SMTL ID : 9etq.1 (1 other biounit)

Crystal structure of PARP1 catalytic domain bound to AZD5305 (SARUPARIB)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

monomer

Ligands

1 x 01: 5-[4-[(7-ethyl-6-oxidanylidene-5~{H}-1,5-naphthyridin-3-yl)methyl]piperazin-1-yl]-~{N}-methyl-pyridine-2-carboxamide

01.1: 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, P.222, Y.237, F.238, A.239, S.245, Y.248 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.110, A:Y.237, A:A.239, A:Y.248 Hydrogen bonds: A:G.204, A:G.204, A:I.220 Water bridges: A:N.108, A:Y.237 pi-Stacking: A:Y.248, A:Y.248

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

SO4.2: 4 residues within 4Å: Chain A: K.244, L.325, L.326, Y.327 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.326, A:Y.327 Water bridges: A:E.329 Salt bridges: A:K.244 SO4.3: 3 residues within 4Å: Chain A: S.43, K.44, R.45 7 PLIP interactions: 7 interactions with chain A Water bridges: A:K.44, A:K.44, A:K.44, A:K.44, A:K.44 Salt bridges: A:K.44, A:R.45 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:K.290, A:K.290 Salt bridges: A:R.199, A:K.290 SO4.5: 3 residues within 4Å: Chain A: K.139, S.215, Q.216 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.216 Salt bridges: A:K.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johannes, J.W. et al., Discovery of 6-Fluoro-5-{4-[(5-fluoro-2-methyl-3-oxo-3,4-dihydroquinoxalin-6-yl)methyl]piperazin-1-yl}- N -methylpyridine-2-carboxamide (AZD9574): A CNS-Penetrant, PARP1-Selective Inhibitor. J.Med.Chem. (2024)

Release Date

2024-12-04

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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