SMTL ID : 3ay4.1

Crystal structure of nonfucosylated Fc complexed with bis-glycosylated soluble form of Fc gamma receptor IIIa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-2-1-mer

Ligands

2 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.1: 20 residues within 4Å: Chain A: F.17, F.19, P.20, P.21, K.22, D.25, E.34, T.36, V.40, D.41, Q.71, N.73, T.75, R.77, K.110 Chain C: T.120, Y.130 Ligands: NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.3, NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.3, NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:F.19, A:K.22, A:D.25, A:D.25, A:E.34, A:E.34, A:T.36 NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG.2: 14 residues within 4Å: Chain B: F.17, F.19, P.20, P.21, K.22, E.34, T.36, V.38, V.40, D.41, Q.71, N.73, T.75, R.77 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:F.19, B:K.22, B:K.22, B:E.34, B:E.34, B:T.36 Water bridges: B:E.34

1 x NAG- NAG- BMA- MAN- NAG- MAN- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[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-MAN-NAG-FUC.3: 9 residues within 4Å: Chain A: Y.72 Chain C: K.118, N.124, G.125, R.153, L.155, N.160 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG.1, NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG.1 No protein-ligand interaction detected (PLIP)

1 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.4: 5 residues within 4Å: Chain C: H.42, N.43, D.62, S.64, G.65 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mizushima, T. et al., Structural basis for improved efficacy of therapeutic antibodies on defucosylation of their Fc glycans. Genes Cells (2011)

Release Date

2011-08-03

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

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