SMTL ID : 6zcv.1

Crystal structure of lanthanide-dependent alcohol dehydrogenase PedH from Pseudomonas putida KT2440

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: N.188, K.190, P.305, D.306 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.306

1 x PQQ: PYRROLOQUINOLINE QUINONE(Non-covalent)

PQQ.2: 25 residues within 4Å: Chain A: Q.87, C.131, C.132, I.135, R.137, S.181, A.196, G.197, G.198, E.199, A.261, W.263, G.280, N.281, D.323, D.325, R.350, L.413, N.417, W.418, W.493, G.556, A.557 Ligands: PR.3, GOL.4 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:W.263, A:W.263, A:A.557 Hydrogen bonds: A:Q.87, A:R.137, A:S.181, A:G.197, A:G.198, A:W.263, A:R.350, A:R.350, A:N.417, A:W.493, A:A.557 Water bridges: A:C.131, A:E.199, A:E.199, A:A.261 Salt bridges: A:R.137, A:R.137 pi-Stacking: A:W.263, A:W.263

1 x PR: PRASEODYMIUM ION(Non-covalent)

PR.3: 7 residues within 4Å: Chain A: E.199, W.263, N.281, D.323, D.325, R.350 Ligands: PQQ.2 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.199, A:E.199, A:D.323, A:D.325, A:D.325

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 11 residues within 4Å: Chain A: C.131, C.132, E.199, W.285, D.323, R.350, V.412, L.413, F.459, A.557 Ligands: PQQ.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.199, A:D.323, A:R.350

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wehrmann, M. et al., Engineered PQQ-Dependent Alcohol Dehydrogenase for the Oxidation of 5-(Hydroxymethyl)furoic Acid. Acs Catalysis (2020)

Release Date

2020-07-15

Peptides

Quinoprotein ethanol dehydrogenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Quinoprotein ethanol dehydrogenase