SMTL ID : 6u3m.1 (1 other biounit)

DQ2-P.fluor-alpha1a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 7 residues within 4Å: Chain A: Y.19, V.118, N.120, E.168, H.169, W.170 Chain B: P.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.19 NAG-NAG.2: 2 residues within 4Å: Chain B: N.25, E.28 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: L.110, D.112, K.142, F.148 Chain B: R.155 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.142, A:K.142, B:R.155 Water bridges: B:L.153 GOL.4: 4 residues within 4Å: Chain A: F.56, D.57, F.60 Chain C: P.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.57, A:D.57, A:D.57

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 2 residues within 4Å: Chain B: R.83, H.87 6 PLIP interactions: 6 interactions with chain B Water bridges: B:D.82, B:R.83, B:R.83, B:H.87 Salt bridges: B:R.83, B:H.87

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Petersen, J. et al., T cell receptor cross-reactivity between gliadin and bacterial peptides in celiac disease. Nat.Struct.Mol.Biol. (2020)

Release Date

2019-12-18

Peptides

HLA class II histocompatibility antigen, DQ alpha 1 chain: A
MHC class II HLA-DQ-beta-1: B
Alpha1a peptide: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
F

HLA class II histocompatibility antigen, DQ alpha 1 chain

MHC class II HLA-DQ-beta-1

Alpha1a peptide

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