SMTL ID : 7z50.1 (1 other biounit)

Structure of the highly diabetogenic 4.1-T cell receptor targeting a hybrid insulin peptide bound to I-Ag7.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

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

Ligands

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 3 residues within 4Å: Chain A: N.122, E.170, W.172 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.122 NAG.3: 2 residues within 4Å: Chain B: N.45, Q.48 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.45

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

EDO.2: 4 residues within 4Å: Chain A: P.106, N.107, T.108, T.156 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.108 EDO.4: 5 residues within 4Å: Chain B: K.89, Q.90, L.92, E.93 Chain C: Q.96 10 PLIP interactions: 4 interactions with chain B, 6 interactions with chain C Hydrogen bonds: B:N.88, B:L.92, B:E.93, C:Q.96 Water bridges: B:R.94, C:N.99, C:N.99, C:N.99, C:N.99, C:N.99 EDO.5: 7 residues within 4Å: Chain C: R.35, P.60, R.63, F.64, Q.84, D.85, Y.89 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.35, C:R.35, C:R.63

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 5 residues within 4Å: Chain C: Q.40, L.42 Chain D: F.102, G.103, A.104 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Erausquin, E. et al., Structural plasticity in I-A g7 links autoreactivity to hybrid insulin peptides in type I diabetes. Front Immunol (2022)

Release Date

2022-07-20

Peptides

H-2 class II histocompatibility antigen, A-D alpha chain: A
H2-Ab1 protein: B
4.1 TCR beta chain: C
4.1 TCR alpha chain: D
Hybrid insulin peptide: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

D
H

E
T

H-2 class II histocompatibility antigen, A-D alpha chain

H2-Ab1 protein

4.1 TCR beta chain

4.1 TCR alpha chain

Hybrid insulin peptide

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