SMTL ID : 4wi2.1

Structural mapping of the human IgG1 binding site for FcRn: hu3S193 Fc (wild-type)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 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.1: 13 residues within 4Å: Chain A: F.5, F.7, K.10, T.24, V.28, D.29, Q.59, Y.60, N.61, T.63, R.65 Ligands: NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.2, NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.60 Hydrogen bonds: A:R.65, A:K.10 Water bridges: A:T.24, A:R.65 NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.2: 11 residues within 4Å: Chain B: F.5, F.7, K.10, T.24, V.28, D.29, Q.59, N.61, T.63, R.65 Ligands: NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.1 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.65, B:K.10, B:K.10

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 5 residues within 4Å: Chain A: D.163, S.164, D.165 Chain B: N.154, T.175 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.164, A:D.165, A:D.165, B:N.154, B:N.154 EDO.4: 6 residues within 4Å: Chain B: I.141, T.157, T.158, P.159, P.160, L.170 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:I.141, B:T.158 EDO.5: 4 residues within 4Å: Chain B: S.3, V.4, I.96, K.98 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.4, B:K.98, B:K.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Burvenich, I.J.G. et al., Structural and functional mapping of human IgG1 binding site for FcRn in vivo using human FcRn transgenic mice. To Be Published

Release Date

2015-09-30

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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