SMTL ID : 7t6i.1

Crystal structure of HLA-DP1 in complex with pp65 peptide in reverse orientation

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NAG.1: 5 residues within 4Å: Chain A: V.116, N.118, E.166, H.167, W.168 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.116 Water bridges: A:L.117, A:L.117 NAG.2: 3 residues within 4Å: Chain A: R.76, S.77, N.78 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.76, A:N.78 NAG.4: 2 residues within 4Å: Chain B: F.18, N.19 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.18

1 x GLY: GLYCINE(Non-covalent)

GLY.3: 1 residues within 4Å: Chain A: G.183 No protein-ligand interaction detected (PLIP)

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

EDO.5: 3 residues within 4Å: Chain B: F.130, G.133, Q.172 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Klobuch, S. et al., Human T cells recognize HLA-DP-bound peptides in two orientations. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2022-12-07

Peptides

HLA class II histocompatibility antigen DP alpha chain: A
MHC class II antigen: B
pp65 peptide: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

HLA class II histocompatibility antigen DP alpha chain

MHC class II antigen

pp65 peptide