SMTL ID : 7lf9.1

Structure of Hyperglycosylated Human IgG1 Fc (Fc329)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG- BMA- MAN- NAG- MAN: 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-MAN.1: 13 residues within 4Å: Chain A: F.27, F.29, K.32, T.46, V.50, D.51, Q.81, N.83, T.85, R.87 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-MAN.2, NAG-NAG-BMA-MAN-NAG-GAL-MAN.2, FUC.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.32, A:K.32

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.2: 16 residues within 4Å: Chain B: F.27, F.29, P.30, P.31, K.32, E.44, V.45, T.46, V.48, V.50, Q.81, N.83, R.87 Ligands: NAG-NAG-BMA-MAN-NAG-MAN.1, NAG-NAG-BMA-MAN-NAG-MAN.1, FUC.5 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:T.46, B:V.48 Hydrogen bonds: B:K.32, B:R.87, B:F.29, B:K.32, B:E.44, B:E.44, B:T.46, B:T.46

2 x FUC: alpha-L-fucopyranose(Non-covalent)(Non-functional Binders)

FUC.3: 5 residues within 4Å: Chain A: Q.81, Y.82, N.83 Ligands: NAG-NAG-BMA-MAN-NAG-MAN.1, NAG-NAG-BMA-MAN-NAG-MAN.1 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.82 FUC.5: 1 residues within 4Å: Ligands: NAG-NAG-BMA-MAN-NAG-GAL-MAN.2 No protein-ligand interaction detected (PLIP)

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

NAG.4: 1 residues within 4Å: Chain A: N.115 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fields, J.K. et al., Silent Antibodies: Generation of Hyperglycosylated FCs to Ablate Effector Functions. To Be Published

Release Date

2021-01-27

Peptides

IgG1 Fc (Fc329): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

IgG1 Fc (Fc329)