SMTL ID : 6dw2.1

Structure of the 6078 Antibody Fab fragment bound to a Staphylococcus aureus wall techoic acid analog

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

hetero-1-1-mer

Ligands

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

NA.1: 3 residues within 4Å: Chain A: F.119 Chain B: L.125, A.129 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.129 NA.2: 1 residues within 4Å: Chain B: Y.83 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.83

1 x MLA: MALONIC ACID(Non-covalent)

MLA.3: 6 residues within 4Å: Chain A: S.144, D.145, E.146 Chain B: P.157, K.248, S.249 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:P.157 Hydrogen bonds: B:S.249, A:S.144, A:D.145, A:E.146 Water bridges: B:P.247 Salt bridges: B:K.248

1 x HD4: 4-O-[2-acetamido-2-deoxy-beta-D-glucopyranosyl]-1-O-phosphono-D-ribitol(Non-covalent)

HD4.4: 12 residues within 4Å: Chain A: Y.117 Chain B: D.56, W.73, N.75, S.78, N.80, G.82, S.123, I.124, L.125, R.127, R.132 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:W.73, B:N.75, B:S.78, B:N.80, B:N.80, B:L.125, B:R.132 Water bridges: B:L.125, A:Y.117, A:Y.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fong, R. et al., Structural investigation of human S. aureus-targeting antibodies that bind wall teichoic acid. MAbs (2018)

Release Date

2018-08-29

Peptides

6078 Fab light chain: A
6078 Fab heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

6078 Fab light chain

6078 Fab heavy chain