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1.
Nat Prod Rep ; 40(4): 766-793, 2023 04 26.
Artigo em Inglês | MEDLINE | ID: mdl-36880348

RESUMO

Covering: up to the beginning of 2023Many animals release volatile or semi-volatile terpenes as semiochemicals in intra- and inter-specific interactions. Terpenes are important constituents of pheromones and serve as chemical defenses to ward off predators. Despite the occurrence of terpene specialized metabolites from soft corals to mammals, the biosynthetic origin of these compounds has largely remained obscure. An increasing number of animal genome and transcriptome resources is facilitating the identification of enzymes and pathways that allow animals to produce terpenes independent of their food sources or microbial endosymbionts. Substantial evidence has emerged for the presence of terpene biosynthetic pathways such as in the formation of the iridoid sex pheromone nepetalactone in aphids. In addition, terpene synthase (TPS) enzymes have been discovered that are evolutionary unrelated to canonical plant and microbial TPSs and instead resemble precursor enzymes called isoprenyl diphosphate synthases (IDSs) in central terpene metabolism. Structural modifications of substrate binding motifs in canonical IDS proteins presumably facilitated the transition to TPS function at an early state in insect evolution. Other arthropods such as mites appear to have adopted their TPS genes from microbial sources via horizontal gene transfer. A similar scenario likely occurred in soft corals, where TPS families with closer resemblance to microbial TPSs have been discovered recently. Together, these findings will spur the identification of similar or still unknown enzymes in terpene biosynthesis in other lineages of animals. They will also help develop biotechnological applications for animal derived terpenes of pharmaceutical value or advance sustainable agricultural practices in pest management.


Assuntos
Alquil e Aril Transferases , Animais , Filogenia , Alquil e Aril Transferases/genética , Terpenos/metabolismo , Feromônios , Mamíferos
2.
Protein Sci ; 32(5): e4634, 2023 05.
Artigo em Inglês | MEDLINE | ID: mdl-36974623

RESUMO

Insects have evolved a chemical communication system using terpenoids, a structurally diverse class of specialized metabolites, previously thought to be exclusively produced by plants and microbes. Gene discovery, bioinformatics, and biochemical characterization of multiple insect terpene synthases (TPSs) revealed that isopentenyl diphosphate synthases (IDS), enzymes from primary isoprenoid metabolism, are their likely evolutionary progenitors. However, the mutations underlying the emergence of the TPS function remain a mystery. To address this gap, we present the first structural and mechanistic model for the evolutionary emergence of TPS function in insects. Through identifying key mechanistic differences between IDS and TPS enzymes, we hypothesize that the loss of isopentenyl diphosphate (IPP) binding motifs strongly correlates with the gain of the TPS function. Based on this premise, we have elaborated the first explicit structural definition of isopentenyl diphosphate-binding motifs (IBMs) and used the IBM definitions to examine previously characterized insect IDSs and TPSs and to predict the functions of as yet uncharacterized insect IDSs. Consistent with our hypothesis, we observed a clear pattern of disruptive substitutions to IBMs in characterized insect TPSs. In contrast, insect IDSs maintain essential consensus residues for binding IPP. Extending our analysis, we constructed the most comprehensive phylogeny of insect IDS sequences (430 full length sequences from eight insect orders) and used IBMs to predict the function of TPSs. Based on our analysis, we infer multiple, independent TPS emergence events across the class of insects, paving the way for future gene discovery efforts.


