SMTL ID : 3wjl.1

Crystal structure of IIb selective Fc variant, Fc(V12), in complex with FcgRIIb

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.86 Å

Oligo State

hetero-2-1-mer

Ligands

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.1: 16 residues within 4Å: Chain A: L.19, F.26, F.28, P.30, K.31, D.34, E.43, T.45, V.49, D.50, Q.80, Y.81, N.82, T.84, K.119 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG-FUL.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.31, A:E.43, A:E.43, A:T.45 Water bridges: A:L.27

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.2: 17 residues within 4Å: Chain B: V.25, F.26, F.28, P.29, P.30, K.31, E.43, T.45, V.49, D.50, Q.80, N.82, T.84, R.86, K.119 Chain C: F.130 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG.1 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.28, B:E.43, B:E.43, B:T.45, B:T.45, B:V.25

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

NAG.3: 3 residues within 4Å: Chain C: N.143, S.145, H.146 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.143, C:S.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mimoto, F. et al., Engineered antibody Fc variant with selectively enhanced Fc gamma RIIb binding over both Fc gamma RIIaR131 and Fc gamma RIIaH131. Protein Eng.Des.Sel. (2013)

Release Date

2013-11-13

Peptides

Ig gamma-1 chain C region: AB
Low affinity immunoglobulin gamma Fc region receptor II-c: 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 II-c

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