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Li M, Sun G, Wang Z, Zhang X, Peng J, Jiang F, Li J, Tao S, Liu Y, Pan Y. Structural Design of Single-Atom Catalysts for Enhancing Petrochemical Catalytic Reaction Process. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2024; 36:e2313661. [PMID: 38499342 DOI: 10.1002/adma.202313661] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2023] [Revised: 03/02/2024] [Indexed: 03/20/2024]
Abstract
Petroleum, as the "lifeblood" of industrial development, is the important energy source and raw material. The selective transformation of petroleum into high-end chemicals is of great significance, but still exists enormous challenges. Single-atom catalysts (SACs) with 100% atom utilization and homogeneous active sites, promise a broad application in petrochemical processes. Herein, the research systematically summarizes the recent research progress of SACs in petrochemical catalytic reaction, proposes the role of structural design of SACs in enhancing catalytic performance, elucidates the catalytic reaction mechanisms of SACs in the conversion of petrochemical processes, and reveals the high activity origins of SACs at the atomic scale. Finally, the key challenges are summarized and an outlook on the design, identification of active sites, and the appropriate application of artificial intelligence technology is provided for achieving scale-up application of SACs in petrochemical process.
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Affiliation(s)
- Min Li
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
| | - Guangxun Sun
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
| | - Zhidong Wang
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
| | - Xin Zhang
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
| | - Jiatian Peng
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
| | - Fei Jiang
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
| | - Junxi Li
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
| | - Shu Tao
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
| | - Yunqi Liu
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
| | - Yuan Pan
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum (East China), Qingdao, 266580, China
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2
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Ijichi S, Hoshino S, Asamizu S, Onaka H. SolS-catalyzed sulfoxidation of labionin to solabionin drives antibacterial activity of solabiomycins. Bioorg Med Chem Lett 2023; 89:129323. [PMID: 37169227 DOI: 10.1016/j.bmcl.2023.129323] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2023] [Revised: 05/01/2023] [Accepted: 05/07/2023] [Indexed: 05/13/2023]
Abstract
Ribosomally synthesized and posttranslationally modified peptides (RiPPs) with polar-functionalized fatty acyl groups are newly found lipopeptide-class natural products. We recently employed a combined approach of genome mining and stable isotope labeling and discovered solabiomycins as one of the polar-functionalized fatty-acylated RiPPs (PFARs) from Streptomyces lydicus NBRC13058. The solabiomycins contained a characteristic sulfoxide group in the labionin moiety referred to as the 'solabionin' structure for the RiPP moiety. A previous gene knockout experiment indicated that solS, which encodes a putative flavin adenine dinucleotide (FAD)-nicotinamide adenine dinucleotide (phosphate) (NAD(P))-binding protein, is involved in the sulfoxidation of an alkyl sulfide in the solabionin. In this study, we isolated deoxysolabiomycins A and B from ΔsolS mutant and fully determined the chemical structures using a series of NMR experiments. We also tested the bioactivity of deoxysolabiomycins against Gram-positive bacteria, including Mycolicibacterium smegmatis, and notably found that the sulfoxide is critical for the antibacterial activity. To characterize the catalytic activity of SolS, the recombinant protein was incubated with a putative substrate, deoxysolabiomycins, and the cofactors FAD and NADPH. In vitro reactions demonstrated that SolS catalyzes the sulfoxidation, converting deoxysolabiomycins to solabiomycins.
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Affiliation(s)
- Shinta Ijichi
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo, 113-8657, Japan
| | - Shotaro Hoshino
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo, 113-8657, Japan
| | - Shumpei Asamizu
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo, 113-8657, Japan; Collaborative Research Institute for Innovative Microbiology (CRIIM), The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo, 113-8657, Japan
| | - Hiroyasu Onaka
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo, 113-8657, Japan; Collaborative Research Institute for Innovative Microbiology (CRIIM), The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo, 113-8657, Japan.