Assuntos
Alquil e Aril Transferases , Terpenos , Animais , Terpenos/metabolismo , Evolução Biológica , Hemiterpenos , Alquil e Aril Transferases/genética , Filogenia , Insetos/genética , Insetos/metabolismo , Proteínas de Plantas/genética
3.
Mol Biol Evol ; 37(7): 1907-1924, 2020 07 01.
Artigo em Inglês | MEDLINE | ID: mdl-32119077

RESUMO

We explore sequence determinants of enzyme activity and specificity in a major enzyme family of terpene synthases. Most enzymes in this family catalyze reactions that produce cyclic terpenes-complex hydrocarbons widely used by plants and insects in diverse biological processes such as defense, communication, and symbiosis. To analyze the molecular mechanisms of emergence of terpene cyclization, we have carried out in-depth examination of mutational space around (E)-ß-farnesene synthase, an Artemisia annua enzyme which catalyzes production of a linear hydrocarbon chain. Each mutant enzyme in our synthetic libraries was characterized biochemically, and the resulting reaction rate data were used as input to the Michaelis-Menten model of enzyme kinetics, in which free energies were represented as sums of one-amino-acid contributions and two-amino-acid couplings. Our model predicts measured reaction rates with high accuracy and yields free energy landscapes characterized by relatively few coupling terms. As a result, the Michaelis-Menten free energy landscapes have simple, interpretable structure and exhibit little epistasis. We have also developed biophysical fitness models based on the assumption that highly fit enzymes have evolved to maximize the output of correct products, such as cyclic products or a specific product of interest, while minimizing the output of byproducts. This approach results in nonlinear fitness landscapes that are considerably more epistatic. Overall, our experimental and computational framework provides focused characterization of evolutionary emergence of novel enzymatic functions in the context of microevolutionary exploration of sequence space around naturally occurring enzymes.


Assuntos
Alquil e Aril Transferases/genética , Epistasia Genética , Evolução Molecular , Aptidão Genética , Modelos Químicos , Artemisia annua/enzimologia , Artemisia annua/genética , Sesquiterpenos Monocíclicos/metabolismo
4.
Trends Biotechnol ; 38(1): 113-127, 2020 01.
Artigo em Inglês | MEDLINE | ID: mdl-31427097

RESUMO

Viral proteins evade host immune function by molecular mimicry, often achieved by short linear motifs (SLiMs) of three to ten consecutive amino acids (AAs). Motif mimicry tolerates mutations, evolves quickly to modify interactions with the host, and enables modular interactions with protein complexes. Host cells cannot easily coordinate changes to conserved motif recognition and binding interfaces under selective pressure to maintain critical signaling pathways. SLiMs offer potential for use in synthetic biology, such as better immunogens and therapies, but may also present biosecurity challenges. We survey viral uses of SLiMs to mimic host proteins, and information resources available for motif discovery. As the number of examples continues to grow, knowledge management tools are essential to help organize and compare new findings.


Assuntos
Motivos de Aminoácidos/imunologia , Proteínas Virais , Animais , Linfócitos B/imunologia , Ontologia Genética , Interações Hospedeiro-Patógeno/imunologia , Humanos , Mimetismo Molecular/imunologia , Transdução de Sinais/imunologia , Biologia Sintética , Proteínas Virais/química , Proteínas Virais/genética , Proteínas Virais/imunologia
5.
Metabolites ; 9(5)2019 May 02.
Artigo em Inglês | MEDLINE | ID: mdl-31052521

RESUMO

Interpreting changes in metabolite abundance in response to experimental treatments or disease states remains a major challenge in metabolomics. Pathway Covering is a new algorithm that takes a list of metabolites (compounds) and determines a minimum-cost set of metabolic pathways in an organism that includes (covers) all the metabolites in the list. We used five functions for assigning costs to pathways, including assigning a constant for all pathways, which yields a solution with the smallest pathway count; two methods that penalize large pathways; one that prefers pathways based on the pathway's assigned function, and one that loosely corresponds to metabolic flux. The pathway covering set computed by the algorithm can be displayed as a multi-pathway diagram ("pathway collage") that highlights the covered metabolites. We investigated the pathway covering algorithm by using several datasets from the Metabolomics Workbench. The algorithm is best applied to a list of metabolites with significant statistics and fold-changes with a specified direction of change for each metabolite. The pathway covering algorithm is now available within the Pathway Tools software and BioCyc website.

