Trapping a cross-linked lysine-tryptophan radical in the catalytic cycle of the radical SAM enzyme SuiB.

TitleTrapping a cross-linked lysine-tryptophan radical in the catalytic cycle of the radical SAM enzyme SuiB.
Publication TypeJournal Article
Year of Publication2021
AuthorsBalo, AR, Caruso, A, Tao, L, Tantillo, DJ, Seyedsayamdost, MR, R Britt, D
JournalProc Natl Acad Sci U S A
Date Published2021 May 25
KeywordsBacterial Proteins, Binding Sites, Catalysis, Cloning, Molecular, Electron Spin Resonance Spectroscopy, Escherichia coli, Gene Expression, Genetic Vectors, Iron-Sulfur Proteins, Kinetics, Lysine, Models, Molecular, Oxidation-Reduction, Protein Binding, Protein Conformation, alpha-Helical, Protein Conformation, beta-Strand, Protein Interaction Domains and Motifs, Recombinant Proteins, Ribosomal Proteins, S-Adenosylmethionine, Streptococcus, Substrate Specificity, Thermodynamics, Tryptophan

<p>The radical -adenosylmethionine (rSAM) enzyme SuiB catalyzes the formation of an unusual carbon-carbon bond between the sidechains of lysine (Lys) and tryptophan (Trp) in the biosynthesis of a ribosomal peptide natural product. Prior work on SuiB has suggested that the Lys-Trp cross-link is formed via radical electrophilic aromatic substitution (rEAS), in which an auxiliary [4Fe-4S] cluster (AuxI), bound in the SPASM domain of SuiB, carries out an essential oxidation reaction during turnover. Despite the prevalence of auxiliary clusters in over 165,000 rSAM enzymes, direct evidence for their catalytic role has not been reported. Here, we have used electron paramagnetic resonance (EPR) spectroscopy to dissect the SuiB mechanism. Our studies reveal substrate-dependent redox potential tuning of the AuxI cluster, constraining it to the oxidized [4Fe-4S] state, which is active in catalysis. We further report the trapping and characterization of an unprecedented cross-linked Lys-Trp radical (Lys-Trp•) in addition to the organometallic Ω intermediate, providing compelling support for the proposed rEAS mechanism. Finally, we observe oxidation of the Lys-Trp• intermediate by the redox-tuned [4Fe-4S] AuxI cluster by EPR spectroscopy. Our findings provide direct evidence for a role of a SPASM domain auxiliary cluster and consolidate rEAS as a mechanistic paradigm for rSAM enzyme-catalyzed carbon-carbon bond-forming reactions.</p>

Alternate JournalProc Natl Acad Sci U S A
PubMed ID34001621
PubMed Central IDPMC8166192
Grant ListR35 GM126961 / GM / NIGMS NIH HHS / United States