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3
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Wu Q, Bell BA, Yan JX, Chevrette MG, Brittin NJ, Zhu Y, Chanana S, Maity M, Braun DR, Wheaton AM, Guzei IA, Ge Y, Rajski SR, Thomas MG, Bugni TS. Metabolomics and Genomics Enable the Discovery of a New Class of Nonribosomal Peptidic Metallophores from a Marine Micromonospora. J Am Chem Soc 2023; 145:58-69. [PMID: 36535031 PMCID: PMC10570848 DOI: 10.1021/jacs.2c06410] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Although microbial genomes harbor an abundance of biosynthetic gene clusters, there remain substantial technological gaps that impair the direct correlation of newly discovered gene clusters and their corresponding secondary metabolite products. As an example of one approach designed to minimize or bridge such gaps, we employed hierarchical clustering analysis and principal component analysis (hcapca, whose sole input is MS data) to prioritize 109 marine Micromonospora strains and ultimately identify novel strain WMMB482 as a candidate for in-depth "metabologenomics" analysis following its prioritization. Highlighting the power of current MS-based technologies, not only did hcapca enable the discovery of one new, nonribosomal peptide bearing an incredible diversity of unique functional groups, but metabolomics for WMMB482 unveiled 16 additional congeners via the application of Global Natural Product Social molecular networking (GNPS), herein named ecteinamines A-Q (1-17). The ecteinamines possess an unprecedented skeleton housing a host of uncommon functionalities including a menaquinone pathway-derived 2-naphthoate moiety, 4-methyloxazoline, the first example of a naturally occurring Ψ[CH2NH] "reduced amide", a methylsulfinyl moiety, and a d-cysteinyl residue that appears to derive from a unique noncanonical epimerase domain. Extensive in silico analysis of the ecteinamine (ect) biosynthetic gene cluster and stable isotope-feeding experiments helped illuminate the novel enzymology driving ecteinamine assembly as well the role of cluster collaborations or "duets" in producing such structurally complex agents. Finally, ecteinamines were found to bind nickel, cobalt, zinc, and copper, suggesting a possible biological role as broad-spectrum metallophores.
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Affiliation(s)
- Qihao Wu
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, 777 Highland Avenue, Madison, Wisconsin 53705, United States
| | - Bailey A Bell
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, 777 Highland Avenue, Madison, Wisconsin 53705, United States
| | - Jia-Xuan Yan
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, 777 Highland Avenue, Madison, Wisconsin 53705, United States
| | - Marc G Chevrette
- Department of Microbiology and Cell Science, University of Florida, Gainesville, Florida 32611, United States
| | - Nathan J Brittin
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, 777 Highland Avenue, Madison, Wisconsin 53705, United States
| | - Yanlong Zhu
- Department of Cell and Regenerative Biology, University of Wisconsin-Madison, 1111 Highland Avenue, Madison, Wisconsin 53705, United States
| | - Shaurya Chanana
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, 777 Highland Avenue, Madison, Wisconsin 53705, United States
| | - Mitasree Maity
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, 777 Highland Avenue, Madison, Wisconsin 53705, United States
| | - Doug R Braun
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, 777 Highland Avenue, Madison, Wisconsin 53705, United States
| | - Amelia M Wheaton
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Ilia A Guzei
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Ying Ge
- Department of Cell and Regenerative Biology, University of Wisconsin-Madison, 1111 Highland Avenue, Madison, Wisconsin 53705, United States
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Scott R Rajski
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, 777 Highland Avenue, Madison, Wisconsin 53705, United States
| | - Michael G Thomas
- Department of Bacteriology, University of Wisconsin-Madison, 1550 Linden Drive, Madison, Wisconsin 53706, United States
| | - Tim S Bugni
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, 777 Highland Avenue, Madison, Wisconsin 53705, United States
- The Small Molecule Screening Facility, University of Wisconsin-Madison, 600 Highland Avenue, Madison, Wisconsin 53792, United States
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4
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Asamizu S, Ijichi S, Hoshino S, Jo H, Takahashi H, Itoh Y, Matsumoto S, Onaka H. Stable Isotope-Guided Metabolomics Reveals Polar-Functionalized Fatty-Acylated RiPPs from Streptomyces. ACS Chem Biol 2022; 17:2936-2944. [PMID: 36112882 DOI: 10.1021/acschembio.2c00601] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Ribosomally synthesized and posttranslationally modified peptides (RiPPs) with polar-functionalized fatty acyl groups are a rarely found untapped class of natural products. Although polar-functionalized fatty-acylated RiPPs (PFARs) have potential as antimicrobial agents, the repertoire is still limited. Therefore, expanding the chemical space is expected to contribute to the development of pharmaceutical agents. In this study, we performed genome mining and stable isotope-guided comparative metabolomics to discover new PFAR natural products. We focused on the feature that PFARs incorporate l-arginine or l-lysine as the starter unit of the fatty acyl group and fed 13C6,15N4-l-arginine or 13C6,15N2-l-lysine to bacterial cultures. Metabolites were extracted and compared with those extracted from nonlabeled l-arginine or l-lysine fed cultures. We identified putative PFARs and successfully isolated solabiomycin A and B from Streptomyces lydicus NBRC 13 058 and albopeptin B from Streptomyces nigrescens HEK616, which contained a sulfoxide group in the labionin moiety. The gene disruption experiment indicated that solS, which encodes a putative flavin adenine dinucleotide (FAD)-nicotinamide adenine dinucleotide (phosphate) (NAD(P))-binding protein, is involved in the sulfoxidation of aryl sulfides. The solabiomycins showed antibacterial activity against Gram-positive bacteria, including Mycobacterium tuberculosis H37Rv with a minimum 95% inhibitory concentration (MIC95) of 3.125 μg/mL, suggesting their potential as antituberculosis agents.
