SMTL ID : 3v95.1

Crystal structure of monoclonal human anti-rhesus D Fc and IgG1 t125(yb2/0) in the presence of EDTA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

2 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(Non-functional Binders)

NAG-NAG-MAN-MAN-NAG-GAL-MAN-NAG.1: 16 residues within 4Å: Chain A: F.6, F.8, P.9, P.10, K.11, D.14, E.23, T.25, V.29, D.30, Q.60, N.62, T.64, R.66 Ligands: NAG-NAG-MAN-MAN-NAG-GAL-MAN-NAG.2, NAG-NAG-MAN-MAN-NAG-GAL-MAN-NAG.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.11, A:E.23, A:T.25, A:T.25 NAG-NAG-MAN-MAN-NAG-GAL-MAN-NAG.2: 15 residues within 4Å: Chain B: S.4, F.6, F.8, P.9, P.10, K.11, D.14, E.23, T.25, V.29, D.30, N.62, R.66 Ligands: NAG-NAG-MAN-MAN-NAG-GAL-MAN-NAG.1, NAG-NAG-MAN-MAN-NAG-GAL-MAN-NAG.1 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:P.9, B:K.11, B:K.11, B:D.14, B:E.23, B:T.25

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.4: 4 residues within 4Å: Chain A: G.46, K.85, K.87, E.98 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.46, A:K.85, A:K.87

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Siberil, S. et al., Effect of zinc on human IgG1 and its Fc gamma R interactions. Immunol.Lett. (2012)

Release Date

2012-02-22

Peptides

Ig gamma-1 chain C region: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ig gamma-1 chain C region

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