6.
Plant Sci ; 255: 29-38, 2017 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-28131339

RESUMO

Epistasis, the interaction between mutations and the genetic background, is a pervasive force in evolution that is difficult to predict yet derives from a simple principle - biological systems are interconnected. Therefore, one effect may be intimately linked to another, hence interdependent. Untangling epistatic interactions between and within genes is a vibrant area of research. Deriving a mechanistic understanding of epistasis is a major challenge. Particularly, elucidating how epistasis can attenuate the effects of otherwise dominant mutations that control phenotypes. Using the emergence of terpene cyclization in specialized metabolism as an excellent example, this review describes the process of discovery and interpretation of dominance and epistasis in relation to current efforts. Specifically, we outline experimental approaches to isolating epistatic networks of mutations in protein structure, formally quantifying epistatic interactions, then building biochemical models with chemical mechanisms in efforts to achieve an understanding of the physical basis for epistasis. From these models we describe informed conjectures about past evolutionary events that underlie the emergence, divergence and specialization of terpene synthases to illustrate key principles of the constraining forces of epistasis in enzyme function.


Assuntos
Alquil e Aril Transferases/genética , Evolução Biológica , Epistasia Genética , Genes de Plantas , Proteínas de Plantas/genética , Plantas/genética , Terpenos/metabolismo , Alquil e Aril Transferases/metabolismo , Modelos Biológicos , Mutação , Fenótipo , Proteínas de Plantas/metabolismo , Plantas/metabolismo , Conformação Proteica
7.
BMC Bioinformatics ; 17(1): 529, 2016 Dec 13.
Artigo em Inglês | MEDLINE | ID: mdl-27964719

RESUMO

BACKGROUND: Metabolic pathway diagrams are a classical way of visualizing a linked cascade of biochemical reactions. However, to understand some biochemical situations, viewing a single pathway is insufficient, whereas viewing the entire metabolic network results in information overload. How do we enable scientists to rapidly construct personalized multi-pathway diagrams that depict a desired collection of interacting pathways that emphasize particular pathway interactions? RESULTS: We define software for constructing personalized multi-pathway diagrams called pathway-collages using a combination of manual and automatic layouts. The user specifies a set of pathways of interest for the collage from a Pathway/Genome Database. Layouts for the individual pathways are generated by the Pathway Tools software, and are sent to a Javascript Pathway Collage application implemented using Cytoscape.js. That application allows the user to re-position pathways; define connections between pathways; change visual style parameters; and paint metabolomics, gene expression, and reaction flux data onto the collage to obtain a desired multi-pathway diagram. We demonstrate the use of pathway collages in two application areas: a metabolomics study of pathogen drug response, and an Escherichia coli metabolic model. CONCLUSIONS: Pathway collages enable facile construction of personalized multi-pathway diagrams.


Assuntos
Escherichia coli/metabolismo , Metabolômica/métodos , Antibacterianos/farmacologia , Escherichia coli/efeitos dos fármacos , Escherichia coli/genética , Redes e Vias Metabólicas , Modelos Biológicos , Software
8.
Biochem Biophys Res Commun ; 479(4): 622-627, 2016 Oct 28.
Artigo em Inglês | MEDLINE | ID: mdl-27697527

