SMTL ID : 9r0q.1

Paraoxonase-1 in complex with terbium(III) and 2-hydroxyquinoline

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

2 x TB: TERBIUM(III) ION(Non-covalent)

TB.1: 7 residues within 4Å: Chain A: E.58, N.173, N.229, D.274, N.275 Ligands: CA.3, OCH.5 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.58, A:D.274, H2O.2 TB.2: 5 residues within 4Å: Chain A: D.59, I.122, D.174, I.175 Ligands: CA.4 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.59, A:I.122, A:D.174, H2O.1, H2O.1

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 7 residues within 4Å: Chain A: E.58, N.173, N.229, D.274, N.275 Ligands: TB.1, OCH.5 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.58, A:D.274, H2O.2 CA.4: 5 residues within 4Å: Chain A: D.59, I.122, D.174, I.175 Ligands: TB.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.59, A:I.122, A:D.174, H2O.1, H2O.1

2 x OCH: QUINOLIN-2(1H)-ONE(Non-covalent)

OCH.5: 12 residues within 4Å: Chain A: E.58, Y.76, I.79, H.120, N.173, N.229, D.274, H.290, I.296, F.297 Ligands: TB.1, CA.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.76, A:I.79, A:I.296, A:F.297, A:F.297 Hydrogen bonds: A:N.173, A:D.274 OCH.6: 2 residues within 4Å: Chain A: Y.190, E.223 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.190 Hydrogen bonds: A:E.223 pi-Stacking: A:W.207, A:W.207, A:W.207

2 x BR: BROMIDE ION(Non-covalent)

BR.7: 4 residues within 4Å: Chain A: P.291, N.292, R.295, G.306 Ligand excluded by PLIP BR.8: 3 residues within 4Å: Chain A: F.191, I.192, D.193 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smerkolj, J. et al., Intramolecular sensitization and structure of a Tb3+/2-hydroxyquinoline conjugate in the paraoxonase 1 active site. Dalton Trans (2025)

Release Date

2025-08-06

Peptides

Serum paraoxonase/arylesterase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Serum paraoxonase/arylesterase 1