4CVB

Crystal structure of quinone-dependent alcohol dehydrogenase from Pseudogluconobacter saccharoketogenenes

Summary for 4CVB

• Entry DOI: 10.2210/pdb4cvb/pdb
• Related: 4CVC
• Descriptor: ALCOHOL DEHYDROGENASE, CALCIUM ION, PYRROLOQUINOLINE QUINONE, ... (7 entities in total)
• Functional Keywords: oxidoreductase, carbohydrate oxidation, quinoprotein
• Biological source: PSEUDOGLUCONOBACTER SACCHAROKETOGENES
• Total number of polymer chains: 1
• Total formula weight: 62105.26

Authors

Rozeboom, H.J.,Yu, S.,Mikkelsen, R.,Nikolaev, I.,Mulder, H.,Dijkstra, B.W. (deposition date: 2014-03-25, release date: 2015-03-25, Last modification date: 2023-12-20)

Primary citation

Rozeboom, H.J.,Yu, S.,Mikkelsen, R.,Nikolaev, I.,Mulder, H.J.,Dijkstra, B.W.
Crystal Structure of Quinone-Dependent Alcohol Dehydrogenase from Pseudogluconobacter Saccharoketogenes. A Versatile Dehydrogenase Oxidizing Alcohols and Carbohydrates.
Protein Sci., 24:2044-, 2015

PubMed Abstract: The quinone-dependent alcohol dehydrogenase (PQQ-ADH, E.C. 1.1.5.2) from the Gram-negative bacterium Pseudogluconobacter saccharoketogenes IFO 14464 oxidizes primary alcohols (e.g. ethanol, butanol), secondary alcohols (monosaccharides), as well as aldehydes, polysaccharides, and cyclodextrins. The recombinant protein, expressed in Pichia pastoris, was crystallized, and three-dimensional (3D) structures of the native form, with PQQ and a Ca(2+) ion, and of the enzyme in complex with a Zn(2+) ion and a bound substrate mimic were determined at 1.72 Å and 1.84 Å resolution, respectively. PQQ-ADH displays an eight-bladed β-propeller fold, characteristic of Type I quinone-dependent methanol dehydrogenases. However, three of the four ligands of the Ca(2+) ion differ from those of related dehydrogenases and they come from different parts of the polypeptide chain. These differences result in a more open, easily accessible active site, which explains why PQQ-ADH can oxidize a broad range of substrates. The bound substrate mimic suggests Asp333 as the catalytic base. Remarkably, no vicinal disulfide bridge is present near the PQQ, which in other PQQ-dependent alcohol dehydrogenases has been proposed to be necessary for electron transfer. Instead an associated cytochrome c can approach the PQQ for direct electron transfer.

PubMed: 26440996
DOI: 10.1002/PRO.2818

Experimental method

X-RAY DIFFRACTION (1.72 Å)