Trapping a cross-linked lysine-tryptophan radical in the catalytic cycle of the radical SAM enzyme SuiB. Author Aidin Balo, Alessio Caruso, Lizhi Tao, Dean Tantillo, Mohammad Seyedsayamdost, R David Britt Publication Year 2021 Type Journal Article Abstract 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. Keywords Escherichia coli, Bacterial Proteins, Binding Sites, Substrate Specificity, Protein Binding, Models, Molecular, Cloning, Molecular, Kinetics, Recombinant Proteins, S-Adenosylmethionine, Gene Expression, Catalysis, Thermodynamics, Protein Interaction Domains and Motifs, Oxidation-Reduction, Tryptophan, Electron Spin Resonance Spectroscopy, Lysine, Genetic Vectors, Streptococcus, Protein Conformation, alpha-Helical, Protein Conformation, beta-Strand, Ribosomal Proteins, Iron-Sulfur Proteins Journal Proc Natl Acad Sci U S A Volume 118 Issue 21 Date Published 2021 May 25 ISSN Number 1091-6490 DOI 10.1073/pnas.2101571118 Alternate Journal Proc Natl Acad Sci U S A PMCID PMC8166192 PMID 34001621 PubMedPubMed CentralGoogle ScholarBibTeXEndNote X3 XML