SMTL ID : 7kg7.1

Structure of human PARG complexed with PARG-292

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x WDJ: 8-{[2-(1,1-dioxo-1lambda~6~,4-thiazinan-4-yl)ethyl]sulfanyl}-1,3-dimethyl-3,7-dihydro-1H-purine-2,6-dione(Non-covalent)

WDJ.1: 16 residues within 4Å: Chain A: T.280, I.281, E.282, F.293, V.308, Q.309, I.312, Y.347, Y.350, T.422, G.423, N.424, C.427, G.428, F.455, F.457 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.281 Water bridges: A:N.424 pi-Stacking: A:F.457, A:F.457

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 8 residues within 4Å: Chain A: E.264, R.265, C.266, E.267, T.479, G.481, D.482, K.485 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.479 Salt bridges: A:D.482 DMS.3: 8 residues within 4Å: Chain A: P.31, V.37, I.39, R.40, V.41, D.42, F.53, Q.165 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.41 pi-Cation interactions: A:F.53 DMS.4: 8 residues within 4Å: Chain A: E.283, Q.343, H.360, E.361, D.362, G.363, S.364, T.374 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.362 DMS.5: 6 residues within 4Å: Chain A: Y.57, C.70, S.71, E.72, W.91, P.160 No protein-ligand interaction detected (PLIP)

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

SO4.6: 8 residues within 4Å: Chain A: Y.76, R.90, L.93, K.114, Y.115, N.116, V.117, A.118 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.114, A:V.117 Water bridges: A:R.90, A:A.118 Salt bridges: A:R.90 SO4.7: 7 residues within 4Å: Chain A: P.27, L.28, L.29, V.41, L.44, D.368, W.369 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.27, A:L.29, A:W.369 SO4.8: 4 residues within 4Å: Chain A: T.280, Y.347, T.348, G.349 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.347 Water bridges: A:T.280, A:T.280, A:Y.347, A:G.349 SO4.9: 5 residues within 4Å: Chain A: N.63, L.169, E.207, Y.208, Y.211 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.208 Water bridges: A:N.63, A:Y.211 SO4.10: 6 residues within 4Å: Chain A: R.90, Y.119, P.198, R.199, R.200, N.201 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.119, A:R.199, A:N.201 Water bridges: A:Y.119, A:N.201 Salt bridges: A:R.90, A:R.199

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brosey, C.A. et al., Targeting SARS-CoV-2 Nsp3 macrodomain structure with insights from human poly(ADP-ribose) glycohydrolase (PARG) structures with inhibitors. Prog.Biophys.Mol.Biol. (2021)

Release Date

2021-03-10

Peptides

Poly(ADP-ribose) glycohydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Poly(ADP-ribose) glycohydrolase

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