SMTL ID : 4m1j.1

Crystal structure of Pseudomonas aeruginosa PvdQ in complex with a transition state analogue

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-oligomer

Ligands

1 x B0S: tridecylboronic acid(Covalent)

B0S.1: 13 residues within 4Å: Chain A: S.1, P.22, H.23, F.24, L.50, N.57, T.69, V.70, V.158, W.162, N.269 Chain B: T.139, L.142 16 PLIP interactions: 2 interactions with chain B, 14 interactions with chain A Hydrophobic interactions: B:T.139, B:L.142, A:P.22, A:F.24, A:L.50, A:V.70, A:V.158, A:W.162, A:W.162, A:W.162 Hydrogen bonds: A:S.1, A:H.23, A:V.70, A:N.269 Water bridges: A:N.269, A:R.297

20 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: L.43, D.44, S.61, N.166, Q.167, A.168 Ligand excluded by PLIP GOL.3: 4 residues within 4Å: Chain A: H.121 Chain B: L.70, P.71, I.74 Ligand excluded by PLIP GOL.4: 8 residues within 4Å: Chain A: Y.128, G.129, P.130, L.148, R.149, D.150, L.153 Ligands: GOL.20 Ligand excluded by PLIP GOL.5: 6 residues within 4Å: Chain A: R.149, A.238, W.239, R.241, A.248, G.249 Ligand excluded by PLIP GOL.6: 10 residues within 4Å: Chain A: P.25, N.27, G.28, A.29, M.30, R.31 Chain B: E.45, S.64, A.65, R.141 Ligand excluded by PLIP GOL.7: 5 residues within 4Å: Chain A: T.156, R.157, A.246, Q.247 Ligands: GOL.13 Ligand excluded by PLIP GOL.8: 7 residues within 4Å: Chain A: F.380, A.381, E.382, L.383, G.385, A.386, W.387 Ligand excluded by PLIP GOL.9: 7 residues within 4Å: Chain A: T.38, I.39, P.40, G.41, R.42, L.43, D.44 Ligand excluded by PLIP GOL.10: 3 residues within 4Å: Chain A: Q.282, G.283, F.284 Ligand excluded by PLIP GOL.11: 3 residues within 4Å: Chain A: N.269, D.270, G.295 Ligand excluded by PLIP GOL.12: 6 residues within 4Å: Chain A: L.364, D.365, R.435, G.437, D.438, A.450 Ligand excluded by PLIP GOL.13: 4 residues within 4Å: Chain A: P.243, A.245, A.248 Ligands: GOL.7 Ligand excluded by PLIP GOL.14: 8 residues within 4Å: Chain A: V.371, R.375, E.424, V.425, S.428, I.430, L.439, R.468 Ligand excluded by PLIP GOL.15: 6 residues within 4Å: Chain A: F.76, G.226, L.227, P.228 Chain B: Q.150, F.151 Ligand excluded by PLIP GOL.16: 5 residues within 4Å: Chain A: V.70, W.186 Chain B: E.145, G.146, Q.150 Ligand excluded by PLIP GOL.17: 4 residues within 4Å: Chain B: E.66, L.67, D.68, D.153 Ligand excluded by PLIP GOL.18: 5 residues within 4Å: Chain B: Q.86, W.89, T.132, D.133, L.136 Ligand excluded by PLIP GOL.19: 8 residues within 4Å: Chain B: R.36, F.110, A.114, D.115, G.116, K.117, T.118, T.119 Ligand excluded by PLIP GOL.20: 8 residues within 4Å: Chain A: Q.125, L.153 Chain B: W.78, L.79, Q.81, A.84, R.140 Ligands: GOL.4 Ligand excluded by PLIP GOL.21: 8 residues within 4Å: Chain B: A.43, I.46, V.47, R.50, E.52, Y.56, W.126, R.128 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Clevenger, K.D. et al., Rational Design of a Transition State Analogue with Picomolar Affinity for Pseudomonas aeruginosa PvdQ, a Siderophore Biosynthetic Enzyme. Acs Chem.Biol. (2013)

Release Date

2013-08-28

Peptides

Acyl-homoserine lactone acylase PvdQ subunit beta: A
Acyl-homoserine lactone acylase PvdQ subunit alpha: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
A

Acyl-homoserine lactone acylase PvdQ subunit beta

Acyl-homoserine lactone acylase PvdQ subunit alpha

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