SMTL ID : 6jst.1 (1 other biounit)

Structure of Geobacillus kaustophilus lactonase, Y99P/D266N double mutant with bound 3-oxo-C8-HSL

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

homo-dimer

Ligands

2 x FE: FE (III) ION(Non-covalent)

FE.1: 6 residues within 4Å: Chain A: H.27, H.29, K.149, N.270 Ligands: ZN.2, OH.3 4 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:H.27, A:H.29, H2O.1, OH.3 FE.5: 6 residues within 4Å: Chain B: H.27, H.29, K.149, N.270 Ligands: ZN.6, OH.7 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:H.27, B:H.29, OH.7

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: K.149, H.182, H.210 Ligands: FE.1, OH.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.182, A:H.210, OH.3 ZN.6: 5 residues within 4Å: Chain B: K.149, H.182, H.210 Ligands: FE.5, OH.7 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:H.182, B:H.210, OH.7

2 x OH: HYDROXIDE ION(Non-covalent)

OH.3: 9 residues within 4Å: Chain A: H.27, H.29, K.149, H.182, H.210, N.270 Ligands: FE.1, ZN.2, LAE.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.270 OH.7: 7 residues within 4Å: Chain B: H.27, H.29, K.149, H.210, N.270 Ligands: FE.5, ZN.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.270

1 x LAE: 3-OXO-OCTANOIC ACID (2-OXO-TETRAHYDRO-FURAN-3-YL)-AMIDE(Non-covalent)

LAE.4: 11 residues within 4Å: Chain A: Y.34, R.234, M.240, N.270, V.272, W.275, F.280, L.282, W.293 Chain B: F.115 Ligands: OH.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.272, A:W.275, A:F.280, A:F.280, A:L.282, A:L.282, A:W.293, A:W.293, A:W.293 Hydrogen bonds: A:Y.34, A:R.234

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Go, M.K. et al., Directed Computational Evolution of Quorum-Quenching Lactonases from the Amidohydrolase Superfamily. Structure (2020)

Release Date

2020-04-08

Peptides

Phosphotriesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phosphotriesterase

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