SMTL ID : 6kru.3 (2 other biounits)

Crystal structure of mouse IgG2b Fc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG- MAN- 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)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-NAG-GAL-MAN-NAG.1: 11 residues within 4Å: Chain A: F.13, F.15, P.16, N.18, D.21, K.30, T.32, D.37, N.69, R.73, R.106 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:P.16, A:N.18, A:N.18, A:D.21, A:D.21, A:K.30, A:K.30

1 x NAG- NAG- MAN- MAN- NAG- GAL- MAN- NAG- FUC: 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)]alpha-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-MAN-MAN-NAG-GAL-MAN-NAG-FUC.2: 17 residues within 4Å: Chain B: V.12, F.13, F.15, P.16, P.17, N.18, D.21, K.30, T.32, V.36, D.37, E.66, Y.68, N.69, T.71, R.73, R.106 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.15, B:N.18, B:N.18, B:D.21, B:D.21, B:K.30, B:K.30, B:T.32, B:T.32 Hydrophobic interactions: B:F.13, B:Y.68

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yanaka, S. et al., On-Membrane Dynamic Interplay between Anti-GM1 IgG Antibodies and Complement Component C1q. Int J Mol Sci (2019)

Release Date

2020-01-22

Peptides

Ig gamma-2B chain C region: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

Ig gamma-2B chain C region

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