SMTL ID : 7tow.1 (1 other biounit)

Antibody DH1058 Fab fragment bound to SARS-CoV-2 fusion peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: S.52, Y.53, E.54, G.55, R.56 No protein-ligand interaction detected (PLIP) CA.2: 4 residues within 4Å: Chain A: E.46, W.47 Chain B: T.98, F.99 No protein-ligand interaction detected (PLIP)

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 6 residues within 4Å: Chain A: N.100, R.101, R.103, D.120 Chain B: Y.49, Q.55 9 PLIP interactions: 2 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:Y.49, B:Q.55, A:N.100, A:N.100, A:R.101, A:D.120, A:D.120 Water bridges: A:K.98, A:D.102

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gobeil, S.M. et al., Structural diversity of the SARS-CoV-2 Omicron spike. Mol.Cell (2022)

Release Date

2022-02-16

Peptides

DH1058 Fab heavy chain: A
DH1058 Fab Light chain: B
Spike protein S2: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
E

DH1058 Fab heavy chain

DH1058 Fab Light chain

Spike protein S2

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