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Affiliation(s)
- Shumpei Asamizu
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo 113-8657, Japan.,Collaborative Research Institute for Innovative Microbiology (CRIIM), The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo 113-8657, Japan
| | - Shinta Ijichi
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo 113-8657, Japan
| | - Shotaro Hoshino
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo 113-8657, Japan
| | - Hansaem Jo
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo 113-8657, Japan
| | - Hidenori Takahashi
- Koichi Tanaka Mass Spectrometry Research Laboratory, Shimadzu Corporation, 1 Nishinokyo-Kuwabaracho, Nakagyo-ku, Kyoto 604-8511, Japan
| | - Yuko Itoh
- Department of Bacteriology, Niigata University School of Medicine, 1-757 Asahimachi-Dori, Chuo-ku, Niigata 951-9510, Japan
| | - Sohkichi Matsumoto
- Department of Bacteriology, Niigata University School of Medicine, 1-757 Asahimachi-Dori, Chuo-ku, Niigata 951-9510, Japan.,Laboratory of Tuberculosis, Institute of Tropical Disease, Universitas Airlangga, Kampus C Jl., Mulyorejo, Surabaya 60115, Indonesia
| | - Hiroyasu Onaka
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo 113-8657, Japan.,Collaborative Research Institute for Innovative Microbiology (CRIIM), The University of Tokyo, Yayoi 1-1-1, Bunkyo, Tokyo 113-8657, Japan
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5
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Genomic and functional insights into the diversification of the elongation factor eEF1Bγ in fungi. FUNGAL BIOL REV 2022. [DOI: 10.1016/j.fbr.2022.07.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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6
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Okamoto T, Kishimoto S, Watanabe K. Isolation of Natural Prodrug-Like Metabolite by Simulating Human Prodrug Activation in Filamentous Fungus. Chem Pharm Bull (Tokyo) 2022; 70:304-308. [DOI: 10.1248/cpb.c21-01099] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Affiliation(s)
- Takumi Okamoto
- Department of Pharmaceutical Sciences, University of Shizuoka
| | | | - Kenji Watanabe
- Department of Pharmaceutical Sciences, University of Shizuoka
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7
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Jachak GR, Tharra PR, Sevelda P, Švenda J. Stereocontrolled Synthesis of Pseurotin A 2. J Org Chem 2021; 86:11845-11861. [PMID: 34378926 DOI: 10.1021/acs.joc.1c01152] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We report synthesis of two diastereomeric structures previously proposed for the complex secondary metabolite pseurotin A2. Both structures were accessed from the same building blocks taking advantage of a stereodivergent nickel(II)-diamine-catalyzed 1,4-addition of a chiral 2-alkoxycarbonyl-3(2H)-furanone. Late-stage Csp-Csp3 cross-coupling of a highly functionalized bromoalkyne featured in the pseurotin A2 side-chain assembly. The work supports the 2016 stereochemical revision of pseurotin A2 and represents the first chemical synthesis of this natural product.
