1
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Runda ME, de Kok NAW, Schmidt S. Rieske Oxygenases and Other Ferredoxin-Dependent Enzymes: Electron Transfer Principles and Catalytic Capabilities. Chembiochem 2023; 24:e202300078. [PMID: 36964978 DOI: 10.1002/cbic.202300078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Revised: 03/24/2023] [Accepted: 03/24/2023] [Indexed: 03/27/2023]
Abstract
Enzymes that depend on sophisticated electron transfer via ferredoxins (Fds) exhibit outstanding catalytic capabilities, but despite decades of research, many of them are still not well understood or exploited for synthetic applications. This review aims to provide a general overview of the most important Fd-dependent enzymes and the electron transfer processes involved. While several examples are discussed, we focus in particular on the family of Rieske non-heme iron-dependent oxygenases (ROs). In addition to illustrating their electron transfer principles and catalytic potential, the current state of knowledge on structure-function relationships and the mode of interaction between the redox partner proteins is reviewed. Moreover, we highlight several key catalyzed transformations, but also take a deeper dive into their engineerability for biocatalytic applications. The overall findings from these case studies highlight the catalytic capabilities of these biocatalysts and could stimulate future interest in developing additional Fd-dependent enzyme classes for synthetic applications.
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Affiliation(s)
- Michael E Runda
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713 AV, Groningen, The Netherlands
| | - Niels A W de Kok
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713 AV, Groningen, The Netherlands
| | - Sandy Schmidt
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713 AV, Groningen, The Netherlands
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2
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Structures, biosynthesis, and bioactivities of prodiginine natural products. Appl Microbiol Biotechnol 2022; 106:7721-7735. [DOI: 10.1007/s00253-022-12245-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Revised: 10/06/2022] [Accepted: 10/12/2022] [Indexed: 11/17/2022]
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3
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Pati SG, Bopp CE, Kohler HPE, Hofstetter TB. Substrate-Specific Coupling of O 2 Activation to Hydroxylations of Aromatic Compounds by Rieske Non-heme Iron Dioxygenases. ACS Catal 2022; 12:6444-6456. [PMID: 35692249 PMCID: PMC9171724 DOI: 10.1021/acscatal.2c00383] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2022] [Revised: 04/09/2022] [Indexed: 02/07/2023]
Abstract
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Rieske dioxygenases
catalyze the initial steps in the hydroxylation
of aromatic compounds and are critical for the metabolism of xenobiotic
substances. Because substrates do not bind to the mononuclear non-heme
FeII center, elementary steps leading to O2 activation
and substrate hydroxylation are difficult to delineate, thus making
it challenging to rationalize divergent observations on enzyme mechanisms,
reactivity, and substrate specificity. Here, we show for nitrobenzene
dioxygenase, a Rieske dioxygenase capable of transforming nitroarenes
to nitrite and substituted catechols, that unproductive O2 activation with the release of the unreacted substrate and reactive
oxygen species represents an important path in the catalytic cycle.
Through correlation of O2 uncoupling for a series of substituted
nitroaromatic compounds with 18O and 13C kinetic
isotope effects of dissolved O2 and aromatic substrates,
respectively, we show that O2 uncoupling occurs after the
rate-limiting formation of FeIII-(hydro)peroxo species
from which substrates are hydroxylated. Substituent effects on the
extent of O2 uncoupling suggest that the positioning of
the substrate in the active site rather than the susceptibility of
the substrate for attack by electrophilic oxygen species is responsible
for unproductive O2 uncoupling. The proposed catalytic
cycle provides a mechanistic basis for assessing the very different
efficiencies of substrate hydroxylation vs unproductive O2 activation and generation of reactive oxygen species in reactions
catalyzed by Rieske dioxygenases.
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Affiliation(s)
- Sarah G. Pati
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, 8600 Dübendorf, Switzerland
- Institute of Biogeochemistry and Pollutant Dynamics (IBP), ETH Zürich, 8092 Zürich, Switzerland
| | - Charlotte E. Bopp
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, 8600 Dübendorf, Switzerland
- Institute of Biogeochemistry and Pollutant Dynamics (IBP), ETH Zürich, 8092 Zürich, Switzerland
| | - Hans-Peter E. Kohler
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, 8600 Dübendorf, Switzerland
| | - Thomas B. Hofstetter
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, 8600 Dübendorf, Switzerland
- Institute of Biogeochemistry and Pollutant Dynamics (IBP), ETH Zürich, 8092 Zürich, Switzerland
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4
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5
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Kurzydłowski D, Chumak T, Rogoża J, Listkowski A. Hydrogen-Bonded Cyclic Dimers at Large Compression: The Case of 1 H-pyrrolo[3,2- h]quinoline and 2-(2'-pyridyl)pyrrole. Molecules 2021; 26:molecules26133802. [PMID: 34206494 PMCID: PMC8270273 DOI: 10.3390/molecules26133802] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Revised: 06/18/2021] [Accepted: 06/19/2021] [Indexed: 11/17/2022] Open
Abstract
1H-pyrrolo[3,2-h]qinoline (PQ) and 2-(2′-pyridyl)pyrrole (PP) are important systems in the study of proton-transfer reactions. These molecules possess hydrogen bond donor (pyrrole) and acceptor (pyridine) groups, which leads to the formation of cyclic dimers in their crystals. Herein, we present a joint experimental (Raman scattering) and computational (DFT modelling) study on the high-pressure behaviour of PQ and PP molecular crystals. Our results indicate that compression up to 10 GPa (100 kbar) leads to considerable strengthening of the intermolecular hydrogen bond within the cyclic dimers. However, the intramolecular N–H∙∙∙N interaction is either weakly affected by pressure, as witnessed in PQ, or weakened due to compression-induced distortions of the molecule, as was found for PP. Therefore, we propose that the compression of these systems should facilitate double proton transfer within the cyclic dimers of PQ and PP, while intramolecular transfer should either remain unaffected (for PQ) or weakened (for PP).
