SMTL ID : 7m51.1

B6 Fab fragment bound to the OC43 spike stem helix peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-1-mer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 3 residues within 4Å: Chain B: N.161, Q.198, T.199 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.161, B:Q.198, B:T.199 Water bridges: B:T.197, B:T.199 GOL.2: 5 residues within 4Å: Chain B: V.169, H.170 Chain C: T.169, E.170, D.172 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain C Hydrogen bonds: B:V.169, B:H.170, C:E.170, C:E.170 Water bridges: B:T.171, C:S.173, C:T.177, C:T.177 GOL.3: 5 residues within 4Å: Chain B: K.38, E.46, T.63, F.64, D.90 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.38, B:E.46, B:D.90, B:D.90 Water bridges: B:K.67 GOL.4: 10 residues within 4Å: Chain B: F.172, P.173, V.175, S.183, L.184, S.185 Chain C: S.167, S.181, S.182, T.183 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:S.167, C:T.183, B:F.172, B:S.185 Water bridges: C:T.183, C:T.183

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sauer, M.M. et al., Structural basis for broad coronavirus neutralization. Nat.Struct.Mol.Biol. (2021)

Release Date

2021-05-26

Peptides

Spike glycoprotein stem helix peptide: A
B6 antigen-binding (Fab) fragment heavy chain: B
B6 antigen-binding (Fab) fragment light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Spike glycoprotein stem helix peptide

B6 antigen-binding (Fab) fragment heavy chain

B6 antigen-binding (Fab) fragment light chain

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