DFT study of the active site of the XoxF-type natural, cerium-dependent methanol dehydrogenase enzyme

Chemistry. 2015 Jan 19;21(4):1743-8. doi: 10.1002/chem.201405159. Epub 2014 Nov 24.

Abstract

Rare-earth metal cations have recently been demonstrated to be essential co-factors for the growth of the methanotrophic bacterium Methylacidiphilum fumariolicum SolV. A crystal structure of the rare-earth-dependent methanol dehydrogenase (MDH) includes a cerium cation in the active site. Herein, the Ce-MDH active site has been analyzed through DFT calculations. The results show the stability of the Ce(III)-pyrroloquinoline quinone (PQQ) semiquinone configuration. Calculations on the active oxidized form of this complex indicate a 0.81 eV stabilization of the PQQ(0) LUMO at cerium versus calcium, supporting the observation that the cerium cation in the active site confers a competitive advantage to Methylacidiphilum fumariolicum SolV. Using reported aqueous electrochemical data, a semi-empirical correlation was established based on cerium(IV/III) redox potentials. The correlation allowed estimation of the cerium oxidation potential of +1.35 V versus saturated calomel electrode (SCE) in the active site. The results are expected to guide the design of functional model complexes and alcohol-oxidation catalysts based on lanthanide complexes of biologically relevant quinones.

Keywords: cerium; density functional calculations; metalloenzymes; quinones; redox chemistry.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Alcohol Oxidoreductases / chemistry*
  • Alcohol Oxidoreductases / metabolism
  • Catalytic Domain
  • Cerium / chemistry*
  • Cerium / metabolism
  • Crystallography, X-Ray
  • Models, Molecular
  • Oxidation-Reduction
  • PQQ Cofactor / chemistry*
  • PQQ Cofactor / metabolism
  • Verrucomicrobia / chemistry
  • Verrucomicrobia / enzymology*
  • Verrucomicrobia / metabolism

Substances

  • Cerium
  • PQQ Cofactor
  • 2,7,9-tricarboxypyrrolo(2,3-f)quinoline-4-ol-5-one
  • Alcohol Oxidoreductases
  • alcohol dehydrogenase (acceptor)