SMTL ID : 3wfj.2 (3 other biounits)

The complex structure of D-mandelate dehydrogenase with NADH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 18 residues within 4Å: Chain A: G.9, A.10, M.11, D.30, W.32, H.35, F.77, T.78, K.79, Q.82, L.104, N.105, W.129, T.130, A.131, L.133, R.270, E.273 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:A.10, A:M.11, A:D.30, A:T.78, A:Q.82, A:N.105, A:N.105, A:A.131, A:A.131, A:R.270, A:E.273 Salt bridges: A:K.79, A:K.79, A:R.270 pi-Stacking: A:W.32, A:W.32 pi-Cation interactions: A:R.270 NAD.2: 22 residues within 4Å: Chain B: G.7, A.8, G.9, A.10, M.11, D.30, W.32, H.35, F.77, T.78, K.79, Q.82, L.104, N.105, T.127, W.129, T.130, A.131, L.133, K.187, R.270, E.273 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:T.127 Hydrogen bonds: B:A.8, B:G.9, B:A.10, B:M.11, B:D.30, B:T.78, B:Q.82, B:N.105, B:N.105, B:A.131, B:A.131, B:R.270, B:E.273 Water bridges: B:L.133 Salt bridges: B:K.79, B:K.79, B:R.270 pi-Stacking: B:W.32 pi-Cation interactions: B:R.270

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miyanaga, A. et al., The crystal structure of D-mandelate dehydrogenase reveals its distinct substrate and coenzyme recognition mechanisms from those of 2-ketopantoate reductase. Biochem.Biophys.Res.Commun. (2013)

Release Date

2014-07-23

Peptides

2-dehydropantoate 2-reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
G

2-dehydropantoate 2-reductase

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