SMTL ID : 7x2j.1

Crystal structure of nanobody Nb70 with SARS-CoV RBD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-mer

Ligands

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

NAG.1: 5 residues within 4Å: Chain A: F.20, G.21, F.24, N.25, V.49 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.24, A:V.49 Hydrogen bonds: A:N.25 NAG.2: 3 residues within 4Å: Chain A: D.46, S.48, N.52 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.46, A:S.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, M. et al., Broadly neutralizing and protective nanobodies against SARS-CoV-2 Omicron subvariants BA.1, BA.2, and BA.4/5 and diverse sarbecoviruses. Nat Commun (2022)

Release Date

2022-12-21

Peptides

Spike protein S1: A
Nb70: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
S

B
B

Spike protein S1

Nb70

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