RESUMO

The Andes-endemic Barnadesioideae lineage is the oldest surviving and phylogenetically basal subfamily of the Asteraceae (Compositae), a prolific group of flowering plants with world-wide distribution (∼24,000 species) marked by a rich diversity of sesquiterpene lactones (STLs). Intriguingly, there is no evidence that members of the Barnadesioideae produce STLs, specialized metabolites thought to have contributed to the adaptive success of the Asteraceae family outside South America. The biosynthesis of STLs requires the intimate expression and functional integration of germacrene A synthase (GAS) and germacrene A oxidase (GAO) to sequentially cyclize and oxidize farnesyl diphosphate into the advanced intermediate germacrene A acid leading to diverse STLs. Our previous discovery of GAO activity conserved across all major subfamilies of Asteraceae, including the phylogenetically basal lineage of Barnadesioideae, prompted further investigation of the presence of the gateway GAS in Barnadesioideae. Herein we isolated two terpene synthases (BsGAS1/BsGAS2) from the basal Barnadesia spinosa (Barnadesioideae) that displayed robust GAS activity when reconstituted in yeast and characterized in vitro. Despite the apparent lack of STLs in the Barnadesioideae, this work unambiguously confirms the presence of GAS in the basal genera of the Asteraceae. Phylogenetic analysis reveals that the two BsGASs fall into two distinct clades of the Asteraceae's GASs, and BsGAS1 clade is only retained in the evolutionary closer Cichorioideae subfamily, implicating BsGAS2 is likely the ancestral base of most GASs found in the lineages outside the Barnadesioideae. Taken together, these results show the enzymatic capacities of GAS and GAO emerged prior to the subsequent radiation of STL-producing Asteraceae subfamilies.


Assuntos
Alquil e Aril Transferases/metabolismo , Asteraceae/enzimologia , Proteínas de Plantas/metabolismo , Sesquiterpenos de Germacrano/biossíntese , Alquil e Aril Transferases/química , Alquil e Aril Transferases/classificação , Alquil e Aril Transferases/genética , Asteraceae/classificação , Asteraceae/genética , Biodiversidade , Clonagem Molecular , Cinética , Lactonas/metabolismo , Filogenia , Proteínas de Plantas/química , Proteínas de Plantas/classificação , Proteínas de Plantas/genética , Sesquiterpenos de Germacrano/química
9.
Proc Natl Acad Sci U S A ; 113(30): E4407-14, 2016 07 26.
Artigo em Inglês | MEDLINE | ID: mdl-27412861

RESUMO

Triterpenes are structurally complex plant natural products with numerous medicinal applications. They are synthesized through an origami-like process that involves cyclization of the linear 30 carbon precursor 2,3-oxidosqualene into different triterpene scaffolds. Here, through a forward genetic screen in planta, we identify a conserved amino acid residue that determines product specificity in triterpene synthases from diverse plant species. Mutation of this residue results in a major change in triterpene cyclization, with production of tetracyclic rather than pentacyclic products. The mutated enzymes also use the more highly oxygenated substrate dioxidosqualene in preference to 2,3-oxidosqualene when expressed in yeast. Our discoveries provide new insights into triterpene cyclization, revealing hidden functional diversity within triterpene synthases. They further open up opportunities to engineer novel oxygenated triterpene scaffolds by manipulating the precursor supply.


Assuntos
Aminoácidos/genética , Transferases Intramoleculares/genética , Proteínas de Plantas/genética , Triterpenos/metabolismo , Sequência de Aminoácidos , Aminoácidos/química , Avena/enzimologia , Avena/genética , Avena/metabolismo , Sequência Conservada/genética , Ciclização , Transferases Intramoleculares/química , Transferases Intramoleculares/metabolismo , Modelos Moleculares , Estrutura Molecular , Mutação , Proteínas de Plantas/química , Proteínas de Plantas/metabolismo , Domínios Proteicos , Homologia de Sequência de Aminoácidos , Especificidade por Substrato , Triterpenos/química
10.
J Antibiot (Tokyo) ; 69(7): 524-33, 2016 07.
Artigo em Inglês | MEDLINE | ID: mdl-27328867