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Affiliation(s)
- Dominik Kurzydłowski
- Faculty of Mathematics and Natural Sciences, Cardinal Stefan Wyszyński University, 01-038 Warsaw, Poland; (T.C.); (A.L.)
- Correspondence:
| | - Taisiia Chumak
- Faculty of Mathematics and Natural Sciences, Cardinal Stefan Wyszyński University, 01-038 Warsaw, Poland; (T.C.); (A.L.)
| | - Jakub Rogoża
- Faculty of Physics, University of Warsaw, 02-093 Warsaw, Poland;
| | - Arkadiusz Listkowski
- Faculty of Mathematics and Natural Sciences, Cardinal Stefan Wyszyński University, 01-038 Warsaw, Poland; (T.C.); (A.L.)
- Institute of Physical Chemistry, Polish Academy of Sciences, 01-224 Warsaw, Poland
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6
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Abstract
Inflammatory processes occur as a generic response of the immune system and can be triggered by various factors, such as infection with pathogenic microorganisms or damaged tissue. Due to the complexity of the inflammation process and its role in common diseases like asthma, cancer, skin disorders or Alzheimer's disease, anti-inflammatory drugs are of high pharmaceutical interest. Nature is a rich source for compounds with anti-inflammatory properties. Several studies have focused on the structural optimization of natural products to improve their pharmacological properties. As derivatization through total synthesis is often laborious with low yields and limited stereoselectivity, the use of biosynthetic, enzyme-driven reactions is an attractive alternative for synthesizing and modifying complex bioactive molecules. In this minireview, we present an outline of the biotechnological methods used to derivatize anti-inflammatory natural products, including precursor-directed biosynthesis, mutasynthesis, combinatorial biosynthesis, as well as whole-cell and in vitro biotransformation.
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Affiliation(s)
- Lea Winand
- Department of Biochemical and Chemical EngineeringLaboratory of Technical BiologyTU Dortmund UniversityEmil-Figge-Strasse 6644227DortmundGermany
| | - Angela Sester
- Department of Biochemical and Chemical EngineeringLaboratory of Technical BiologyTU Dortmund UniversityEmil-Figge-Strasse 6644227DortmundGermany
- Current address: Chair of Technical BiochemistryTechnical University of DresdenBergstrasse 6601069DresdenGermany
| | - Markus Nett
- Department of Biochemical and Chemical EngineeringLaboratory of Technical BiologyTU Dortmund UniversityEmil-Figge-Strasse 6644227DortmundGermany
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7
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Structural basis for divergent C-H hydroxylation selectivity in two Rieske oxygenases. Nat Commun 2020; 11:2991. [PMID: 32532989 PMCID: PMC7293229 DOI: 10.1038/s41467-020-16729-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Accepted: 05/15/2020] [Indexed: 12/05/2022] Open
Abstract
Biocatalysts that perform C–H hydroxylation exhibit exceptional substrate specificity and site-selectivity, often through the use of high valent oxidants to activate these inert bonds. Rieske oxygenases are examples of enzymes with the ability to perform precise mono- or dioxygenation reactions on a variety of substrates. Understanding the structural features of Rieske oxygenases responsible for control over selectivity is essential to enable the development of this class of enzymes for biocatalytic applications. Decades of research has illuminated the critical features common to Rieske oxygenases, however, structural information for enzymes that functionalize diverse scaffolds is limited. Here, we report the structures of two Rieske monooxygenases involved in the biosynthesis of paralytic shellfish toxins (PSTs), SxtT and GxtA, adding to the short list of structurally characterized Rieske oxygenases. Based on these structures, substrate-bound structures, and mutagenesis experiments, we implicate specific residues in substrate positioning and the divergent reaction selectivity observed in these two enzymes. Rieske oxygenases are iron-dependent enzymes that catalyse C–H mono- and dihydroxylation reactions. Here, the authors characterise two cyanobacterial Rieske oxygenases, SxtT and GxtA that are involved in the biosynthesis of paralytic shellfish toxins and determine their substrate free and saxitoxin analog-bound crystal structures and by using mutagenesis experiments identify residues, which are important for substrate positioning and reaction selectivity.
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Vitale GA, Sciarretta M, Palma Esposito F, January GG, Giaccio M, Bunk B, Spröer C, Bajerski F, Power D, Festa C, Monti MC, D'Auria MV, de Pascale D. Genomics-Metabolomics Profiling Disclosed Marine Vibrio spartinae 3.6 as a Producer of a New Branched Side Chain Prodigiosin. JOURNAL OF NATURAL PRODUCTS 2020; 83:1495-1504. [PMID: 32275146 DOI: 10.1021/acs.jnatprod.9b01159] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
A wide range of prescreening tests for antimicrobial activity of 59 bacterial isolates from sediments of Ria Formosa Lagoon (Algarve, Portugal) disclosed Vibrio spartinae 3.6 as the most active antibacterial producing strain. This bacterial strain, which has not previously been submitted for chemical profiling, was subjected to de novo whole genome sequencing, which aided in the discovery and elucidation of a prodigiosin biosynthetic gene cluster that was predicted by the bioinformatic tool KEGG BlastKoala. Comparative genomics led to the identification of a new membrane di-iron oxygenase-like enzyme, annotated as Vspart_02107, which is likely to be involved in the biosynthesis of cycloprodigiosin and analogues. The combined genomics-metabolomics profiling of the strain led to the isolation and identification of one new branched-chain prodigiosin (5) and to the detection of two new cyclic forms. Furthermore, the evaluation of the minimum inhibitory concentrations disclosed the major prodigiosin as very effective against multi-drug-resistant pathogens including Stenotrophomonas maltophilia, a clinical isolate of Listeria monocytogenes, as well as some human pathogens reported by the World Health Organization as prioritized targets.
