SMTL ID : 4idc.1

Structure of the Fragaria x ananassa enone oxidoreductase in complex with NADPH and HDMF

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 26 residues within 4Å: Chain A: P.66, K.70, L.157, T.161, G.181, A.183, G.184, G.185, V.186, T.206, A.207, S.208, K.211, Y.226, A.244, V.245, I.264, V.265, F.275, V.276, L.277, L.318, S.321, R.322, A.323 Ligands: 1XX.2 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:L.157, A:T.161, A:V.186, A:I.264 Hydrogen bonds: A:K.70, A:G.185, A:V.186, A:S.208, A:S.208, A:K.211, A:I.264, A:L.277, A:R.322, A:A.323 Water bridges: A:N.65, A:V.67, A:K.70, A:A.183, A:G.184, A:G.187, A:T.206, A:Y.226, A:A.244, A:V.245, A:E.247, A:E.247, A:E.247 Salt bridges: A:K.211, A:R.322 pi-Stacking: A:Y.226

1 x 1XX: (2R)-4-hydroxy-2,5-dimethylfuran-3(2H)-one(Non-covalent)

1XX.2: 6 residues within 4Å: Chain A: V.67, K.70, L.120, I.264, V.276 Ligands: NDP.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.67, A:V.276 Water bridges: A:V.67, A:K.70

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: R.138, K.280, S.282 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.282 Water bridges: A:R.138, A:K.280, A:S.282 Salt bridges: A:R.138, A:K.280

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 4 residues within 4Å: Chain A: G.174, S.201, D.239, K.256 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.256 Water bridges: A:S.176, A:S.201, A:D.239, A:D.239 EDO.5: 4 residues within 4Å: Chain A: S.148, F.149, I.150, Y.330 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.149, A:I.150 Water bridges: A:S.148

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schiefner, A. et al., Structural basis for the enzymatic formation of the key strawberry flavor compound 4-hydroxy-2,5-dimethyl-3(2H)-furanone. J.Biol.Chem. (2013)

Release Date

2013-04-17

Peptides

Ripening-induced protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ripening-induced protein

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