RESUMO

The plant terpene synthase (TPS) family is responsible for the biosynthesis of a variety of terpenoid natural products possessing diverse biological functions. TPSs catalyze the ionization and, most commonly, rearrangement and cyclization of prenyl diphosphate substrates, forming linear and cyclic hydrocarbons. Moreover, a single TPS often produces several minor products in addition to a dominant product. We characterized the catalytic profiles of Hyoscyamus muticus premnaspirodiene synthase (HPS) and compared it with the profile of a closely related TPS, Nicotiana tabacum 5-epi-aristolochene synthase (TEAS). The profiles of two previously studied HPS and TEAS mutants, each containing nine interconverting mutations, dubbed HPS-M9 and TEAS-M9, were also characterized. All four TPSs were compared under varying temperature and pH conditions. In addition, we solved the X-ray crystal structures of TEAS and a TEAS quadruple mutant complexed with substrate and products to gain insight into the enzymatic features modulating product formation. These informative structures, along with product profiles, provide new insight into plant TPS catalytic promiscuity.


Assuntos
Hyoscyamus/enzimologia , Proteínas de Plantas/química , Proteínas de Plantas/metabolismo , Sesquiterpenos/metabolismo , Domínio Catalítico , Estabilidade Enzimática/genética , Concentração de Íons de Hidrogênio , Hyoscyamus/genética , Mutação , Proteínas de Plantas/genética , Temperatura
11.
Nat Commun ; 6: 6143, 2015 Feb 03.
Artigo em Inglês | MEDLINE | ID: mdl-25644758

RESUMO

The emergence of terpene cyclization was critical to the evolutionary expansion of chemical diversity yet remains unexplored. Here we report the first discovery of an epistatic network of residues that controls the onset of terpene cyclization in Artemisia annua. We begin with amorpha-4,11-diene synthase (ADS) and (E)-ß-farnesene synthase (BFS), a pair of terpene synthases that produce cyclic or linear terpenes, respectively. A library of ~27,000 enzymes is generated by breeding combinations of natural amino-acid substitutions from the cyclic into the linear producer. We discover one dominant mutation is sufficient to activate cyclization, and together with two additional residues comprise a network of strongly epistatic interactions that activate, suppress or reactivate cyclization. Remarkably, this epistatic network of equivalent residues also controls cyclization in a BFS homologue from Citrus junos. Fitness landscape analysis of mutational trajectories provides quantitative insights into a major epoch in specialized metabolism.


Assuntos
Artemisia annua/metabolismo , Terpenos/metabolismo , Alquil e Aril Transferases/metabolismo , Artemisia annua/enzimologia , Ciclização , Pirofosfatases/metabolismo
12.
PLoS One ; 9(9): e107462, 2014.
Artigo em Inglês | MEDLINE | ID: mdl-25203155

RESUMO

Plants protect themselves against a variety of invading pathogenic organisms via sophisticated defence mechanisms. These responses include deployment of specialized antimicrobial compounds, such as phytoalexins, that rapidly accumulate at pathogen infection sites. However, the extent to which these compounds contribute to species-level resistance and their spectrum of action remain poorly understood. Capsidiol, a defense related phytoalexin, is produced by several solanaceous plants including pepper and tobacco during microbial attack. Interestingly, capsidiol differentially affects growth and germination of the oomycete pathogens Phytophthora infestans and Phytophthora capsici, although the underlying molecular mechanisms remain unknown. In this study we revisited the differential effect of capsidiol on P. infestans and P. capsici, using highly pure capsidiol preparations obtained from yeast engineered to express the capsidiol biosynthetic pathway. Taking advantage of transgenic Phytophthora strains expressing fluorescent markers, we developed a fluorescence-based method to determine the differential effect of capsidiol on Phytophtora growth. Using these assays, we confirm major differences in capsidiol sensitivity between P. infestans and P. capsici and demonstrate that capsidiol alters the growth behaviour of both Phytophthora species. Finally, we report intraspecific variation within P. infestans isolates towards capsidiol tolerance pointing to an arms race between the plant and the pathogens in deployment of defence related phytoalexins.


