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Gadgil, M. G.

Publications and source records attributed to Gadgil, M. G..

3 recordsLinked to original sources

Biosynthesis of peptidic thiooxazole metallophores installed by multinuclear nonheme iron enzymes.

Significant effort has been directed toward characterization of nonheme iron enzymes owing to their breadth of unique reactivity. Through genome mining, we identified a conserved biosynthetic gene cluster within Pseudomonadota encoding one such family, the multinuclear nonheme iron-dependent oxidative enzymes (MNIO, formerly DUF692). Using a representative gene cluster from Fontimonas thermophila, we heterologously produced the post-translationally modified peptide fontiphorin, and detailed spectral analysis revealed MNIO-catalyzed installation of seven 5-thiooxazole (5TO) moieties. During our work, additional MNIO products were reported with conflicting structural assignments, so we investigated the related biosynthetic gene clusters from Haemophilus influenzae and Neisseria gonorrhoeae. Using alkylation-assisted HMBC correlations, we demonstrated that these products also contain 5TO resulting in a revision of the structure of oxazolin. We further provide evidence supporting a role for 5TO-containing peptides in copper detoxification and recommended this emerging class of Cu-associated peptidic thiooxazole metallophores be referred to as captophorins. To further explore the captophorins, we reconstituted fontiphorin biosynthesis in vitro and investigated its enzymatic requirements. Using cell-free production of single-site, double-site, and naturally occurring variants, we examined enzyme-substrate interactions to determine key sites governing catalysis by 5TO-forming MNIOs. Through our detailed spectroscopic approach for 5TO assignment and investigation of enzyme-substrate interactions, our work unifies tens of thousands of MNIOs in the biosynthesis of captophorins.

biochemistry↗

Aminoacyl-tRNA specificity of a ligase catalyzing non-ribosomal peptide extension

Peptide aminoacyl-transfer ribonucleic acid ligases (PEARLs) are amide bond-forming enzymes that extend the main chain of peptides using aminoacyl-tRNA (aa-tRNA) as a substrate. In this study, we investigated the substrate specificity of the PEARL BhaBCAla from Bacillus halodurans, which utilizes Ala-tRNAAla. By leveraging flexizyme, a ribozyme capable of charging diverse acids onto a desired tRNA, we generated an array of aa-tRNAs in which we varied both the amino acid and the tRNA to dissect the substrate scope of BhaBCAla. We demonstrate that BhaBCAla catalyzes peptide extension with non-cognate proteinogenic and non-canonical amino acids, hydroxy acids, and mercaptocarboxylic acids when attached to tRNAAla. For most of these, the efficiency was considerably reduced compared to Ala, indicating the enzyme recognizes the amino acid. By varying the different parts of the tRNA, enzyme specificity was shown to also depend on the acceptor stem and the anticodon arm of the tRNA. These findings establish the molecular determinants of PEARL specificity and provide a foundation for engineering these enzymes for broader applications in peptide synthesis.

biochemistry↗

Peptidic tryptophan halogenation by a promiscuous flavin-dependent enzyme

Amino acids undergo numerous enzymatic modifications. However, the broad applicability of amino acid-modifying enzymes for synthetic purposes is limited by narrow substrate scope and often unknown regulatory or accessory factor requirements. Here, we characterize ChlH, a flavin-dependent halogenase (FDH) from the chlorolassin biosynthetic gene cluster. Unlike characterized peptide-modifying FDHs, which are limited to either specifically modified peptides or the termini of linear peptides, ChlH halogenates internal Trp residues of linear peptides, as well as N- and C-terminal Trp. Scanning mutagenesis of the substrate peptide ChlA revealed Trp was tolerated by ChlH at nearly every position. Molecular dynamics simulations corroborated the importance of a C-terminal motif in ChlA and provided insight into the lack of Trp14 chlorination in native chlorolassin. Furthermore, halogenation of disparate ribosomally synthesized and post-translationally modified peptide (RiPP) precursor peptides, pharmacologically relevant peptides, and an internal Trp of a protein was achieved using wild-type ChlH. A rapid cell-free biosynthetic assay provided insight into ChlHs preferences. In contrast to characterized FDHs, ChlH halogenates diverse peptide sequences, and we predict this promiscuity may find utility in the modification of additional peptide and protein substrates of biotechnological value. Entry for the Table of ContentsChlH, a flavin-dependent tryptophan halogenase, is reconstituted in vitro and found to be capable of modifying a wide array of diverse peptidic substrates despite showing selectivity on its native substrate peptide ChlA. This highlights its potential use in the biocatalytic production of chlorinated peptides. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=93 SRC="FIGDIR/small/632611v2_ufig1.gif" ALT="Figure 1"> View larger version (30K): org.highwire.dtl.DTLVardef@897b21org.highwire.dtl.DTLVardef@1f2bafborg.highwire.dtl.DTLVardef@d1e800org.highwire.dtl.DTLVardef@d68381_HPS_FORMAT_FIGEXP M_FIG C_FIG

biochemistry↗