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Affiliation(s)
- Gorakhnath R Jachak
- Department of Chemistry, Masaryk University, Brno 625 00, Czech Republic.,International Clinical Research Center, St. Anne's University Hospital, Brno 656 91, Czech Republic
| | - Prabhakara R Tharra
- Department of Chemistry, Masaryk University, Brno 625 00, Czech Republic.,International Clinical Research Center, St. Anne's University Hospital, Brno 656 91, Czech Republic
| | - Petr Sevelda
- Department of Chemistry, Masaryk University, Brno 625 00, Czech Republic
| | - Jakub Švenda
- Department of Chemistry, Masaryk University, Brno 625 00, Czech Republic.,International Clinical Research Center, St. Anne's University Hospital, Brno 656 91, Czech Republic
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8
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Sun Q, Huang M, Wei Y. Diversity of the reaction mechanisms of SAM-dependent enzymes. Acta Pharm Sin B 2021; 11:632-650. [PMID: 33777672 PMCID: PMC7982431 DOI: 10.1016/j.apsb.2020.08.011] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2020] [Revised: 07/30/2020] [Accepted: 08/08/2020] [Indexed: 02/08/2023] Open
Abstract
S-adenosylmethionine (SAM) is ubiquitous in living organisms and is of great significance in metabolism as a cofactor of various enzymes. Methyltransferases (MTases), a major group of SAM-dependent enzymes, catalyze methyl transfer from SAM to C, O, N, and S atoms in small-molecule secondary metabolites and macromolecules, including proteins and nucleic acids. MTases have long been a hot topic in biomedical research because of their crucial role in epigenetic regulation of macromolecules and biosynthesis of natural products with prolific pharmacological moieties. However, another group of SAM-dependent enzymes, sharing similar core domains with MTases, can catalyze nonmethylation reactions and have multiple functions. Herein, we mainly describe the nonmethylation reactions of SAM-dependent enzymes in biosynthesis. First, we compare the structural and mechanistic similarities and distinctions between SAM-dependent MTases and the non-methylating SAM-dependent enzymes. Second, we summarize the reactions catalyzed by these enzymes and explore the mechanisms. Finally, we discuss the structural conservation and catalytical diversity of class I-like non-methylating SAM-dependent enzymes and propose a possibility in enzymes evolution, suggesting future perspectives for enzyme-mediated chemistry and biotechnology, which will help the development of new methods for drug synthesis.
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9
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Yin Z, Dickschat JS. Cis double bond formation in polyketide biosynthesis. Nat Prod Rep 2021; 38:1445-1468. [PMID: 33475122 DOI: 10.1039/d0np00091d] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Covering: up to 2020Polyketides form a large group of bioactive secondary metabolites that usually contain one or more double bonds. Although most of the double bonds found in polyketides are trans or E-configured, several cases are known in which cis or Z-configurations are observed. Double bond formation by polyketide synthases (PKSs) is widely recognised to be catalysed by ketoreduction and subsequent dehydration of the acyl carrier protein (ACP)-tethered 3-ketoacyl intermediate in the PKS biosynthetic assembly line with a specific stereochemical course in which the ketoreduction step determines the usual trans or more rare cis double bond configuration. Occasionally, other mechanisms for the installation of cis double bonds such as double bond formation during chain release or post-PKS modifications including, amongst others, isomerisations or double bond installations by oxidation are observed. This review discusses the peculiar mechanisms of cis double bond formation in polyketide biosynthesis.
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Affiliation(s)
- Zhiyong Yin
- Kekulé-Institute for Organic Chemistry and Biochemistry, University of Bonn, Gerhard-Domagk-Straße 1, 53121 Bonn, Germany.
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10
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Alvarez R, de Lera AR. Natural polyenic macrolactams and polycyclic derivatives generated by transannular pericyclic reactions: optimized biogenesis challenging chemical synthesis. Nat Prod Rep 2020; 38:1136-1220. [PMID: 33283831 DOI: 10.1039/d0np00050g] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Covering from 1992 to the end of 2020-11-20.Genetically-encoded polyenic macrolactams, which are constructed by Nature using hybrid polyketide synthase/nonribosomal peptide synthase (PKSs/NRPSs) assembly lines, are part of the large collection of natural products isolated from bacteria. Activation of cryptic (i.e., silent) gene clusters in these microorganisms has more recently allowed to generate and eventually isolate additional members of the family. Having two unsaturated fragments separated by short saturated chains, the primary macrolactam is posited to undergo transannular reactions and further rearrangements thus leading to the generation of a structurally diverse collection of polycyclic (natural) products and oxidized derivatives. The review will cover the challenges that scientists face on the isolation of these unstable compounds from the cultures of the producing microorganisms, their structural characterization, biological activities, optimized biogenetic routes, as well as the skeletal rearrangements of the primary structures of the natural macrolactams derived from pericyclic reactions of the polyenic fragments. The efforts of the synthetic chemists to emulate Nature on the successful generation and structural confirmation of these natural products will also be reported.
