SMTL ID : 5nqw.1

IgE-Fc in complex with single domain antibody 026

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.40 Å

Oligo State

hetero-2-2-mer

Ligands

2 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[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-MAN-MAN-MAN.1: 12 residues within 4Å: Chain A: Y.6, S.8, R.9, S.11, L.26, V.28, L.30, Q.59, N.61, T.63, Q.161 Chain B: R.163 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.6, A:Y.6 NAG-NAG-BMA-MAN-MAN-MAN-MAN.2: 11 residues within 4Å: Chain A: R.163 Chain B: Y.6, R.9, S.11, L.26, L.30, Q.59, N.61, T.63, T.65, Q.161 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.6

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain B: G.167 Chain C: V.38, P.46, P.107, N.108, F.110, Y.113 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.108, C:Y.113 GOL.4: 8 residues within 4Å: Chain A: P.106, M.137, G.167 Chain D: V.38, P.46, N.108, F.110, Y.113 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:N.108, A:G.167

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jabs, F. et al., Trapping IgE in a closed conformation by mimicking CD23 binding prevents and disrupts Fc epsilon RI interaction. Nat Commun (2018)

Release Date

2018-01-17

Peptides

Immunoglobulin heavy constant epsilon: AB
026: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Immunoglobulin heavy constant epsilon

026