SMTL ID : 9ejh.1

Peptide-independent T cell receptor recognition of HLA-DQ2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

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

Ligands

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose

NAG.1: 4 residues within 4Å: Chain A: V.118, N.120, E.168, W.170 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.118 Hydrogen bonds: A:N.120 Water bridges: A:Y.19 NAG.3: 4 residues within 4Å: Chain B: T.18, N.19, E.22, R.23 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:T.18 Hydrogen bonds: B:N.19

4 x ACT: ACETATE ION

ACT.2: 2 residues within 4Å: Chain B: D.135, T.185 No protein-ligand interaction detected (PLIP) ACT.4: 3 residues within 4Å: Chain B: Q.126, I.127, P.178 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.126 ACT.6: 6 residues within 4Å: Chain D: Q.96, K.97, L.98 Chain E: E.47, N.55, E.97 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: E:E.97 Hydrogen bonds: E:E.47, D:L.98 Water bridges: E:S.32 ACT.7: 3 residues within 4Å: Chain E: R.62, T.79, E.81 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:E.81 Salt bridges: E:R.62

1 x GOL: GLYCEROL

GOL.5: 7 residues within 4Å: Chain A: I.3, V.4 Chain B: Y.16, F.17, T.18, R.23, R.25 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.18, B:T.18, B:R.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lim, J.J. et al., WITHHELD AT REQUEST OF AUTHORS. To Be Published

Release Date

2025-03-26

Peptides

HLA class II histocompatibility antigen, DQ alpha 1 chain: A
MHC class II HLA-DQ-beta-1: B
HLA class II histocompatibility antigen gamma chain: C
G9 T cell receptor alpha chain: D
G9 T cell receptor beta chain: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

HLA class II histocompatibility antigen, DQ alpha 1 chain

MHC class II HLA-DQ-beta-1

HLA class II histocompatibility antigen gamma chain

G9 T cell receptor alpha chain

G9 T cell receptor beta chain

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