SMTL ID : 7n19.2 (3 other biounits)

DR3 in complex with Aspergillus nidulans NAD-dependent histone deacetylase hst4 peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.38 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 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: 5 residues within 4Å: Chain A: V.116, N.118, E.166, H.167, W.168 No protein-ligand interaction detected (PLIP)

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

EDO.2: 2 residues within 4Å: Chain A: R.164, L.175 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.164 EDO.4: 5 residues within 4Å: Chain A: R.44, N.94, V.104, Y.150 Chain B: D.149 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.44, A:N.94 Water bridges: A:S.133 EDO.5: 3 residues within 4Å: Chain B: Q.89, R.90, R.91 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.91 EDO.6: 4 residues within 4Å: Chain B: S.123, E.173, H.174, P.175 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.174 EDO.7: 2 residues within 4Å: Chain B: H.108, H.109 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.109 EDO.8: 4 residues within 4Å: Chain B: F.129, G.132, T.169, Q.171 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.169, B:T.169, B:Q.171 Water bridges: B:G.132

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

NAG.3: 1 residues within 4Å: Chain A: N.78 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Greaves, S.A. et al., CD4+ T cells in the lungs of acute sarcoidosis patients recognize an Aspergillus nidulans epitope. J.Exp.Med. (2021)

Release Date

2021-08-18

Peptides

HLA class II histocompatibility antigen, DR alpha chain: A
HLA class II histocompatibility antigen DR beta chain: B
HST4 peptide: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

HLA class II histocompatibility antigen, DR alpha chain

HLA class II histocompatibility antigen DR beta chain

HST4 peptide

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