Directed evolution of prenylated FMN-dependent Fdc supports efficient in vivo isobutene production

Nat Commun. 2021 Sep 6;12(1):5300. doi: 10.1038/s41467-021-25598-0.

Abstract

Isobutene is a high value gaseous alkene used as fuel additive and a chemical building block. As an alternative to fossil fuel derived isobutene, we here develop a modified mevalonate pathway for the production of isobutene from glucose in vivo. The final step in the pathway consists of the decarboxylation of 3-methylcrotonic acid, catalysed by an evolved ferulic acid decarboxylase (Fdc) enzyme. Fdc belongs to the prFMN-dependent UbiD enzyme family that catalyses reversible decarboxylation of (hetero)aromatic acids or acrylic acids with extended conjugation. Following a screen of an Fdc library for inherent 3-methylcrotonic acid decarboxylase activity, directed evolution yields variants with up to an 80-fold increase in activity. Crystal structures of the evolved variants reveal that changes in the substrate binding pocket are responsible for increased selectivity. Solution and computational studies suggest that isobutene cycloelimination is rate limiting and strictly dependent on presence of the 3-methyl group.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alkenes / chemistry
  • Alkenes / metabolism*
  • Biocatalysis
  • Carboxy-Lyases / genetics
  • Carboxy-Lyases / metabolism*
  • Crotonates / metabolism
  • Directed Molecular Evolution / methods
  • Escherichia coli / enzymology*
  • Escherichia coli / genetics
  • Escherichia coli Proteins / genetics
  • Escherichia coli Proteins / metabolism*
  • Fermentation
  • Flavin Mononucleotide / chemistry*
  • Flavin Mononucleotide / metabolism
  • Glucose / chemistry
  • Glucose / metabolism*
  • Hypocreales / enzymology
  • Hypocreales / genetics
  • Mevalonic Acid / metabolism
  • Prenylation

Substances

  • Alkenes
  • Crotonates
  • Escherichia coli Proteins
  • Flavin Mononucleotide
  • Carboxy-Lyases
  • phenylacrylic acid decarboxylase
  • ubiX protein, E coli
  • Glucose
  • isobutylene
  • Mevalonic Acid
  • crotonic acid

Supplementary concepts

  • Trichoderma atroviride