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

Crystal structure of human neutralizing mAb CV3-25 binding to SARS-CoV-2 S MPER peptide 1140-1165

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NA.1: 6 residues within 4Å: Chain A: G.44, L.45 Chain B: Y.87, F.98, G.99, Q.100 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:L.45, A:L.45, B:Q.100 NA.2: 1 residues within 4Å: Chain A: K.23 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.23 NA.3: 4 residues within 4Å: Chain A: K.155 Chain B: S.131, T.178, T.180 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.155, B:T.180 NA.4: 2 residues within 4Å: Chain B: H.198, Q.199 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.198 NA.5: 4 residues within 4Å: Chain A: S.142 Chain B: V.115, F.116, K.207 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.207 NA.6: 2 residues within 4Å: Chain A: V.181 Chain B: Q.160 2 PLIP interactions: 2 interactions with chain B Water bridges: B:T.178, B:T.180

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.7: 1 residues within 4Å: Chain B: K.126 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.126, B:K.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, W. et al., Structural basis and mode of action for two broadly neutralizing antibodies against SARS-CoV-2 emerging variants of concern. Cell Rep (2022)

Release Date

2021-12-08

Peptides

CV3-25 Fab Heavy Chain: A
CV3-25 Fab Light Chain: B
Spike protein S2: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

CV3-25 Fab Heavy Chain

CV3-25 Fab Light Chain

Spike protein S2

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