SMTL ID : 8tzu.2 (2 other biounits)

OC43 S1b domain in complex with WNb 293 and WNb 317

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 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: P.107, N.110 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 2 residues within 4Å: Chain A: N.165, I.179 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: P.197 Chain B: R.27, T.28, Y.32, Y.100 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.27, B:T.28, B:T.28, B:T.28 GOL.4: 7 residues within 4Å: Chain A: R.136, D.145, S.250 Chain B: P.58, Y.59, Y.60, K.65 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.136, A:D.145, A:S.250, B:Y.60, B:K.65 Water bridges: A:N.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Adair, A. et al., Human coronavirus OC43 nanobody neutralizes virus and protects mice from infection. J.Virol. (2024)

Release Date

2024-05-01

Peptides

Spike protein S1: A
WNb 317: B
WNb 293: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

Spike protein S1

WNb 317

WNb 293

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