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Affiliation(s)
- Rosana Alvarez
- Department of Organic Chemistry and Center for Biomedical Research (CINBIO), IBIV, Universidade de Vigo, 36310 Vigo, Spain.
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11
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Zhang JM, Wang HH, Liu X, Hu CH, Zou Y. Heterologous and Engineered Biosynthesis of Nematocidal Polyketide–Nonribosomal Peptide Hybrid Macrolactone from Extreme Thermophilic Fungi. J Am Chem Soc 2020; 142:1957-1965. [DOI: 10.1021/jacs.9b11410] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Jin-Mei Zhang
- College of Pharmaceutical Sciences, Southwest University, Chongqing 400715, P. R. China
| | - Hang-Hang Wang
- College of Pharmaceutical Sciences, Southwest University, Chongqing 400715, P. R. China
| | - Xuan Liu
- College of Pharmaceutical Sciences, Southwest University, Chongqing 400715, P. R. China
| | - Chang-Hua Hu
- College of Pharmaceutical Sciences, Southwest University, Chongqing 400715, P. R. China
| | - Yi Zou
- College of Pharmaceutical Sciences, Southwest University, Chongqing 400715, P. R. China
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12
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Kishimoto S, Tsunematsu Y, Matsushita T, Hara K, Hashimoto H, Tang Y, Watanabe K. Functional and Structural Analyses of trans C-Methyltransferase in Fungal Polyketide Biosynthesis. Biochemistry 2019; 58:3933-3937. [DOI: 10.1021/acs.biochem.9b00702] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Shinji Kishimoto
- Department of Pharmaceutical Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Yuta Tsunematsu
- Department of Pharmaceutical Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Takuma Matsushita
- Department of Pharmaceutical Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Kodai Hara
- Department of Pharmaceutical Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Hiroshi Hashimoto
- Department of Pharmaceutical Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Yi Tang
- Department of Chemical and Biomolecular Engineering, University of California, Los Angeles, California 90095, United States
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095, United States
| | - Kenji Watanabe
- Department of Pharmaceutical Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
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13
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Hirasawa S, Mukai K, Sakai S, Wakamori S, Hasegawa T, Souma K, Kanomata N, Ogawa N, Aizawa M, Emoto M. Elucidation of Racemization Process of Azaspirene Skeleton in Neutral Aqueous Media. J Org Chem 2018; 83:14457-14464. [DOI: 10.1021/acs.joc.8b02223] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Shun Hirasawa
- Department of Chemistry and Biochemistry, Waseda University, 3-4-1, Ohkubo, Shinjuku-ku, Tokyo 169-8555, Japan
| | - Ken Mukai
- Department of Chemistry and Biochemistry, Waseda University, 3-4-1, Ohkubo, Shinjuku-ku, Tokyo 169-8555, Japan
| | - Shinnosuke Sakai
- Department of Chemistry and Biochemistry, Waseda University, 3-4-1, Ohkubo, Shinjuku-ku, Tokyo 169-8555, Japan
| | - Shinnosuke Wakamori
- Department of Chemistry and Biochemistry, Waseda University, 3-4-1, Ohkubo, Shinjuku-ku, Tokyo 169-8555, Japan
| | - Takahiro Hasegawa
- Department of Chemistry and Biochemistry, Waseda University, 3-4-1, Ohkubo, Shinjuku-ku, Tokyo 169-8555, Japan
| | - Kazunori Souma
- Department of Applied Chemistry, Meiji University, 1-1-1 Higashimita, Tama-ku, Kawasaki 214-8571, Japan
| | - Nobuhiro Kanomata
- Department of Chemistry and Biochemistry, Waseda University, 3-4-1, Ohkubo, Shinjuku-ku, Tokyo 169-8555, Japan
- Department of Applied Chemistry, Meiji University, 1-1-1 Higashimita, Tama-ku, Kawasaki 214-8571, Japan
| | - Narihito Ogawa
- Department of Chemistry and Biochemistry, Waseda University, 3-4-1, Ohkubo, Shinjuku-ku, Tokyo 169-8555, Japan
- Department of Applied Chemistry, Meiji University, 1-1-1 Higashimita, Tama-ku, Kawasaki 214-8571, Japan
| | - Mamoru Aizawa
- Department of Applied Chemistry, Meiji University, 1-1-1 Higashimita, Tama-ku, Kawasaki 214-8571, Japan
| | - Makoto Emoto
- Clinical Research Center and Division of Preventive Medicine, Fukuoka Sanno Hospital, International University of Health and Welfare, 3-6-45 Momochihama, Sawara-ku, Fukuoka 814-0001, Japan
