SMTL ID : 9frt.2 (1 other biounit)

Crystal structure of trans-o-hydroxybenzylidenepyruvate hydratase-aldolase from Pseudomonas fluorescens N3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-tetramer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: A.168, P.170, D.176, F.177, R.179, W.182, Y.196, L.197, G.198 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:A.168, A:F.177, A:R.179, A:L.197, A:G.198 Water bridges: A:G.198, A:D.205 GOL.4: 9 residues within 4Å: Chain B: A.168, P.170, D.176, F.177, R.179, W.182, Y.196, L.197, G.198 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:F.177, B:R.179, B:L.197 Water bridges: B:R.179, B:G.198, B:M.201 GOL.6: 9 residues within 4Å: Chain C: A.168, P.170, D.176, F.177, R.179, W.182, Y.196, L.197, G.198 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:F.177, C:R.179, C:L.197, C:G.198 Water bridges: C:R.179, C:G.198, C:G.198 GOL.9: 8 residues within 4Å: Chain D: A.168, D.176, F.177, R.179, W.182, Y.196, L.197, G.198 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:R.179, D:W.182, D:L.197, D:L.197

8 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 6 residues within 4Å: Chain A: G.76, T.77, F.78, Y.167, K.195, N.293 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:T.77, A:F.78, A:Y.167, A:Y.167, A:N.293 Water bridges: A:G.76, A:G.79 Salt bridges: A:K.195 PO4.3: 4 residues within 4Å: Chain A: D.144, L.145 Chain C: K.291, Y.292 9 PLIP interactions: 1 interactions with chain A, 6 interactions with chain C, 2 interactions with chain B Hydrogen bonds: A:L.145, C:Y.292 Water bridges: C:K.291, C:K.291, C:K.291, C:K.291, B:D.285, B:D.285 Salt bridges: C:K.291 PO4.5: 7 residues within 4Å: Chain B: I.34, G.76, T.77, F.78, Y.167, K.195, N.293 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:T.77, B:F.78, B:Y.167, B:N.293, B:N.293 Water bridges: B:G.76, B:G.79, B:N.169, B:N.169 Salt bridges: B:K.195 PO4.7: 6 residues within 4Å: Chain C: G.76, T.77, F.78, Y.167, K.195, N.293 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:T.77, C:F.78, C:Y.167, C:Y.167, C:N.169, C:N.293 Water bridges: C:G.76, C:G.79 Salt bridges: C:K.195 PO4.8: 4 residues within 4Å: Chain A: K.291, Y.292 Chain C: D.144, L.145 9 PLIP interactions: 5 interactions with chain A, 3 interactions with chain C, 1 interactions with chain D Hydrogen bonds: A:Y.292, C:L.145 Water bridges: A:K.291, A:K.291, A:K.291, C:K.142, C:K.142, D:R.283 Salt bridges: A:K.291 PO4.10: 6 residues within 4Å: Chain D: G.76, T.77, F.78, Y.167, K.195, N.293 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:T.77, D:F.78, D:Y.167, D:Y.167, D:N.293 Water bridges: D:G.76, D:G.79 Salt bridges: D:K.195 PO4.11: 3 residues within 4Å: Chain B: K.291 Chain D: D.144, L.145 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain D Water bridges: B:K.291, B:K.291, B:K.291, B:K.291, B:K.291, B:Y.292, D:D.144 Salt bridges: B:K.291 Hydrogen bonds: D:L.145 PO4.12: 4 residues within 4Å: Chain C: R.226, W.263 Chain D: R.226, W.263 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:R.226, C:R.226 Salt bridges: D:R.226, C:R.226

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ferrara, S. et al., Structural snapshots of the aldol condensation reaction of the enzyme trans-o-hydroxybenzylidenepyruvate hydratase-aldolase from Pseudomonas fluorescens N3. Biochem.Biophys.Res.Commun. (2025)

Release Date

2025-06-25

Peptides

Trans-O-hydroxybenzylidenepyruvate hydratase-aldolase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
J

D
K

Trans-O-hydroxybenzylidenepyruvate hydratase-aldolase

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