SMTL ID : 7ons.1 (1 other biounit)

PARP1 catalytic domain in complex with isoquinolone-based inhibitor (compound 16)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

monomer

Ligands

1 x VKT: 7-[[4-(1,5-dimethylimidazol-2-yl)piperazin-1-yl]methyl]-3-ethyl-1~{H}-quinolin-2-one(Non-covalent)

VKT.1: 16 residues within 4Å: Chain A: D.107, N.108, L.110, D.111, H.203, G.204, N.209, R.219, I.220, A.221, Y.237, F.238, A.239, K.244, S.245, Y.248 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.110, A:Y.237, A:A.239 Hydrogen bonds: A:G.204, A:G.204 Water bridges: A:N.108 pi-Stacking: A:Y.248, A:Y.248

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

SO4.2: 5 residues within 4Å: Chain A: K.244, L.325, L.326, Y.327, E.329 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.326, A:Y.327, A:E.329 Salt bridges: A:K.244 SO4.3: 5 residues within 4Å: Chain A: E.181, G.184, E.185, C.186, Q.187 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.181, A:G.184, A:G.184, A:C.186, A:Q.187 Water bridges: A:E.185, A:E.185 SO4.4: 3 residues within 4Å: Chain A: R.199, M.270, K.290 4 PLIP interactions: 4 interactions with chain A Water bridges: A:E.272, A:K.290 Salt bridges: A:R.199, A:K.290

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johannes, J.W. et al., Discovery of 5-{4-[(7-Ethyl-6-oxo-5,6-dihydro-1,5-naphthyridin-3-yl)methyl]piperazin-1-yl}- N -methylpyridine-2-carboxamide (AZD5305): A PARP1-DNA Trapper with High Selectivity for PARP1 over PARP2 and Other PARPs. J.Med.Chem. (2021)

Release Date

2021-09-15

Peptides

Poly [ADP-ribose] polymerase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Poly [ADP-ribose] polymerase 1

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