SMTL ID : 7qf0.1

Crystal structure of the SARS-CoV-2 RBD in complex with the human antibody CV2.2325

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 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, S.41 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.41

1 x NA: SODIUM ION(Non-functional Binders)

NA.2: 6 residues within 4Å: Chain A: R.25, Y.66, D.68, V.182, L.183, S.184 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.25, A:D.68, A:D.68, A:S.184

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 5 residues within 4Å: Chain B: V.29, N.32, M.34, I.51, R.71 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain C: Q.3, M.4, T.98 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain C: P.142, R.143, E.144 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Planchais, C. et al., Potent human broadly SARS-CoV-2-neutralizing IgA and IgG antibodies effective against Omicron BA.1 and BA.2. J.Exp.Med. (2022)

Release Date

2022-05-18

Peptides

Spike protein S1: A
CV2.2325 heavy chain: B
CV2.2325 light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Spike protein S1

CV2.2325 heavy chain

CV2.2325 light chain

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