A: N.784, I.1142 Ligand excluded by PLIP NAG.14: 2 residues within 4Å: Chain A: E.911, N.915 Ligand excluded by PLIP NAG.15: 5 residues within 4Å: Chain A: D.606, V.607, I.621, N.691, N.692 Ligand excluded by PLIP NAG.16: 2 residues within 4Å: Chain A: N.45, R.923 Ligand excluded by PLIP NAG.17: 2 residues within 4Å: Chain A: V.651, N.653 Ligand excluded by PLIP NAG.18: 4 residues within 4Å: Chain A: S.720, P.760, F.761, N.762 Ligand excluded by PLIP NAG.19: 1 residues within 4Å: Chain B: N.762 Ligand excluded by PLIP NAG.20: 1 residues within 4Å: Chain B: N.767 Ligand excluded by PLIP NAG.21: 2 residues within 4Å: Chain B: N.784, I.1142 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain B: E.911, N.915 Ligand excluded by PLIP NAG.23: 3 residues within 4Å: Chain B: D.606, I.621, N.692 Ligand excluded by PLIP NAG.24: 2 residues within 4Å: Chain B: Q.672, N.673 Ligand excluded by PLIP NAG.25: 1 residues within 4Å: Chain B: N.45 Ligand excluded by PLIP NAG.26: 2 residues within 4Å: Chain B: V.651, N.653 Ligand excluded by PLIP NAG.27: 3 residues within 4Å: Chain C: S.720, P.760, N.762 Ligand excluded by PLIP NAG.28: 1 residues within 4Å: Chain C: N.767 Ligand excluded by PLIP NAG.29: 1 residues within 4Å: Chain C: N.784 Ligand excluded by PLIP NAG.30: 3 residues within 4Å: Chain C: E.911, A.912, N.915 Ligand excluded by PLIP NAG.31: 4 residues within 4Å: Chain C: D.606, V.607, N.691, N.692 Ligand excluded by PLIP NAG.32: 2 residues within 4Å: Chain C: Q.672, N.673 Ligand excluded by PLIP NAG.33: 2 residues within 4Å: Chain C: V.651, N.653 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, H. et al., TMPRSS2 and glycan receptors synergistically facilitate coronavirus entry. Cell (2024)

Release Date

2024-07-17

Peptides

Spike glycoprotein: ABC
Transmembrane protease serine 2: DEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
C

D
x

E
y

F
z

Spike glycoprotein

Transmembrane protease serine 2

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