A Single Enzyme Transforms a Carboxylic Acid into a Nitrile through an Amide Intermediate

The biosynthesis of nitriles is known to occur through specialized pathways involving multiple enzymes; however, in bacterial and archeal biosynthesis of 7‐deazapurines, a single enzyme, ToyM, catalyzes the conversion of the carboxylic acid containing 7‐carboxy‐7‐deazaguanine (CDG) into its corresponding nitrile, 7‐cyano‐7‐deazaguanine (preQ₀). The mechanism of this unusual direct transformation was shown to proceed via the adenylation of CDG, which activates it to form the newly discovered amide intermediate 7‐amido‐7‐deazaguanine (ADG). This is subsequently dehydrated to form the nitrile in a process that consumes a second equivalent of ATP. The authentic amide intermediate is shown to be chemically and kinetically competent. The ability of ToyM to activate two different substrates, an acid and an amide, accounts for this unprecedented one‐enzyme catalysis of nitrile synthesis, and the differential rates of these two half reactions suggest that this catalytic ability is derived from an amide synthetase that gained a new function.     

Design and synthesis of phenoxymethybenzoimidazole incorporating different aryl thiazole-triazole acetamide derivatives as α-glycosidase inhibitors

Molecular Diversity - A novel series of phenoxymethybenzoimidazole derivatives (9a-n) were rationally designed, synthesized, and evaluated for their α-glycosidase inhibitory activity. All...     

Deciphering deazapurine biosynthesis: pathway for pyrrolopyrimidine nucleosides toyocamycin and sangivamycin

Pyrrolopyrimidine nucleosides analogs, collectively referred to as deazapurines, are an important class of structurally diverse compounds found in a wide variety of biological niches. In this report, a cluster of genes from Streptomyces rimosus (ATCC 14673) involved in production of the deazapurine antibiotics sangivamycin and toyocamycin was identified. The cluster includes toyocamycin nitrile hydratase, an enzyme that catalyzes the conversion of toyocamycin to sangivamycin. In addition to this rare nitrile hydratase, the cluster encodes a GTP cyclohydrolase I, linking the biosynthesis of deazapurines to folate biosynthesis, and a set of purine salvage/biosynthesis genes, which presumably convert the guanine moiety from GTP to the adenine-like deazapurine base found in toyocamycin and sangivamycin. The gene cluster presented here could potentially serve as a model to allow identification of deazapurine biosynthetic pathways in other bacterial species.     

Cobalamin‐Dependent and Cobalamin‐Independent Methionine Synthases: Are There Two Solutions to the Same Chemical Problem?

Two enzymes in Escherichia coli, cobalamin‐independent methionine synthase (MetE) and cobalamin‐dependent methionine synthase (MetH), catalyze the conversion of homocysteine (Hcy) to methionine using N(5)‐methyltetrahydrofolate (CH₃‐H₄folate) as the Me donor. Despite the absence of sequence homology, these enzymes employ very similar catalytic strategies. In each case, the pK_a for the SH group of Hcy is lowered by coordination to Zn²⁺, which increases the concentration of the reactive thiolate at neutral pH. In each case, activation of CH₃‐H₄folate appears to involve protonation at N(5). CH₃‐H₄folate remains unprotonated in binary E?CH₃‐H₄folate complexes, and protonation occurs only in the ternary E?CH₃‐H₄folate?Hcy complex in MetE, or in the ternary E?CH₃‐H₄folate?cob(I)alamin complex in MetH. Surprisingly, the similarities are proposed to extend to the structures of these two unrelated enzymes. The structure of a homologue of the Hcy‐binding region of MetH, betaine? homocysteine methyltransferase, has been determined. A search of the three‐dimensional‐structure data base by means of the structure‐comparison program DALI indicates similarity of the BHMT structure with that of uroporphyrin decarboxylase (UroD), a homologue of the MT2‐A and MT2‐M proteins from Archaea, which catalyze Me transfers from methylcorrinoids to coenzyme M and share the Zn‐binding scaffold of MetE. Here, we present a model for the Zn binding site of MetE, obtained by grafting the Zn ligands of MT2‐A onto the structure of UroD.     

New ciprofloxacin–dithiocarbamate–benzyl hybrids: design,synthesis, antibacterial evaluation,and molecular modeling studies

Research on Chemical Intermediates - We designed and synthesized a series of new ciprofloxacin–dithiocarbamate–benzyl hybrids 5a–n as potential antibacterial agents. All of the...     

Probing nitrogen-sensitive steps in the free-radical-mediated deamination of amino alcohols by ethanolamine ammonia-lyase

The contribution of C-N bond-breaking/making steps to the rate of the free-radical-mediated deamination of vicinal amino alcohols by adenosylcobalamin-dependent ethanolamine ammonia-lyase has been investigated by 15N isotope effects (IE's) and by electron paramagnetic resonance (EPR) spectroscopy. 15N IE's were determined for three substrates, ethanolamine, (R)-2-aminopropanol, and (S)-2-aminopropanol, using isotope ratio mass spectrometry analysis of the product ammonia. Measurements with all three substrates gave measurable, normal 15N IE's; however, the IE of (S)-2-aminopropanol was approximately 5-fold greater than that of the other two. Reaction mixtures frozen during the steady state show that the 2-aminopropanols give EPR spectra characteristic of the initial substrate radical, whereas ethanolamine gives spectra consistent with a product-related radical (Warncke, K.; Schmidt, J. C.; Kee, S.-C. J. Am. Chem. Soc. 1999, 121, 10522-10528). The steady-state concentration of the radical with (R)-2-aminopropanol is about half that observed with the S isomer, and with (R)-2-aminopropanol, the steady-state level of the radical is further reduced upon deuteration at C1. The results show that relative heights of kinetic barriers differ among the three substrates such that levels or identities of steady-state intermediates differ. 15N-sensitive steps are significant contributors to V/K with (S)-2-aminopropanol.