SMTL ID : 5ha9.1

Crystal structure-based design and disovery of a novel PARP1 antiagonist (BL-PA10) that induces apoptosis and inhibits metastasis in triple negative breast cancer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 4.01 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: D.106, R.218, I.219, A.220, Y.229, G.232, K.233, G.234, Y.236 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.219, A:A.220 GOL.4: 6 residues within 4Å: Chain B: D.106, A.220, Y.229, G.234, Y.236 Ligands: TP0.9 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.106, B:A.220, B:G.234, B:Y.236

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

SO4.2: 4 residues within 4Å: Chain A: K.243, L.324, L.325, Y.326 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.325, A:Y.326 Salt bridges: A:K.243 SO4.3: 3 residues within 4Å: Chain A: P.282, K.283 Chain B: K.285 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.283 Salt bridges: B:K.285 SO4.5: 5 residues within 4Å: Chain B: K.243, L.324, L.325, Y.326, E.328 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.325, B:Y.326, B:Y.326 Salt bridges: B:K.243 SO4.6: 2 residues within 4Å: Chain B: K.43, R.44 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.43 Salt bridges: B:K.43, B:R.44 SO4.7: 1 residues within 4Å: Chain B: K.156 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.156 SO4.8: 3 residues within 4Å: Chain B: R.198, M.269, K.289 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.198, B:K.289

1 x TP0: Amitriptyline(Non-covalent)

TP0.9: 11 residues within 4Å: Chain B: E.103, D.110, H.202, G.203, S.204, N.208, I.212, Y.236, S.244, Y.247 Ligands: GOL.4 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:E.103, B:Y.236, B:Y.247, B:Y.247 Salt bridges: B:D.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fu, L. et al., Crystal structure-based discovery of a novel synthesized PARP1 inhibitor (OL-1) with apoptosis-inducing mechanisms in triple-negative breast cancer. Sci Rep (2016)

Release Date

2016-03-09

Peptides

Poly [ADP-ribose] polymerase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Poly [ADP-ribose] polymerase 1