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      An N-nitrosating metalloenzyme constructs the pharmacophore of streptozotocin

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          Abstract

          N-nitroso-containing small molecules, such as the bacterial natural product streptozotocin, are prominent carcinogens 1, 2 and important cancer chemotherapeutics 3, 4 . Despite this functional group’s significant impact on human health, dedicated enzymes involved in N-nitroso assembly have not been identified. Here, we describe a metalloenzyme from streptozotocin biosynthesis (SznF) that catalyzes an oxidative rearrangement of the guanidine group of N ω -methyl-L-arginine to generate an N-nitrosourea product. Structural characterization and mutagenesis of SznF uncovered two separate active sites that promote distinct steps in this transformation using different iron-containing metallocofactors. The discovery of this biosynthetic reaction, which has little precedent in enzymology or organic synthesis, expands the catalytic capabilities of non-heme iron-dependent enzymes to include N–N bond formation. We find biosynthetic gene clusters encoding SznF homologs are widely distributed among bacteria, including environmental organisms, plant symbionts, and human pathogens, suggesting an unexpectedly diverse and uncharacterized microbial reservoir of bioactive N-nitroso metabolites.

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          Most cited references30

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          Heme enzyme structure and function.

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            Rapid and efficient site-specific mutagenesis without phenotypic selection.

            T Kunkel (1985)
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              Rapid and efficient site-specific mutagenesis without phenotypic selection.

              T Kunkel (1985)
              Several single-base substitution mutations have been introduced into the lacZ alpha gene in cloning vector M13mp2, at 40-60% efficiency, in a rapid procedure requiring only transfection of the unfractionated products of standard in vitro mutagenesis reactions. Two simple additional treatments of the DNA, before transfection, produce a site-specific mutation frequency approaching 100%. The approach is applicable to phenotypically silent mutations in addition to those that can be selected. The high efficiency, approximately equal to 10-fold greater than that observed using current methods without enrichment procedures, is obtained by using a DNA template containing several uracil residues in place of thymine. This template has normal coding potential for the in vitro reactions typical of site-directed mutagenesis protocols but is not biologically active upon transfection into a wild-type (i.e., ung+) Escherichia coli host cell. Expression of the desired change, present in the newly synthesized non-uracil-containing covalently closed circular complementary strand, is thus strongly favored. The procedure has been applied to mutations introduced via both oligonucleotides and error-prone polymerization. In addition to its utility in changing DNA sequences, this approach can potentially be used to examine the biological consequences of specific lesions placed at defined positions within a gene.
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                Author and article information

                Journal
                0410462
                6011
                Nature
                Nature
                Nature
                0028-0836
                1476-4687
                17 December 2018
                06 February 2019
                February 2019
                06 August 2019
                : 566
                : 7742
                : 94-99
                Affiliations
                [1 ]Department of Chemistry and Chemical Biology, Harvard University, Cambridge, Massachusetts, USA
                [2 ]Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania USA
                [3 ]Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania USA
                Author notes
                [* ]To whom correspondence should be addressed: Amie K. Boal, 326 Chemistry Building, University Park, Pennsylvania 16802, United States; akb20@ 123456psu.edu ; phone: (814) 867-2863 Emily P. Balskus, 12 Oxford Street, Cambridge, Massachusetts 02138, United States; balskus@ 123456chemistry.harvard.edu ; phone: (617) 496-9921; fax: (617-496-5866).

                Author Contribution:

                T.L.N. and E.P.B. initiated the study. T.L.N. performed bioinformatics analyses and located the gene cluster, carried out the in vivo gene knockout and feeding experiments, biochemical characterization of SznE and SznF, chemical syntheses of substrates and standards, liquid chromatography and mass spectrometry analyses, and site-directed mutagenesis experiments. A.K.B. and A.J.M designed the structure determination component of the study. R.R and A.J.M. performed all crystallography experiments with assistance from A.K.B in data analysis. All authors analyzed and discussed the results and prepared the manuscript.

                Article
                NIHMS1516598
                10.1038/s41586-019-0894-z
                6369591
                30728519
                a25f79ae-b04e-4c25-a7af-6b79a688af65

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