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Affiliation(s)
- Giovanni Andrea Vitale
- Institute of Biochemistry and Cellular Biology, National Research Council (IBBC-CNR), Via Pietro Castellino 111, I-80131 Naples, Italy
| | - Martina Sciarretta
- Department of Pharmacy, University of Naples "Federico II" (UNINA), Via Domenico Montesanto, 49, I-80131 Naples, Italy
| | - Fortunato Palma Esposito
- Institute of Biochemistry and Cellular Biology, National Research Council (IBBC-CNR), Via Pietro Castellino 111, I-80131 Naples, Italy
- Stazione Zoologica Anton Dohrn (SZN), Villa Comunale di Napoli, I-80121 Naples, Italy
| | - Grant Garren January
- Institute of Biochemistry and Cellular Biology, National Research Council (IBBC-CNR), Via Pietro Castellino 111, I-80131 Naples, Italy
| | - Marianna Giaccio
- Institute of Biochemistry and Cellular Biology, National Research Council (IBBC-CNR), Via Pietro Castellino 111, I-80131 Naples, Italy
| | - Boyke Bunk
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures GmbH, Inhoffenstraße 7B, 38124 Braunschweig, German
| | - Cathrin Spröer
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures GmbH, Inhoffenstraße 7B, 38124 Braunschweig, German
| | - Felizitas Bajerski
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures GmbH, Inhoffenstraße 7B, 38124 Braunschweig, German
| | - Deborah Power
- Centro de Ciencias do Mar (CCMAR), Universidade do Algarve Campus de Gambelas, 8005-139 Faro, Portugal
| | - Carmen Festa
- Department of Pharmacy, University of Naples "Federico II" (UNINA), Via Domenico Montesanto, 49, I-80131 Naples, Italy
| | - Maria Chiara Monti
- Department of Pharmacy, University of Salerno (UNISA), I-84084 Fisciano, SA, Italy
| | - Maria Valeria D'Auria
- Department of Pharmacy, University of Naples "Federico II" (UNINA), Via Domenico Montesanto, 49, I-80131 Naples, Italy
| | - Donatella de Pascale
- Institute of Biochemistry and Cellular Biology, National Research Council (IBBC-CNR), Via Pietro Castellino 111, I-80131 Naples, Italy
- Stazione Zoologica Anton Dohrn (SZN), Villa Comunale di Napoli, I-80121 Naples, Italy
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9
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Wang M, Xie Z, Tang S, Chang EL, Tang Y, Guo Z, Cui Y, Wu B, Ye T, Chen Y. Reductase of Mutanobactin Synthetase Triggers Sequential C-C Macrocyclization, C-S Bond Formation, and C-C Bond Cleavage. Org Lett 2020; 22:960-964. [PMID: 31917593 DOI: 10.1021/acs.orglett.9b04501] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Mutanobactins (MUBs) and their congeners that contain a macrocycle and/or a thiazepane ring are lipopeptides from Streptococcus mutans, a major causative agent of dental caries. Here we show that the C-terminal reductase domain of MubD releases the lipohexapeptide intermediates in an aldehyde form, which enables a spontaneous C-C macrocyclization. In the presence of a thiol group, the macrocyclized MUBs can further undergo spontaneous C-S bond formation and C-C bond cleavage to generate diverse MUB congeners.
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Affiliation(s)
- Min Wang
- State Key Laboratory of Microbial Resources & CAS Key Laboratory of Microbial Physiological and Metabolic Engineering , Institute of Microbiology, Chinese Academy of Sciences , Beijing 100101 , China.,State Key Laboratory of Chemical Oncogenomics, Key Laboratory of Chemical Genomics , Peking University Shenzhen Graduate School, Tsinghua University Shenzhen International Graduate School , Shenzhen 518055 , China.,University of Chinese Academy of Sciences , Beijing 100049 , China
| | - Zhoujie Xie
- State Key Laboratory of Microbial Resources & CAS Key Laboratory of Microbial Physiological and Metabolic Engineering , Institute of Microbiology, Chinese Academy of Sciences , Beijing 100101 , China
| | - Shoubin Tang
- State Key Laboratory of Chemical Oncogenomics, Key Laboratory of Chemical Genomics , Peking University Shenzhen Graduate School, Tsinghua University Shenzhen International Graduate School , Shenzhen 518055 , China
| | - Ee Ling Chang
- State Key Laboratory of Chemical Oncogenomics, Key Laboratory of Chemical Genomics , Peking University Shenzhen Graduate School, Tsinghua University Shenzhen International Graduate School , Shenzhen 518055 , China
| | - Yue Tang
- State Key Laboratory of Microbial Resources & CAS Key Laboratory of Microbial Physiological and Metabolic Engineering , Institute of Microbiology, Chinese Academy of Sciences , Beijing 100101 , China.,State Key Laboratory of Chemical Oncogenomics, Key Laboratory of Chemical Genomics , Peking University Shenzhen Graduate School, Tsinghua University Shenzhen International Graduate School , Shenzhen 518055 , China.,University of Chinese Academy of Sciences , Beijing 100049 , China
| | - Zhengyan Guo
- State Key Laboratory of Microbial Resources & CAS Key Laboratory of Microbial Physiological and Metabolic Engineering , Institute of Microbiology, Chinese Academy of Sciences , Beijing 100101 , China.,University of Chinese Academy of Sciences , Beijing 100049 , China
| | - Yinglu Cui
- State Key Laboratory of Microbial Resources & CAS Key Laboratory of Microbial Physiological and Metabolic Engineering , Institute of Microbiology, Chinese Academy of Sciences , Beijing 100101 , China
| | - Bian Wu
- State Key Laboratory of Microbial Resources & CAS Key Laboratory of Microbial Physiological and Metabolic Engineering , Institute of Microbiology, Chinese Academy of Sciences , Beijing 100101 , China.,University of Chinese Academy of Sciences , Beijing 100049 , China
| | - Tao Ye
- State Key Laboratory of Chemical Oncogenomics, Key Laboratory of Chemical Genomics , Peking University Shenzhen Graduate School, Tsinghua University Shenzhen International Graduate School , Shenzhen 518055 , China
| | - Yihua Chen
- State Key Laboratory of Microbial Resources & CAS Key Laboratory of Microbial Physiological and Metabolic Engineering , Institute of Microbiology, Chinese Academy of Sciences , Beijing 100101 , China.,University of Chinese Academy of Sciences , Beijing 100049 , China
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10
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Tong M, Bai X, Meng X, Wang J, Wang T, Zhu X, Mao B. Enantioselective synthesis of α-amino esters through Petasis borono-Mannich multicomponent reaction of potassium trifluoroborate salts. JOURNAL OF CHEMICAL RESEARCH 2019. [DOI: 10.1177/1747519819876822] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Enantioselective synthesis of α-amino esters have been achieved through the Petasis borono-Mannich multicomponent reaction using ( R)-BINOL-derived catalysts with stable heteroaryl and alkenyl trifluoroborate salts under mild conditions. The reaction provides direct access to optically active α-amino esters with moderate to good yields and enantioselectivities.
