SMTL ID : 4c54.1

Crystal structure of recombinant human IgG4 Fc

Coordinates

PDB Format

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.8, F.10, K.13, T.27, V.29, V.31, D.32, Q.62, N.64, T.66, R.68 Ligands: NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.2, EDO.13 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:N.64 Water bridges: A:F.63, A:R.68, A:R.68, A:T.27, A:T.27, A:R.68 Hydrogen bonds: A:K.13, A:K.13 NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.2: 13 residues within 4Å: Chain B: F.8, F.10, K.13, T.27, V.29, V.31, D.32, Q.62, N.64, T.66, R.68 Ligands: NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.1, NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.1 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.68

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 5 residues within 4Å: Chain A: P.5, S.6, V.7, I.99, K.101 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.7 Water bridges: A:K.101 Salt bridges: A:K.101 MES.10: 6 residues within 4Å: Chain B: G.4, P.5, S.6, V.7, I.99, K.101 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.7 Salt bridges: B:K.101

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

EDO.4: 6 residues within 4Å: Chain A: I.144, T.160, T.161, P.162, P.163, L.173 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.161 Water bridges: A:I.144 EDO.5: 5 residues within 4Å: Chain A: N.43, K.89, S.91, P.96, S.97 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.89, A:S.91, A:S.97 EDO.6: 3 residues within 4Å: Chain A: Q.114, V.115, K.206 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.115, A:K.206 EDO.7: 5 residues within 4Å: Chain A: G.83, S.104, K.105, A.106, K.107 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.105, A:K.105, A:G.108 EDO.8: 4 residues within 4Å: Chain A: D.47, N.82, G.83, K.84 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.47, A:N.82 EDO.9: 6 residues within 4Å: Chain A: E.197, A.198, L.199, H.200, N.201, H.202 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.197, A:N.201 EDO.11: 4 residues within 4Å: Chain B: Q.114, V.115, Y.116, K.206 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.115, B:V.115, B:K.206 EDO.12: 5 residues within 4Å: Chain B: V.46, V.51, L.76, D.79, K.84 2 PLIP interactions: 2 interactions with chain B Water bridges: B:D.79, B:K.84 EDO.13: 3 residues within 4Å: Ligands: NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.1, NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.1, NAG-NAG-BMA-MAN-NAG-MAN-NAG-FUC.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Davies, A.M. et al., Structural Determinants of Unique Properties of Human Igg4-Fc. J.Mol.Biol. (2014)

Release Date

2013-11-13

Peptides

IG GAMMA-4 CHAIN C REGION: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

IG GAMMA-4 CHAIN C REGION

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