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14
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Tsunematsu Y, Maeda N, Yokoyama M, Chankhamjon P, Watanabe K, Scherlach K, Hertweck C. Enzymatic Amide Tailoring Promotes Retro-Aldol Amino Acid Conversion To Form the Antifungal Agent Aspirochlorine. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201806740] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Yuta Tsunematsu
- Department of Biomolecular Chemistry; Leibniz Institute for Natural Product Chemistry and Infection Biology (HKI); Beutenbergstr. 11a 07745 Jena Germany
- Department of Pharmaceutical Sciences; University of Shizuoka; Shizuoka 422-8526 Japan
| | - Naoya Maeda
- Department of Pharmaceutical Sciences; University of Shizuoka; Shizuoka 422-8526 Japan
| | - Mamoru Yokoyama
- Department of Pharmaceutical Sciences; University of Shizuoka; Shizuoka 422-8526 Japan
| | - Pranatchareeya Chankhamjon
- Department of Biomolecular Chemistry; Leibniz Institute for Natural Product Chemistry and Infection Biology (HKI); Beutenbergstr. 11a 07745 Jena Germany
| | - Kenji Watanabe
- Department of Pharmaceutical Sciences; University of Shizuoka; Shizuoka 422-8526 Japan
| | - Kirstin Scherlach
- Department of Biomolecular Chemistry; Leibniz Institute for Natural Product Chemistry and Infection Biology (HKI); Beutenbergstr. 11a 07745 Jena Germany
| | - Christian Hertweck
- Department of Biomolecular Chemistry; Leibniz Institute for Natural Product Chemistry and Infection Biology (HKI); Beutenbergstr. 11a 07745 Jena Germany
- Friedrich Schiller University Jena; 07743 Jena Germany
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15
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Tsunematsu Y, Maeda N, Yokoyama M, Chankhamjon P, Watanabe K, Scherlach K, Hertweck C. Enzymatic Amide Tailoring Promotes Retro-Aldol Amino Acid Conversion To Form the Antifungal Agent Aspirochlorine. Angew Chem Int Ed Engl 2018; 57:14051-14054. [DOI: 10.1002/anie.201806740] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2018] [Indexed: 12/31/2022]
Affiliation(s)
- Yuta Tsunematsu
- Department of Biomolecular Chemistry; Leibniz Institute for Natural Product Chemistry and Infection Biology (HKI); Beutenbergstr. 11a 07745 Jena Germany
- Department of Pharmaceutical Sciences; University of Shizuoka; Shizuoka 422-8526 Japan
| | - Naoya Maeda
- Department of Pharmaceutical Sciences; University of Shizuoka; Shizuoka 422-8526 Japan
| | - Mamoru Yokoyama
- Department of Pharmaceutical Sciences; University of Shizuoka; Shizuoka 422-8526 Japan
| | - Pranatchareeya Chankhamjon
- Department of Biomolecular Chemistry; Leibniz Institute for Natural Product Chemistry and Infection Biology (HKI); Beutenbergstr. 11a 07745 Jena Germany
| | - Kenji Watanabe
- Department of Pharmaceutical Sciences; University of Shizuoka; Shizuoka 422-8526 Japan
| | - Kirstin Scherlach
- Department of Biomolecular Chemistry; Leibniz Institute for Natural Product Chemistry and Infection Biology (HKI); Beutenbergstr. 11a 07745 Jena Germany
| | - Christian Hertweck
- Department of Biomolecular Chemistry; Leibniz Institute for Natural Product Chemistry and Infection Biology (HKI); Beutenbergstr. 11a 07745 Jena Germany
- Friedrich Schiller University Jena; 07743 Jena Germany
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16
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Jo D, Han S. Total syntheses of spirocyclic PKS-NRPS-based fungal metabolites. Chem Commun (Camb) 2018; 54:6750-6758. [PMID: 29873347 DOI: 10.1039/c8cc02315h] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Since the first isolation of pseurotin A in 1976, over twenty five spirocyclic PKS-NRPS-based (polyketide synthase-nonribosomal peptide synthetase-based) fungal natural products have been discovered to date. The common 1-oxa-7-azaspiro[4.4]non-2-ene-4,6-dione core of this family of natural products has served as a platform for the development of novel chemistry and resulted in the development of numerous new reactivities and synthetic strategies. Herein, we delineate all reported syntheses of spirocyclic PKS-NRPS-based fungal metabolites including our own recent contributions on this subject. We showcase how a biosynthetic consideration could lead to concise synthetic routes to this family of natural products.