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Affiliation(s)
- Mengnan Tong
- Key Laboratory of Pharmaceutical Engineering of Ministry of Education, College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou, P.R. China
| | - Xiang Bai
- Key Laboratory of Pharmaceutical Engineering of Ministry of Education, College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou, P.R. China
| | - Xin Meng
- Key Laboratory of Pharmaceutical Engineering of Ministry of Education, College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou, P.R. China
| | - Jianfei Wang
- Key Laboratory of Pharmaceutical Engineering of Ministry of Education, College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou, P.R. China
| | - Tao Wang
- Collaborative Innovation Center of Yangtze River Delta Region Green Pharmaceuticals, College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou, P.R. China
| | - Xingyi Zhu
- Key Laboratory of Pharmaceutical Engineering of Ministry of Education, College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou, P.R. China
| | - Bin Mao
- Collaborative Innovation Center of Yangtze River Delta Region Green Pharmaceuticals, College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou, P.R. China
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11
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Sinha A, Phillips-Salemka S, Niraula TA, Short KA, Niraula NP. The complete genomic sequence of Streptomyces spectabilis NRRL-2792 and identification of secondary metabolite biosynthetic gene clusters. J Ind Microbiol Biotechnol 2019; 46:1217-1223. [PMID: 31197515 DOI: 10.1007/s10295-019-02172-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2018] [Accepted: 04/03/2019] [Indexed: 10/26/2022]
Abstract
This is the first report of a fully annotated genomic sequence of Streptomyces spectabilis NRRL-2792, isolated and identified by The Upjohn Company in 1961. The genome was assembled into a single scaffold for annotation and analysis. The chromosome is linear, 9.5 Mb in size which is one of the largest Streptomyces genomes yet described, has a G+C content of 72%, and encodes for approximately 7943 genes. Antibiotic Secondary Metabolite Analysis Shell (antiSMASH) and Basic Local Alignment Search Tool (BLAST) bioinformatics analyses identified six complete secondary metabolite biosynthetic gene clusters for ectoine, melanin, albaflavenone, spectinomycin, 2-methylisoborneol and coelichelin. Additionally, biosynthetic clusters were identified that shared ≥ 90% gene content with complestatin, hopene, neoaureothin, or undecylprodigiosin. Thirty-one other likely secondary metabolite gene clusters were identified by antiSMASH. BLAST identified two subsets of undecylprodigiosin biosynthetic genes at polar opposites of the chromosome; their duplication was subsequently confirmed by primer walking.
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Affiliation(s)
- Arkadeep Sinha
- Bioprocess Development Group, Pfizer, 7000 Portage Rd, Kalamazoo, 49001, USA
| | | | | | - Kevin A Short
- Bioprocess Development Group, Pfizer, 7000 Portage Rd, Kalamazoo, 49001, USA
| | - Narayan P Niraula
- Bioprocess Development Group, Pfizer, 7000 Portage Rd, Kalamazoo, 49001, USA.
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12
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Rogers MS, Lipscomb JD. Salicylate 5-Hydroxylase: Intermediates in Aromatic Hydroxylation by a Rieske Monooxygenase. Biochemistry 2019; 58:5305-5319. [PMID: 31066545 DOI: 10.1021/acs.biochem.9b00292] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Rieske oxygenases (ROs) catalyze a large range of oxidative chemistry. We have shown that cis-dihydrodiol-forming Rieske dioxygenases first react with their aromatic substrates via an active site nonheme Fe(III)-superoxide; electron transfer from the Rieske cluster then completes the product-forming reaction. Alternatively, two-electron-reduced Fe(III)-peroxo or hydroxo-Fe(V)-oxo activated oxygen intermediates are possible and may be utilized by other ROs to expand the catalytic range. Here, the reaction of a Rieske monooxygenase, salicylate 5-hydroxylase, that does not form a cis-dihydrodiol is examined. Single-turnover kinetic studies show fast binding of salicylate and O2. Transfer of the Rieske electron required to form the gentisate product occurs through bonds over ∼12 Å and must also be very fast. However, the observed rate constant for this reaction is much slower than expected and sensitive to substrate type. This suggests that initial reaction with salicylate occurs using the same Fe(III)-superoxo-level intermediate as Rieske dioxygenases and that this reaction limits the observed rate of electron transfer. A transient intermediate (λmax = 700 nm) with an electron paramagnetic resonance (EPR) at g = 4.3 is observed after the product is formed in the active site. The use of 17O2 (I = 5/2) results in hyperfine broadening of the g = 4.3 signal, showing that gentisate binds to the mononuclear iron via its C5-OH in the intermediate. The chromophore and EPR signal allow study of product release in the catalytic cycle. Comparison of the kinetics of single- and multiple-turnover reactions shows that re-reduction of the metal centers accelerates product release ∼300-fold, providing insight into the regulatory mechanism of ROs.
