Structural insights into the catalytic mechanism of Bacillus subtilis BacF

Acta Crystallogr F Struct Biol Commun. 2020 Mar 1;76(Pt 3):145-151. doi: 10.1107/S2053230X20001636. Epub 2020 Mar 3.


The nonribosomal biosynthesis of the dipeptide antibiotic bacilysin is achieved by the concerted action of multiple enzymes in the Bacillus subtilis bac operon. BacF (YwfG), encoded by the bacF gene, is a fold type I pyridoxal 5-phosphate (PLP)-dependent stereospecific transaminase. Activity assays with L-phenylalanine and 4-hydroxyphenylpyruvic acid (4HPP), a chemical analogue of tetrahydrohydroxyphenylpyruvic acid (H4HPP), revealed stereospecific substrate preferences, a finding that was consistent with previous reports on the role of this enzyme in bacilysin synthesis. The crystal structure of this dimeric enzyme was determined in its apo form as well as in substrate-bound and product-bound conformations. Two ligand-bound structures were determined by soaking BacF crystals with substrates (L-phenylalanine and 4-hydroxyphenylpyruvate). These structures reveal multiple catalytic steps: the internal aldimine with PLP and two external aldimine conformations that show the rearrangement of the external aldimine to generate product (L-tyrosine). Together, these structural snapshots provide an insight into the catalytic mechanism of this transaminase.

Keywords: bacilysin synthesis; enzyme catalysis; external aldimine; stereospecificity; transaminases.

MeSH terms

  • Amino Acid Sequence
  • Bacillus subtilis / chemistry*
  • Bacillus subtilis / genetics*
  • Bacillus subtilis / isolation & purification
  • Catalysis
  • Crystallization / methods
  • Humans
  • Protein Structure, Secondary