SMTL ID : 4byh.1

Crystal structure of sialylated IgG Fc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG- BMA- MAN- NAG- GAL- SIA- MAN- NAG- FUC: N-acetyl-alpha-neuraminic acid-(2-6)-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)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-NAG-GAL-SIA-MAN-NAG-FUC.1: 13 residues within 4Å: Chain A: F.20, F.22, P.23, P.24, K.25, E.37, T.39, V.43, D.44, N.76, R.80 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG-GAL-FUC.2, NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG-GAL-FUC.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:F.22, A:K.25, A:E.37, A:E.37, A:T.39, A:T.39 Water bridges: A:K.25, A:E.37

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

NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG-GAL-FUC.2: 18 residues within 4Å: Chain B: F.20, F.22, P.23, P.24, K.25, D.28, E.37, T.39, V.41, V.43, D.44, Q.74, Y.75, N.76, T.78, R.80 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-SIA-MAN-NAG-FUC.1, NAG-NAG-BMA-MAN-NAG-GAL-SIA-MAN-NAG-FUC.1 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Y.75 Hydrogen bonds: B:F.22, B:K.25, B:K.25, B:D.28, B:D.28, B:E.37, B:E.37, B:K.25 Water bridges: B:R.80, B:R.80, B:R.80, B:R.80

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: L.88, H.89, Q.90 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain B: L.88, H.89, Q.90 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Crispin, M. et al., Crystal Structure of Sialylated Igg Fc: Implications for the Mechanism of Intravenous Immunoglobulin Therapy. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-08-21

Peptides

IG GAMMA-1 CHAIN C REGION: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

IG GAMMA-1 CHAIN C REGION