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Affiliation(s)
- Melanie S Rogers
- Department of Biochemistry, Molecular Biology, and Biophysics and Center for Metals in Biocatalysis , University of Minnesota , Minneapolis , Minnesota 55455 , United States
| | - John D Lipscomb
- Department of Biochemistry, Molecular Biology, and Biophysics and Center for Metals in Biocatalysis , University of Minnesota , Minneapolis , Minnesota 55455 , United States
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13
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Zhang X, Zhang C, Wang X, Liang G. Mild Friedel-Crafts Reactions Enable a Robust Synthesis of Roseophilin. Org Lett 2019; 21:3357-3360. [PMID: 31008613 DOI: 10.1021/acs.orglett.9b01100] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
An 11-step total synthesis of either enantiomer of roseophilin has been developed. The chemistry features effective production of a challenging carbocation on a macrocyclic segment 25 and a highly efficient intermolecular Friedel-Crafts alkylation reaction to integrate a complex furan-pyrrole unit 5 regioselectively with this carbocation under very mild reaction conditions.
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Affiliation(s)
- Xiao Zhang
- State Key Laboratory of Elemento-Organic Chemistry, College of Chemistry , Nankai University , Tianjin 300071 , China
| | - Cuifang Zhang
- State Key Laboratory of Elemento-Organic Chemistry, College of Chemistry , Nankai University , Tianjin 300071 , China
| | - Xiaobin Wang
- State Key Laboratory of Elemento-Organic Chemistry, College of Chemistry , Nankai University , Tianjin 300071 , China
| | - Guangxin Liang
- State Key Laboratory of Elemento-Organic Chemistry, College of Chemistry , Nankai University , Tianjin 300071 , China
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14
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Picott KJ, Deichert JA, deKemp EM, Schatte G, Sauriol F, Ross AC. Isolation and characterization of tambjamine MYP1, a macrocyclic tambjamine analogue from marine bacterium Pseudoalteromonas citrea. MEDCHEMCOMM 2019; 10:478-483. [PMID: 31015911 DOI: 10.1039/c9md00061e] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Accepted: 02/28/2019] [Indexed: 02/02/2023]
Abstract
Tambjamines are natural products that consist of a conserved bipyrrole core functionalized with different imines giving rise to many derivatives. The core structure of tambjamines allows ion coordination through the nitrogen atoms, which is a key aspect in many of their observed antimicrobial, anticancer, and antimalarial bioactivities. Minor variances in the compound structure have a considerable impact on the potency of these activities, so identifying new analogues is valuable for maximizing tambjamine biological potential. In this work, we describe the isolation and structure elucidation of the first naturally occurring macrocyclized tambjamine, tambjamine MYP1, from the marine microbe Pseudoalteromonas citrea. We also compare the apparent pK a of cyclic and linear tambjamine analogues and discuss how structural strain may effect the compound's ion coordination abilities.
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Affiliation(s)
| | - Julie A Deichert
- Department of Chemistry , Queen's University , Kingston , ON , Canada .
| | - Ella M deKemp
- Department of Chemistry , Queen's University , Kingston , ON , Canada .
| | - Gabriele Schatte
- Department of Chemistry , Queen's University , Kingston , ON , Canada .
| | - Françoise Sauriol
- Department of Chemistry , Queen's University , Kingston , ON , Canada .
| | - Avena C Ross
- Department of Chemistry , Queen's University , Kingston , ON , Canada .
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16
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Abstract
The Natural Product Reports themed issue on ‘Metalloenzymes in natural product biosynthetic pathways’ is introduced by the Guest Editors, Katherine Ryan and Catherine Drennan.
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Affiliation(s)
- Katherine S Ryan
- Department of Chemistry, The University of British Columbia, 2036 Main Mall, Vancouver, BC, CanadaV6T 1Z1.
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17
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Klein AS, Brass HUC, Klebl DP, Classen T, Loeschcke A, Drepper T, Sievers S, Jaeger KE, Pietruszka J. Preparation of Cyclic Prodiginines by Mutasynthesis in Pseudomonas putida KT2440. Chembiochem 2018; 19:1545-1552. [PMID: 29719131 DOI: 10.1002/cbic.201800154] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2018] [Indexed: 12/12/2022]
Abstract
Prodiginines are a group of naturally occurring pyrrole alkaloids produced by various microorganisms and known for their broad biological activities. The production of nature-inspired cyclic prodiginines was enabled by combining organic synthesis with a mutasynthesis approach based on the GRAS (generally recognized as safe) certified host strain Pseudomonas putida KT2440. The newly prepared prodiginines exerted antimicrobial effects against relevant alternative biotechnological microbial hosts whereas P. putida itself exhibited remarkable tolerance against all tested prodiginines, thus corroborating the bacterium's exceptional suitability as a mutasynthesis host for the production of these cytotoxic secondary metabolites. Moreover, the produced cyclic prodiginines proved to be autophagy modulators in human breast cancer cells. One promising cyclic prodiginine derivative stood out, being twice as potent as prodigiosin, the most prominent member of the prodiginine family, and its synthetic derivative obatoclax mesylate.
