SMTL ID : 5hy9.1

Glycosylated, disulfide-linked Knob-into-Hole Fc fragment

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- BMA- BMA- NAG- GAL- BMA- NAG- FUC: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-beta-D-mannopyranose-(1-6)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-beta-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-BMA-NAG-GAL-BMA-NAG-FUC.1: 18 residues within 4Å: Chain A: F.21, F.23, P.24, P.25, K.26, E.38, T.40, V.42, V.44, D.45, Q.75, Y.76, N.77, T.79, R.81 Ligands: NAG-NAG-BMA-BMA-NAG-FUC.2, NAG-NAG-BMA-BMA-NAG-FUC.2, NAG-NAG-BMA-BMA-NAG-FUC.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.76 Hydrogen bonds: A:F.23, A:K.26, A:K.26, A:E.38, A:E.38, A:T.40

1 x NAG- NAG- BMA- BMA- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-beta-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-BMA-NAG-FUC.2: 8 residues within 4Å: Chain B: F.21, F.23, V.44, D.45, N.77, T.79 Ligands: NAG-NAG-BMA-BMA-NAG-GAL-BMA-NAG-FUC.1, NAG-NAG-BMA-BMA-NAG-GAL-BMA-NAG-FUC.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuglstatter, A. et al., Structural differences between glycosylated, disulfide-linked heterodimeric Knob-into-Hole Fc fragment and its homodimeric Knob-Knob and Hole-Hole side products. Protein Eng. Des. Sel. (2017)

Release Date

2017-02-01

Peptides

Ig gamma-1 chain C region: A
Ig gamma-1 chain C region: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ig gamma-1 chain C region

Ig gamma-1 chain C region

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