An active site at work - the role of key residues in C. diphteriae coproheme decarboxylase

J Inorg Biochem. 2022 Apr:229:111718. doi: 10.1016/j.jinorgbio.2022.111718. Epub 2022 Jan 6.

Abstract

Coproheme decarboxylases (ChdCs) are utilized by monoderm bacteria to produce heme b by a stepwise oxidative decarboxylation of the 2- and 4-propionate groups of iron coproporphyrin III (coproheme) to vinyl groups. This work compares the effect of hemin reconstitution versus the hydrogen peroxide-mediated conversion of coproheme to heme b in the actinobacterial ChdC from Corynebacterium diphtheriae (CdChdC) and selected variants. Both ferric and ferrous forms of wild-type (WT) CdChdC and its H118A, H118F, and A207E variants were characterized by resonance Raman and UV-vis spectroscopies. The heme b ligand assumes the same conformation in the WT active site for both the reconstituted and H2O2-mediated product, maintaining the same vinyl and propionate interactions with the protein. Nevertheless, it is important to note that the distal His118, which serves as a distal base, plays an important role in the stabilization of the cavity and for the heme b reconstitution. In fact, while the access of heme b is prevented by steric hindrance in the H118F variant, the substitution of His with the small apolar Ala residue favors the insertion of the heme b in the reversed conformation. The overall data strongly support that during decarboxylation, the intermediate product, a monovinyl-monopropionyl deuteroheme, rotates by 90o within the active site. Moreover, in the ferrous forms the frequency of the ν(Fe-Nδ(His)) stretching mode provides information on the strength of the proximal Fe-His bond and allows us to follow its variation during the two oxidative decarboxylation steps.

Keywords: Distal histidine; Fe-His strength; Hemin reconstitution; Prokaryotic heme biosynthesis; Resonance Raman; Site-directed variants.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Bacterial Proteins / chemistry*
  • Bacterial Proteins / genetics
  • Biocatalysis
  • Carboxy-Lyases / chemistry*
  • Carboxy-Lyases / genetics
  • Catalytic Domain
  • Corynebacterium diphtheriae / enzymology*
  • Heme / chemistry
  • Hydrogen Peroxide / chemistry
  • Mutation

Substances

  • Bacterial Proteins
  • Heme
  • Hydrogen Peroxide
  • Carboxy-Lyases