SMTL ID : 2wyb.1

THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ WITH A COVALENTLY BOUND DODECANOIC ACID

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-oligomer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: E.70, L.71, D.72, D.157 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.72, A:D.157 Water bridges: A:D.157, A:D.157 GOL.2: 7 residues within 4Å: Chain A: E.149, G.150, Q.154 Chain B: F.24, M.30, V.70, W.186 No protein-ligand interaction detected (PLIP) GOL.4: 3 residues within 4Å: Chain B: T.156, R.157, A.246 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.156, B:T.156, B:R.157 GOL.5: 7 residues within 4Å: Chain B: Q.357, W.358, D.359, D.365, S.366, G.367, R.435 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.357, B:D.359, B:D.359, B:D.365, B:G.367, B:R.435 GOL.6: 5 residues within 4Å: Chain A: I.78, V.160 Chain B: V.119, E.120, H.121 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.120 GOL.7: 6 residues within 4Å: Chain B: L.364, D.365, R.435, G.437, D.438, A.450 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:L.364, B:G.437

1 x DAO: LAURIC ACID(Covalent)

DAO.3: 13 residues within 4Å: Chain A: L.146 Chain B: S.1, P.22, H.23, F.24, L.53, N.57, H.68, T.69, V.70, V.158, W.162, N.269 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:P.22, B:F.24, B:F.24, B:L.53, B:V.158, B:W.162, A:L.146 Hydrogen bonds: B:S.1, B:V.70, B:N.269

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bokhove, M. et al., The Quorum-Quenching N-Acyl Homoserine Lactone Acylase Pvdq is an Ntn-Hydrolase with an Unusual Substrate-Binding Pocket. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2009-12-29

Peptides

ACYL-HOMOSERINE LACTONE ACYLASE PVDQ SUBUNIT ALPHA: A
ACYL-HOMOSERINE LACTONE ACYLASE PVDQ SUBUNIT BETA: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ACYL-HOMOSERINE LACTONE ACYLASE PVDQ SUBUNIT ALPHA

ACYL-HOMOSERINE LACTONE ACYLASE PVDQ SUBUNIT BETA

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