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Affiliation(s)
- Andreas Sebastian Klein
- Institute of Bioorganic Chemistry, Heinrich Heine University Düsseldorf located at Forschungszentrum Jülich, Stetternicher Forst, Building 15.8, 52426, Jülich, Germany
| | - Hannah Ursula Clara Brass
- Institute of Bioorganic Chemistry, Heinrich Heine University Düsseldorf located at Forschungszentrum Jülich, Stetternicher Forst, Building 15.8, 52426, Jülich, Germany
| | - David Paul Klebl
- Institute of Bioorganic Chemistry, Heinrich Heine University Düsseldorf located at Forschungszentrum Jülich, Stetternicher Forst, Building 15.8, 52426, Jülich, Germany
| | - Thomas Classen
- Insitute of Bio- and Geosciences (IBG-1): Biotechnology, Forschungszentrum Jülich GmbH, Stetternicher Forst, Building 15.8, 52425, Jülich, Germany
| | - Anita Loeschcke
- Institute of Molecular Enzyme Technology, Heinrich Heine University Düsseldorf located at Forschungszentrum Jülich, Stetternicher Forst, Building 15.8, 52426, Jülich, Germany
| | - Thomas Drepper
- Institute of Molecular Enzyme Technology, Heinrich Heine University Düsseldorf located at Forschungszentrum Jülich, Stetternicher Forst, Building 15.8, 52426, Jülich, Germany
| | - Sonja Sievers
- Compound Management and Screening Center (COMAS), Max Planck Institute of Molecular Physiology, 44202, Dortmund, Germany
| | - Karl-Erich Jaeger
- Insitute of Bio- and Geosciences (IBG-1): Biotechnology, Forschungszentrum Jülich GmbH, Stetternicher Forst, Building 15.8, 52425, Jülich, Germany.,Institute of Molecular Enzyme Technology, Heinrich Heine University Düsseldorf located at Forschungszentrum Jülich, Stetternicher Forst, Building 15.8, 52426, Jülich, Germany
| | - Jörg Pietruszka
- Institute of Bioorganic Chemistry, Heinrich Heine University Düsseldorf located at Forschungszentrum Jülich, Stetternicher Forst, Building 15.8, 52426, Jülich, Germany.,Insitute of Bio- and Geosciences (IBG-1): Biotechnology, Forschungszentrum Jülich GmbH, Stetternicher Forst, Building 15.8, 52425, Jülich, Germany
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18
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Perry C, de los Santos EC, Alkhalaf LM, Challis GL. Rieske non-heme iron-dependent oxygenases catalyse diverse reactions in natural product biosynthesis. Nat Prod Rep 2018; 35:622-632. [DOI: 10.1039/c8np00004b] [Citation(s) in RCA: 39] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
The role played by Rieske non-heme iron-dependent oxygenases in natural product biosyntheses is reviewed, with particular focus on experimentally characterised examples.
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Affiliation(s)
| | | | | | - Gregory L. Challis
- Department of Chemistry
- University of Warwick
- Coventry CV4 7AL
- UK
- Warwick Integrative Synthetic Biology Centre
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19
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de Rond T, Stow P, Eigl I, Johnson RE, Chan LJG, Goyal G, Baidoo EEK, Hillson NJ, Petzold CJ, Sarpong R, Keasling JD. Oxidative cyclization of prodigiosin by an alkylglycerol monooxygenase-like enzyme. Nat Chem Biol 2017; 13:1155-1157. [PMID: 28892091 PMCID: PMC5677514 DOI: 10.1038/nchembio.2471] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Accepted: 07/26/2017] [Indexed: 11/08/2022]
Abstract
Prodiginines, which are tripyrrole alkaloids displaying a wide array of bioactivities, occur as linear and cyclic congeners. Identification of an unclustered biosynthetic gene led to the discovery of the enzyme responsible for catalyzing the regiospecific C-H activation and cyclization of prodigiosin to cycloprodigiosin in Pseudoalteromonas rubra. This enzyme is related to alkylglycerol monooxygenase and unrelated to RedG, the Rieske oxygenase that produces cyclized prodiginines in Streptomyces, implying convergent evolution.
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Affiliation(s)
- Tristan de Rond
- Department of Chemistry, University of California, Berkeley, California, USA
| | - Parker Stow
- Department of Chemistry, University of California, Berkeley, California, USA
| | - Ian Eigl
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California, USA
| | - Rebecca E Johnson
- Department of Chemistry, University of California, Berkeley, California, USA
| | - Leanne Jade G Chan
- DOE Joint BioEnergy Institute, Emeryville, California, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Lab, Berkeley, California, USA
| | - Garima Goyal
- DOE Joint BioEnergy Institute, Emeryville, California, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Lab, Berkeley, California, USA
| | - Edward E K Baidoo
- DOE Joint BioEnergy Institute, Emeryville, California, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Lab, Berkeley, California, USA
| | - Nathan J Hillson
- DOE Joint BioEnergy Institute, Emeryville, California, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Lab, Berkeley, California, USA
- DOE Joint Genome Institute, Walnut Creek, California, USA
| | - Christopher J Petzold
- DOE Joint BioEnergy Institute, Emeryville, California, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Lab, Berkeley, California, USA
| | - Richmond Sarpong
- Department of Chemistry, University of California, Berkeley, California, USA
| | - Jay D Keasling
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California, USA
- DOE Joint BioEnergy Institute, Emeryville, California, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Lab, Berkeley, California, USA
- Department of Bioengineering and California Institute for Quantitative Biosciences, University of California, Berkeley, California, USA
- Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Hørsholm, Denmark
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20
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Som NF, Heine D, Holmes N, Knowles F, Chandra G, Seipke RF, Hoskisson PA, Wilkinson B, Hutchings MI. The MtrAB two-component system controls antibiotic production in Streptomyces coelicolor A3(2). MICROBIOLOGY (READING, ENGLAND) 2017; 163:1415-1419. [PMID: 28884676 PMCID: PMC5845573 DOI: 10.1099/mic.0.000524] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/03/2017] [Accepted: 08/15/2017] [Indexed: 12/24/2022]
Abstract
MtrAB is a highly conserved two-component system implicated in the regulation of cell division in the Actinobacteria. It coordinates DNA replication with cell division in the unicellular Mycobacterium tuberculosis and links antibiotic production to sporulation in the filamentous Streptomyces venezuelae. Chloramphenicol biosynthesis is directly regulated by MtrA in S. venezuelae and deletion of mtrB constitutively activates MtrA and results in constitutive over-production of chloramphenicol. Here we report that in Streptomyces coelicolor, MtrA binds to sites upstream of developmental genes and the genes encoding ActII-1, ActII-4 and RedZ, which are cluster-situated regulators of the antibiotics actinorhodin (Act) and undecylprodigiosin (Red). Consistent with this, deletion of mtrB switches on the production of Act, Red and streptorubin B, a product of the Red pathway. Thus, we propose that MtrA is a key regulator that links antibiotic production to development and can be used to upregulate antibiotic production in distantly related streptomycetes.
