SMTL ID : 7kg8.1

Structure of human PARG complexed with PARG-061

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.43 Å

Oligo State

monomer

Ligands

1 x WDM: 1,3-dimethyl-8-{[2-(morpholin-4-yl)-2-oxoethyl]sulfanyl}-6-sulfanylidene-1,3,6,7-tetrahydro-2H-purin-2-one(Non-covalent)

WDM.1: 18 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, A.429, F.430, F.455, F.457 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.281, A:Q.309, A:A.429 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:K.485 Salt bridges: A:D.482 DMS.3: 6 residues within 4Å: Chain A: Y.57, C.70, S.71, E.72, W.91, P.160 No protein-ligand interaction detected (PLIP) DMS.4: 4 residues within 4Å: Chain A: W.61, K.67, Q.73, R.199 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.61, A:K.67, A:R.199, A:R.199 DMS.7: 8 residues within 4Å: Chain A: E.282, E.283, Q.343, H.360, E.361, D.362, G.363, S.364 3 PLIP interactions: 3 interactions with chain A Water bridges: A:T.374, A:T.374 Salt bridges: A:D.362

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

SO4.5: 5 residues within 4Å: Chain A: P.212, D.213, F.297, G.300, R.324 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.213, A:D.213 Salt bridges: A:R.324 SO4.6: 5 residues within 4Å: Chain A: N.63, L.169, E.207, Y.208, Y.211 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.208 Water bridges: A:D.62

1 x CAC: CACODYLATE ION(Non-covalent)

CAC.8: 2 residues within 4Å: Chain A: R.496, N.497 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.496, A:R.496

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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