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Affiliation(s)
- Deokhee Jo
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Korea.
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17
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Abstract
Oxidative cyclizations are important transformations that occur widely during natural product biosynthesis. The transformations from acyclic precursors to cyclized products can afford morphed scaffolds, structural rigidity, and biological activities. Some of the most dramatic structural alterations in natural product biosynthesis occur through oxidative cyclization. In this Review, we examine the different strategies used by nature to create new intra(inter)molecular bonds via redox chemistry. This Review will cover both oxidation- and reduction-enabled cyclization mechanisms, with an emphasis on the former. Radical cyclizations catalyzed by P450, nonheme iron, α-KG-dependent oxygenases, and radical SAM enzymes are discussed to illustrate the use of molecular oxygen and S-adenosylmethionine to forge new bonds at unactivated sites via one-electron manifolds. Nonradical cyclizations catalyzed by flavin-dependent monooxygenases and NAD(P)H-dependent reductases are covered to show the use of two-electron manifolds in initiating cyclization reactions. The oxidative installations of epoxides and halogens into acyclic scaffolds to drive subsequent cyclizations are separately discussed as examples of "disappearing" reactive handles. Last, oxidative rearrangement of rings systems, including contractions and expansions, will be covered.
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Affiliation(s)
- Man-Cheng Tang
- Department of Chemical and Biomolecular Engineering, Department of Chemistry and Biochemistry, University of California, Los Angeles, 420 Westwood Plaza, Los Angeles, CA 90095, USA
| | - Yi Zou
- Department of Chemical and Biomolecular Engineering, Department of Chemistry and Biochemistry, University of California, Los Angeles, 420 Westwood Plaza, Los Angeles, CA 90095, USA
| | - Kenji Watanabe
- Department of Pharmaceutical Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Christopher T. Walsh
- Stanford University Chemistry, Engineering, and Medicine for Human Health (ChEM-H), Stanford University, 443 Via Ortega, Stanford, CA 94305
| | - Yi Tang
- Department of Chemical and Biomolecular Engineering, Department of Chemistry and Biochemistry, University of California, Los Angeles, 420 Westwood Plaza, Los Angeles, CA 90095, USA
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18
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Dunbar KL, Scharf DH, Litomska A, Hertweck C. Enzymatic Carbon-Sulfur Bond Formation in Natural Product Biosynthesis. Chem Rev 2017; 117:5521-5577. [PMID: 28418240 DOI: 10.1021/acs.chemrev.6b00697] [Citation(s) in RCA: 356] [Impact Index Per Article: 50.9] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Sulfur plays a critical role for the development and maintenance of life on earth, which is reflected by the wealth of primary metabolites, macromolecules, and cofactors bearing this element. Whereas a large body of knowledge has existed for sulfur trafficking in primary metabolism, the secondary metabolism involving sulfur has long been neglected. Yet, diverse sulfur functionalities have a major impact on the biological activities of natural products. Recent research at the genetic, biochemical, and chemical levels has unearthed a broad range of enzymes, sulfur shuttles, and chemical mechanisms for generating carbon-sulfur bonds. This Review will give the first systematic overview on enzymes catalyzing the formation of organosulfur natural products.