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Affiliation(s)
- Nicolle F. Som
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK
| | - Daniel Heine
- Department of Molecular Microbiology, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Neil Holmes
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK
| | - Felicity Knowles
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK
| | - Govind Chandra
- Department of Molecular Microbiology, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Ryan F. Seipke
- School of Molecular and Cellular Biology, Astbury Centre for Structural Molecular Biology, University of Leeds, Leeds, LS2 9JT, UK
| | - Paul A. Hoskisson
- Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, 161, Cathedral Street, Glasgow, G4 0RE, UK
| | - Barrie Wilkinson
- Department of Molecular Microbiology, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Matthew I. Hutchings
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK
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21
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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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22
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Brown PD, Lawrence AL. The importance of asking “how and why?” in natural product structure elucidation. Nat Prod Rep 2017; 34:1193-1202. [DOI: 10.1039/c7np00025a] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This review highlights why careful consideration of the biosynthetic origin (the how) and the biological function (the why) of a natural product can be so useful during the determination of its structure.
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Affiliation(s)
- Patrick D. Brown
- EaStCHEM School of Chemistry
- University of Edinburgh
- Joseph Black Building
- Edinburgh
- UK
| | - Andrew L. Lawrence
- EaStCHEM School of Chemistry
- University of Edinburgh
- Joseph Black Building
- Edinburgh
- UK
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23
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Li J, Zhang Q, Yin J, Yu C, Cheng K, Wei Y, Hao E, Jiao L. Metal-Free and Versatile Synthetic Routes to Natural and Synthetic Prodiginines from Boron Dipyrrin. Org Lett 2016; 18:5696-5699. [DOI: 10.1021/acs.orglett.6b02924] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jin Li
- Laboratory
of Functional
Molecular Solids, Ministry of Education; School of Chemistry and Materials
Science, Anhui Normal University, Wuhu 241000, China
| | - Qian Zhang
- Laboratory
of Functional
Molecular Solids, Ministry of Education; School of Chemistry and Materials
Science, Anhui Normal University, Wuhu 241000, China
| | - Jian Yin
- Laboratory
of Functional
Molecular Solids, Ministry of Education; School of Chemistry and Materials
Science, Anhui Normal University, Wuhu 241000, China
| | - Changjiang Yu
- Laboratory
of Functional
Molecular Solids, Ministry of Education; School of Chemistry and Materials
Science, Anhui Normal University, Wuhu 241000, China
| | - Kai Cheng
- Laboratory
of Functional
Molecular Solids, Ministry of Education; School of Chemistry and Materials
Science, Anhui Normal University, Wuhu 241000, China
| | - Yun Wei
- Laboratory
of Functional
Molecular Solids, Ministry of Education; School of Chemistry and Materials
Science, Anhui Normal University, Wuhu 241000, China
| | - Erhong Hao
- Laboratory
of Functional
Molecular Solids, Ministry of Education; School of Chemistry and Materials
Science, Anhui Normal University, Wuhu 241000, China
| | - Lijuan Jiao
- Laboratory
of Functional
Molecular Solids, Ministry of Education; School of Chemistry and Materials
Science, Anhui Normal University, Wuhu 241000, China
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24
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Mechanistic insights into class B radical-S-adenosylmethionine methylases: ubiquitous tailoring enzymes in natural product biosynthesis. Curr Opin Chem Biol 2016; 35:73-79. [PMID: 27632683 DOI: 10.1016/j.cbpa.2016.08.021] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2016] [Accepted: 08/23/2016] [Indexed: 01/06/2023]
Abstract
Class B radical S-adenosylmethionine (SAM) methylases are notable for their ability to catalyse methylation reactions in the biosynthesis of a wide variety of natural products, including polyketides, ribosomally biosynthesised and post-translationally modified peptides (RiPPs), nonribosomal peptides (NRPs), aminoglycosides, β-lactams, phosphonates, enediynes, aminocoumarins and terpenes. Here, we discuss the diversity of substrates and catalytic mechanism utilised by such enzymes, highlighting the stereochemical course of methylation reactions at un-activated carbon centres and the ability of some members of the family to catalyse multiple methylations.
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25
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Hu DX, Withall DM, Challis GL, Thomson RJ. Structure, Chemical Synthesis, and Biosynthesis of Prodiginine Natural Products. Chem Rev 2016; 116:7818-53. [PMID: 27314508 PMCID: PMC5555159 DOI: 10.1021/acs.chemrev.6b00024] [Citation(s) in RCA: 108] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
The prodiginine family of bacterial alkaloids is a diverse set of heterocyclic natural products that have likely been known to man since antiquity. In more recent times, these alkaloids have been discovered to span a wide range of chemical structures that possess a number of interesting biological activities. This review provides a comprehensive overview of research undertaken toward the isolation and structural elucidation of the prodiginine family of natural products. Additionally, research toward chemical synthesis of the prodiginine alkaloids over the last several decades is extensively reviewed. Finally, the current, evidence-based understanding of the various biosynthetic pathways employed by bacteria to produce prodiginine alkaloids is summarized.
