SMTL ID : 5d6d.1

Crystal structure of GASDALIE IgG1 Fc in complex with FcgRIIIa

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.13 Å

Oligo State

hetero-2-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- NAG- GAL- MAN- NAG- FUL: 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)-[beta-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG-FUL.1: 16 residues within 4Å: Chain A: D.42, F.44, F.46, P.47, P.48, K.49, D.52, E.61, T.63, V.67, D.68, Q.98, N.100, R.104 Chain C: T.140 Ligands: NAG.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:P.47, A:K.49, A:D.52, A:E.61, A:E.61

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: 15 residues within 4Å: Chain B: F.44, F.46, P.47, P.48, K.49, D.52, E.61, T.63, V.67, D.68, Q.98, N.100, T.102, R.104 Ligands: FUC.3 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.49, B:D.52, B:E.61, B:T.63 Hydrophobic interactions: B:F.44

1 x FUC: alpha-L-fucopyranose(Non-covalent)

FUC.3: 3 residues within 4Å: Chain B: Y.99 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG.2, NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG.2 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Y.99

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 4 residues within 4Å: Chain C: K.138, L.175, N.180 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG-FUL.1 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:K.138, C:L.175 Hydrogen bonds: C:N.180 NAG.5: 6 residues within 4Å: Chain C: H.62, N.63, V.81, D.82, S.84, G.85 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.63, C:D.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ahmed, A.A. et al., Structural characterization of GASDALIE Fc bound to the activating Fc receptor Fc gamma RIIIa. J.Struct.Biol. (2016)

Release Date

2016-02-10

Peptides

Ig gamma-1 chain C region: AB
Low affinity immunoglobulin gamma Fc region receptor III-A: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Ig gamma-1 chain C region

Low affinity immunoglobulin gamma Fc region receptor III-A