SMTL ID : 7n19.4 (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: 4 residues within 4Å: Chain A: V.116, N.118, E.166, W.168 No protein-ligand interaction detected (PLIP)

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

EDO.2: 6 residues within 4Å: Chain A: E.40, T.41, F.54, E.55, A.56 Ligands: EDO.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.41, A:E.55, A:A.56 EDO.3: 1 residues within 4Å: Ligands: EDO.2 No protein-ligand interaction detected (PLIP) EDO.4: 4 residues within 4Å: Chain A: R.44, V.104, Y.150 Chain B: D.149 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.44, A:R.44 EDO.5: 5 residues within 4Å: Chain B: I.124, E.125, V.126, S.141, T.154 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:I.124, B:V.126, B:S.141, B:T.154, B:T.154 EDO.6: 4 residues within 4Å: Chain B: K.136, T.137, G.138, V.139 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.138, B:V.139, B:V.139 EDO.7: 2 residues within 4Å: Chain B: S.164, G.165 No protein-ligand interaction detected (PLIP) EDO.8: 4 residues within 4Å: Chain B: Q.67, R.71 Ligands: EDO.9, EDO.11 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.67, B:R.71, B:R.71, B:N.74 EDO.9: 3 residues within 4Å: Chain B: E.66, Q.67 Ligands: EDO.8 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.67 EDO.11: 5 residues within 4Å: Chain B: N.74, Y.75 Chain C: G.4, S.5 Ligands: EDO.8 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.74

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

NAG.10: 2 residues within 4Å: Chain B: N.16, E.19 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
J

B
K

C
L

HLA class II histocompatibility antigen, DR alpha chain

HLA class II histocompatibility antigen DR beta chain

HST4 peptide

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