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Affiliation(s)
- Dennis X. Hu
- Department of Chemistry, Northwestern University, Evanston, Illinois 60208, United States
| | - David M. Withall
- Department of Chemistry, University of Warwick, Coventry CV4 7AL, United Kingdom
| | - Gregory L. Challis
- Department of Chemistry, University of Warwick, Coventry CV4 7AL, United Kingdom
| | - Regan J. Thomson
- Department of Chemistry, Northwestern University, Evanston, Illinois 60208, United States
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26
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Romero-Rodríguez A, Ruiz-Villafán B, Tierrafría VH, Rodríguez-Sanoja R, Sánchez S. Carbon Catabolite Regulation of Secondary Metabolite Formation and Morphological Differentiation in Streptomyces coelicolor. Appl Biochem Biotechnol 2016; 180:1152-1166. [PMID: 27372741 DOI: 10.1007/s12010-016-2158-9] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2016] [Accepted: 06/03/2016] [Indexed: 10/21/2022]
Abstract
In the genus Streptomyces, carbon utilization is of significant importance for the expression of genes involved in morphological differentiation and antibiotic production. However, there is little information about the mechanism involved in these effects. In the present work, it was found that glucose exerted a suppressive effect on the Streptomyces coelicolor actinorhodin (Act) and undecylprodigiosin (Red) production, as well as in its morphological differentiation. Accordingly, using a high-density microarray approach in S. coelicolor grown under glucose repression, at early growth stages, a negative effect was exerted on the transcription of genes involved in Act and Red production, when compared with non-repressive conditions. Seven genes of Act and at least ten genes of Red production were down-regulated by glucose. Stronger repression was observed on the initial steps of antibiotics formation. On the contrary, the coelimycin P1 cluster was up-regulated by glucose. Regarding differentiation, no sporulation was observed in the presence of glucose and expression of a set of genes of the bld cascade was repressed as well as chaplins and rodlins genes. Finally, a series of transcriptional regulators involved in both processes were up- or down-regulated by glucose. This is the first global transcriptomic approach performed to understand the molecular basis of the glucose effect on the synthesis of secondary metabolism and differentiation in the genus Streptomyces. The results of this study are opening new avenues for further exploration.
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Affiliation(s)
- A Romero-Rodríguez
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Cd. de Mexico, Mexico
| | - B Ruiz-Villafán
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Cd. de Mexico, Mexico
| | - V H Tierrafría
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Cd. de Mexico, Mexico
| | - R Rodríguez-Sanoja
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Cd. de Mexico, Mexico
| | - S Sánchez
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Cd. de Mexico, Mexico.
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27
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Pang B, Wang M, Liu W. Cyclization of polyketides and non-ribosomal peptides on and off their assembly lines. Nat Prod Rep 2016; 33:162-73. [PMID: 26604034 DOI: 10.1039/c5np00095e] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Modular polyketide synthases (PKSs) and non-ribosomal peptide synthetases (NRPSs) are multifunctional megaenzymes that serve as templates to program the assembly of short carboxylic acids and amino acids in a primarily co-linear manner. The variation, combination, permutation and evolution of their functional units (e.g., modules, domains and proteins) along with their association with external enzymes have resulted in the generation of numerous versions of templates, the roles of which have not been fully recognized in the structural diversification of polyketides, non-ribosomal peptides and their hybrids present in nature. In this Highlight, we focus on the assembly-line enzymology and associated chemistry by providing examples of some newly characterized cyclization reactions that occur on and off the assembly lines during and after chain elongation for the purpose of elucidating the template effects of PKSs and NRPSs. A fundamental understanding of the underlying biosynthetic logic would facilitate the elucidation of chemical information contained within the PKS or NRPS templates and benefit the development of strategies for genome mining, biosynthesis-inspired chemical synthesis and combinatorial biosynthesis.
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Affiliation(s)
- Bo Pang
- State Key Laboratory of Bioorganic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, China.
| | - Min Wang
- State Key Laboratory of Bioorganic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, China.
| | - Wen Liu
- State Key Laboratory of Bioorganic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, China. and Huzhou Center of Bio-Synthetic Innovation, 1366 Hongfeng Road, Huzhou 313000, China
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28
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Tian H, Yang H, Zhu C, Fu H. Transition metal-free intramolecular regioselective couplings of aliphatic and aromatic C-H bonds. Sci Rep 2016; 6:19931. [PMID: 26822836 PMCID: PMC4731807 DOI: 10.1038/srep19931] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2015] [Accepted: 12/21/2015] [Indexed: 11/09/2022] Open
Abstract
Cross-dehydrogenative couplings of two different C-H bonds have emerged as an attractive goal in organic synthesis. However, achieving regioselective C-H activation is a great challenge because C-H bonds are ubiquitous in organic compounds. Actually, the regioselective couplings promoted by enzymes are a common occurrence in nature. Herein, we have developed simple, efficient and general transition metal-free intramolecular couplings of alphatic and aromatic C-H bonds. The protocol uses readily available aryl triazene as the radical initiator, cheap K2S2O8 as the oxidant, and the couplings were performed well with excellent tolerance of functional groups. Interestingly, α-carbon configuration of some amino acid residues in the substrates was kept after the reactions, and the couplings for substrates with substituted phenylalanine residues exhibited complete β-carbon diastereoselectivity for induction of the chiral α-carbon. Therefore, the present study should provide a novel strategy for regioselective cross-dehydrogenative couplings of two different C-H bonds.
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Affiliation(s)
- Hua Tian
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of Chemistry, Tsinghua University, Beijing 100084, P. R. China.,Department of Applied Chemistry, Beijing Institute of Technology, Beijing 100081, P. R. China
| | - Haijun Yang
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of Chemistry, Tsinghua University, Beijing 100084, P. R. China
| | - Changjin Zhu
- Department of Applied Chemistry, Beijing Institute of Technology, Beijing 100081, P. R. China
| | - Hua Fu
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of Chemistry, Tsinghua University, Beijing 100084, P. R. China.,Department of Applied Chemistry, Beijing Institute of Technology, Beijing 100081, P. R. China
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29
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Smyth JE, Butler NM, Keller PA. A twist of nature – the significance of atropisomers in biological systems. Nat Prod Rep 2015; 32:1562-83. [DOI: 10.1039/c4np00121d] [Citation(s) in RCA: 293] [Impact Index Per Article: 32.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
This review encompasses the synthesis and identification of recently detected natural atropisomers with potential therapeutic activity.
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Affiliation(s)
- Jamie E. Smyth
- School of Chemistry
- University of Wollongong
- Wollongong
- Australia 2522
| | | | - Paul A. Keller
- School of Chemistry
- University of Wollongong
- Wollongong
- Australia 2522
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