SMTL ID : 8qh0.1

Crystal structure of the SARS-CoV-2 RBD with the antibody Cv2.3194

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.87 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 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: 5 residues within 4Å: Chain A: F.8, G.9, N.13, F.37, N.40 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.40

1 x PRO: PROLINE(Non-covalent)

PRO.2: 4 residues within 4Å: Chain A: V.32, A.33, N.58, G.196 1 PLIP interactions: 1 interactions with chain A, Hydrogen bonds: A:G.196

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: F.12, N.13, S.43, F.44, W.106 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.12, A:S.43 GOL.4: 11 residues within 4Å: Chain B: F.170, P.171, V.173, S.181, L.182, S.183 Chain C: Q.157, E.158, S.159, S.173, T.175 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain B Hydrogen bonds: C:Q.157, C:S.159, C:T.175, C:T.175, B:F.170, B:S.181, B:S.183

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Planchais, C. et al., A broadly neutralizing antibody against SARS-CoV-2 Omicron variants. To Be Published

Release Date

2024-06-19

Peptides

Spike protein S1: A
Cv2.3194 Heavy chain: B
IGK@ protein: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Spike protein S1

Cv2.3194 Heavy chain

IGK@ protein

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