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Affiliation(s)
- Kyle L Dunbar
- Department of Biomolecular Chemistry, Leibniz Institute for Natural Product Research and Infection Biology (HKI) , Beutenbergstrasse 11a, 07745 Jena, Germany
| | - Daniel H Scharf
- Life Sciences Institute, University of Michigan , 210 Washtenaw Avenue, Ann Arbor, Michigan 48109-2216, United States
| | - Agnieszka Litomska
- Department of Biomolecular Chemistry, Leibniz Institute for Natural Product Research and Infection Biology (HKI) , Beutenbergstrasse 11a, 07745 Jena, Germany
| | - Christian Hertweck
- Department of Biomolecular Chemistry, Leibniz Institute for Natural Product Research and Infection Biology (HKI) , Beutenbergstrasse 11a, 07745 Jena, Germany.,Friedrich Schiller University , 07743 Jena, Germany
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19
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Kishimoto S, Tsunematsu Y, Sato M, Watanabe K. Elucidation of Biosynthetic Pathways of Natural Products. CHEM REC 2017; 17:1095-1108. [PMID: 28387469 DOI: 10.1002/tcr.201700015] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2017] [Indexed: 01/22/2023]
Abstract
During the last decade, we have revealed biosynthetic pathways responsible for the formation of important and chemically complex natural products isolated from various organisms through genetic manipulation. Detailed in vivo and in vitro characterizations enabled elucidation of unexpected mechanisms of secondary metabolite biosynthesis. This personal account focuses on our recent efforts in identifying the genes responsible for the biosynthesis of spirotryprostatin, aspoquinolone, Sch 210972, pyranonigrin, fumagillin and pseurotin. We exploit heterologous reconstitution of biosynthetic pathways of interest in our study. In particular, extensive involvement of oxidation reactions is discussed. Heterologous hosts employed here are Saccharomyces cerevisiae, Aspergillus nidulans and A. niger that can also be used to prepare biosynthetic intermediates and product analogs by engineering the biosynthetic pathways using the knowledge obtained by detailed characterizations of the enzymes. (998 char.).
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Affiliation(s)
- Shinji Kishimoto
- Department of Pharmaceutical Sciences, University of Shizuoka, 52-1 Yada, Suruga-ku, City of Shizuoka, 422-8526, JAPAN
| | - Yuta Tsunematsu
- Department of Pharmaceutical Sciences, University of Shizuoka, 52-1 Yada, Suruga-ku, City of Shizuoka, 422-8526, JAPAN
| | - Michio Sato
- Department of Pharmaceutical Sciences, University of Shizuoka, 52-1 Yada, Suruga-ku, City of Shizuoka, 422-8526, JAPAN
| | - Kenji Watanabe
- Department of Pharmaceutical Sciences, University of Shizuoka, 52-1 Yada, Suruga-ku, City of Shizuoka, 422-8526, JAPAN
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20
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Yokoyama M, Hirayama Y, Yamamoto T, Kishimoto S, Tsunematsu Y, Watanabe K. Integration of Chemical, Genetic, and Bioinformatic Approaches Delineates Fungal Polyketide–Peptide Hybrid Biosynthesis. Org Lett 2017; 19:2002-2005. [DOI: 10.1021/acs.orglett.7b00559] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Mamoru Yokoyama
- Department of Pharmaceutical
Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Yuichiro Hirayama
- Department of Pharmaceutical
Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Tsuyoshi Yamamoto
- Department of Pharmaceutical
Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Shinji Kishimoto
- Department of Pharmaceutical
Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Yuta Tsunematsu
- Department of Pharmaceutical
Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
| | - Kenji Watanabe
- Department of Pharmaceutical
Sciences, University of Shizuoka, Shizuoka 422-8526, Japan
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21
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Chalupa D, Vojáčková P, Partl J, Pavlović D, Nečas M, Švenda J. Enantioselective Synthesis of Cephalimysins B and C. Org Lett 2017; 19:750-753. [DOI: 10.1021/acs.orglett.6b03373] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- David Chalupa
- Department
of Chemistry, Masaryk University, Brno, 625 00, Czech Republic
| | - Petra Vojáčková
- Department
of Chemistry, Masaryk University, Brno, 625 00, Czech Republic
| | - Jiří Partl
- Department
of Chemistry, Masaryk University, Brno, 625 00, Czech Republic
| | - Dražen Pavlović
- Department
of Chemistry, Masaryk University, Brno, 625 00, Czech Republic
- International
Clinical Research Center, St. Anne’s University Hospital, Brno, 656 91, Czech Republic
| | - Marek Nečas
- Department
of Chemistry, Masaryk University, Brno, 625 00, Czech Republic
| | - Jakub Švenda
- Department
of Chemistry, Masaryk University, Brno, 625 00, Czech Republic
- International
Clinical Research Center, St. Anne’s University Hospital, Brno, 656 91, Czech Republic
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