SMTL ID : 7zfb.2 (1 other biounit)

SARS-CoV-2 Omicron RBD in complex with nanobody C1, Omi-18 and Omi-31 Fabs

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.08 Å

Oligo State

hetero-1-1-1-1-1-1-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain F: F.12, D.13, F.16, N.17 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:F.16 Hydrogen bonds: F:N.17

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nutalai, R. et al., Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell (2022)

Release Date

2022-06-01

Peptides

Nanobody C1: A
Omi-31 heavy chain: B
Omi-31 light chain: C
Omi-18 light chain: D
Omi-18 heavy chain: E
Spike protein S1: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
N

B
C

C
D

D
K

E
J

F
F

Nanobody C1

Omi-31 heavy chain

Omi-31 light chain

Omi-18 light chain

Omi-18 heavy chain

Spike protein S1

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