SMTL ID : 9ecx.1 (1 other biounit)

Crystal structure of the SARS-CoV-2 NTD-targeted neutralizing antibody WRAIR-2008

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.67 Å

Oligo State

hetero-1-1-mer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: P.41, T.91, T.123, T.125, E.163, P.164 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.125, A:E.163 GOL.2: 4 residues within 4Å: Chain A: S.171, I.210, N.212, D.223 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.171, A:N.212, A:D.223 Water bridges: A:S.171, A:D.223 GOL.3: 2 residues within 4Å: Chain A: K.225, E.227 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.225, A:K.225 GOL.5: 11 residues within 4Å: Chain A: L.156, F.181, P.182, V.184, L.193, S.194 Chain B: Q.165, S.167, S.181, S.182, T.183 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:P.182, A:S.194, B:S.167, B:S.181, B:T.183, B:T.183 GOL.6: 5 residues within 4Å: Chain A: V.178, H.179 Chain B: E.170, D.172, S.173 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:E.170, B:D.172, B:D.172, B:S.173, A:V.178, A:H.179

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain B: S.126, D.127, E.128 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.126, B:D.127, B:D.127, B:E.128

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jensen, J.L. et al., Crystal structure of the SARS-CoV-2 NTD-targeted neutralizing antibody WRAIR-2008. To Be Published

Release Date

2025-08-20

Peptides

WRAIR-2008 Fab heavy chain: A
WRAIR-2008 Fab light chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

WRAIR-2008 Fab heavy chain

WRAIR-2008 Fab light chain

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