SMTL ID : 8a8i.1

Xenobiotic reductase A from Pseudomonas putida in complex with ethyl (Z)-2-(hydroxyimino)-3-oxobutanoate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 18 residues within 4Å: Chain A: P.22, P.23, M.24, C.25, A.57, Q.99, H.178, H.181, R.231, A.301, W.302, G.303, S.323, V.324, G.325, R.326 Chain B: W.358 Ligands: L9I.2 19 PLIP interactions: 17 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:M.24, A:R.326, B:W.358, B:W.358 Hydrogen bonds: A:P.23, A:C.25, A:A.57, A:Q.99, A:Q.99, A:R.231, A:R.231, A:W.302, A:G.303, A:G.325, A:R.326 Water bridges: A:F.304, A:G.305, A:A.327 Salt bridges: A:R.326 FMN.5: 18 residues within 4Å: Chain A: W.358 Chain B: P.22, P.23, M.24, C.25, A.57, Q.99, H.178, H.181, R.231, A.301, W.302, G.303, V.324, G.325, R.326, L.329 Ligands: L9I.6 21 PLIP interactions: 20 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:M.24, B:R.326, B:L.329, A:W.358 Hydrogen bonds: B:P.23, B:C.25, B:A.57, B:Q.99, B:Q.99, B:H.181, B:R.231, B:R.231, B:W.302, B:G.303, B:G.325, B:R.326 Water bridges: B:F.304, B:G.305, B:S.323, B:A.327 Salt bridges: B:R.326

2 x L9I: ethyl (2Z)-2-hydroxyimino-3-oxidanylidene-butanoate(Non-covalent)

L9I.2: 10 residues within 4Å: Chain A: C.25, Y.27, I.66, H.178, H.181, Y.183, F.269, W.302 Chain B: W.358 Ligands: FMN.1 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.269, B:W.358 Hydrogen bonds: A:H.178, A:Y.183 Salt bridges: A:H.181 L9I.6: 8 residues within 4Å: Chain B: A.57, I.66, H.178, H.181, Y.183, F.269, W.302 Ligands: FMN.5 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:A.57, B:I.66, B:Y.183, B:F.269 Hydrogen bonds: B:Y.27, B:H.181 Salt bridges: B:H.181

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 8 residues within 4Å: Chain A: A.281, G.284, F.304, L.309, A.312, A.313, A.316, Q.318 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.281, A:A.312, A:A.313, A:A.316 Hydrogen bonds: A:Q.318 Water bridges: A:A.281

2 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.4: 4 residues within 4Å: Chain A: R.291, L.314, N.317, L.319 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.314, A:L.319 Water bridges: A:R.291 TRS.7: 6 residues within 4Å: Chain B: A.3, R.18, R.291, L.314, N.317, L.319 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.314, B:L.319 Water bridges: B:A.3, B:R.291

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Breukelaar, W.B. et al., Mechanistic Insights into the Ene-Reductase-Catalyzed Promiscuous Reduction of Oximes to Amines. Acs Catalysis (2023)

Release Date

2023-03-01

Peptides

Xenobiotic reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Xenobiotic reductase

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