SMTL ID : 6eaq.1

Glycosylated FCGR3B / CD16b in complex with afucosylated IgG1 Fc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.22 Å

Oligo State

hetero-2-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- NAG- GAL- MAN: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-NAG-GAL-MAN.1: 18 residues within 4Å: Chain A: F.17, F.19, P.20, P.21, K.22, D.25, E.34, T.36, V.38, V.40, D.41, Q.71, N.73, T.75, R.77 Chain C: Y.132 Ligands: NAG-NAG-BMA.3, NAG-NAG-BMA.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.19, A:K.22, A:K.22, A:D.25, A:D.25, A:E.34, A:E.34, A:E.34, A:K.22 Water bridges: A:R.77

1 x NAG- NAG- BMA- MAN- NAG- GAL- MAN- NAG: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG.2: 12 residues within 4Å: Chain B: F.17, F.19, P.20, P.21, K.22, E.34, T.36, V.40, D.41, Q.71, N.73, R.77 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:F.19, B:K.22, B:K.22, B:D.25, B:D.25, B:E.34, B:E.34, B:T.36, B:T.36

2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.3: 6 residues within 4Å: Chain A: Y.72, N.73 Chain C: R.155, L.157, N.162 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-MAN.1 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:R.155, C:R.155, A:N.73 Water bridges: A:N.73, A:N.73 NAG-NAG-BMA.4: 6 residues within 4Å: Chain C: H.44, N.45, V.63, Q.64, S.66, G.67 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.66 Water bridges: C:V.86

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Roberts, J.T. et al., A single amino acid distorts the Fc gamma receptor IIIb/CD16b structure upon binding immunoglobulin G1 and reduces affinity relative to CD16a. J. Biol. Chem. (2018)

Release Date

2018-11-07

Peptides

Immunoglobulin gamma-1 heavy chain: AB
Low affinity immunoglobulin gamma Fc region receptor III-B: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Immunoglobulin gamma-1 heavy chain

Low affinity immunoglobulin gamma Fc region receptor III-B