SMTL ID : 8adj.1 (2 other biounits)

Poly(ADP-ribose) glycohydrolase (PARG) from Drosophila melanogaster in complex with PARG inhibitor PDD00017272

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.51 Å

Oligo State

monomer

Ligands

1 x LQX: 1-[(2,5-dimethylpyrazol-3-yl)methyl]-N-(1-methylcyclopropyl)-3-[(2-methyl-1,3-thiazol-5-yl)methyl]-2,4-bis(oxidanylidene)quinazoline-6-sulfonamide(Non-covalent)

LQX.1: 12 residues within 4Å: Chain A: G.329, T.330, I.331, E.332, Q.359, I.362, R.363, Y.397, Y.400, T.504, F.505, N.507 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:T.330, A:Q.359, A:I.362, A:R.363, A:Y.400, A:N.507 Hydrogen bonds: A:I.331, A:E.332, A:Q.359 pi-Stacking: A:Y.400, A:F.505, A:F.505

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: W.100, R.106, R.238 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.106, A:R.106, A:R.238, A:R.238 Water bridges: A:S.102 GOL.3: 2 residues within 4Å: Chain A: H.307, W.460 No protein-ligand interaction detected (PLIP)

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 5 residues within 4Å: Chain A: Y.158, R.238, R.239, N.240, T.241 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.158, A:R.238, A:N.240, A:N.240, A:T.241 SO4.5: 5 residues within 4Å: Chain A: R.239, T.241, Y.248, F.251, P.252 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.239 SO4.6: 4 residues within 4Å: Chain A: A.316, A.494, Q.495, G.497 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.495

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 2 residues within 4Å: Chain A: R.117, R.135 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fontana, P. et al., Serine ADP-ribosylation in Drosophila provides insights into the evolution of reversible ADP-ribosylation signalling. Nat Commun (2023)

Release Date

2023-06-14

Peptides

Poly(ADP-ribose) glycohydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Poly(ADP-ribose) glycohydrolase

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