SMTL ID : 8ywa.1

The structure of IgE receptor binding to IgE

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-1-1-2-mer

Ligands

9 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.1: 5 residues within 4Å: Chain A: R.355, V.382, D.383, Q.413, N.415 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.383, A:N.415 NAG.2: 7 residues within 4Å: Chain B: V.382, D.383, N.415, T.417 Chain E: K.139, I.141, K.176 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.383, B:N.415 NAG.3: 1 residues within 4Å: Chain E: N.72 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.72 NAG.4: 3 residues within 4Å: Chain E: G.122, T.161, N.162 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.162 NAG.5: 2 residues within 4Å: Chain E: T.170, N.188 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.188 NAG.6: 3 residues within 4Å: Chain E: N.64, E.83, S.85 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:E.83 Hydrogen bonds: E:N.64, E:E.83 NAG.7: 2 residues within 4Å: Chain E: G.41, N.43 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.43 NAG.8: 1 residues within 4Å: Chain E: N.96 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.96 NAG.9: 3 residues within 4Å: Chain E: W.35, F.126, N.157 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, M. et al., Molecular mechanism of IgE-mediated Fc epsilon RI activation. Nature (2024)

Release Date

2024-11-06

Peptides

Immunoglobulin heavy constant epsilon: AB
Immunoglobulin kappa constant: CD
High affinity immunoglobulin epsilon receptor subunit alpha: E
High affinity immunoglobulin epsilon receptor subunit beta: F
High affinity immunoglobulin epsilon receptor subunit gamma: GH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
X

C
h

D
x

E
A

F
B

G
D

H
C

Membrane

We predict this structure to be a membrane protein.
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Immunoglobulin heavy constant epsilon

Immunoglobulin kappa constant

High affinity immunoglobulin epsilon receptor subunit alpha

High affinity immunoglobulin epsilon receptor subunit beta

High affinity immunoglobulin epsilon receptor subunit gamma