Assuntos
Especificidade de Hospedeiro/fisiologia , Phytophthora infestans/fisiologia , Phytophthora/fisiologia , Sesquiterpenos/metabolismo , Fluorescência , Doenças das Plantas/parasitologia , Fitoalexinas
13.
MethodsX ; 1: 187-96, 2014.
Artigo em Inglês | MEDLINE | ID: mdl-26150952

RESUMO

Terpenes are the largest group of natural products with important and diverse biological roles, while of tremendous economic value as fragrances, flavours and pharmaceutical agents. Class-I terpene synthases (TPSs), the dominant type of TPS enzymes, catalyze the conversion of prenyl diphosphates to often structurally diverse bioactive terpene hydrocarbons, and inorganic pyrophosphate (PPi). To measure their kinetic properties, current bio-analytical methods typically rely on the direct detection of hydrocarbon products by radioactivity measurements or gas chromatography-mass spectrometry (GC-MS). In this study we employed an established, rapid colorimetric assay, the pyrophosphate/malachite green assay (MG), as an alternative means for the biochemical characterization of class I TPSs activity.•We describe the adaptation of the MG assay for turnover and catalytic efficiency measurements of TPSs.•We validate the method by direct comparison with established assays. The agreement of k cat/K M among methods makes this adaptation optimal for rapid evaluation of TPSs.•We demonstrate the application of the MG assay for the high-throughput screening of TPS gene libraries.

15.
Methods Enzymol ; 515: 3-19, 2012.
Artigo em Inglês | MEDLINE | ID: mdl-22999167

RESUMO

Sesquiterpene synthases produce a wide variety of structurally diverse hydrocarbon products from a single substrate: farnesyl pyrophosphate. Each enzyme will often produce a multitude of products for which the kinetic efficiency is traditionally measured using a radioactivity assay. Here, we introduce a gas chromatography-mass spectroscopy-based assay to measure the formation of a single abundant product from which the kinetic parameters of the enzyme in question can be elucidated. We present an accounting of experimental components and considerations, such as solution conditions and instrument parameters, necessary to perform a standardized vial assay experiment. Further, we outline pilot experiments to establish analyte quantification and the linear range of enzyme concentration versus reaction velocity. Finally, we describe a protocol for a steady-state kinetics experiment, and the processing of experimental data to produce a Michaelis-Menten plot enabling one to derive kinetic parameters.


Assuntos
Alquil e Aril Transferases/isolamento & purificação , Cromatografia Gasosa-Espectrometria de Massas/métodos , Fosfatos de Poli-Isoprenil/metabolismo , Sesquiterpenos/metabolismo , Alquil e Aril Transferases/biossíntese , Alquil e Aril Transferases/metabolismo , Calibragem , Ativação Enzimática , Ensaios Enzimáticos/instrumentação , Ensaios Enzimáticos/métodos , Ensaios Enzimáticos/normas , Cromatografia Gasosa-Espectrometria de Massas/normas , Cinética , Modelos Lineares , Projetos Piloto , Reprodutibilidade dos Testes , Sensibilidade e Especificidade , Soluções/metabolismo , Temperatura
16.
Methods Enzymol ; 515: 21-42, 2012.
Artigo em Inglês | MEDLINE | ID: mdl-22999168

RESUMO

Structure-based combinatorial protein engineering (SCOPE) is a homology-independent recombination method to create multiple crossover gene libraries by assembling defined combinations of structural elements ranging from single mutations to domains of protein structure. SCOPE was originally inspired by DNA shuffling, which mimics recombination during meiosis, where mutations from parental genes are "shuffled" to create novel combinations in the resulting progeny. DNA shuffling utilizes sequence identity between parental genes to mediate template-switching events (the annealing and extension of one parental gene fragment on another) in PCR reassembly reactions to generate crossovers and hence recombination between parental genes. In light of the conservation of protein structure and degeneracy of sequence, SCOPE was developed to enable the "shuffling" of distantly related genes with no requirement for sequence identity. The central principle involves the use of oligonucleotides to encode for crossover regions to choreograph template-switching events during PCR assembly of gene fragments to create chimeric genes. This approach was initially developed to create libraries of hybrid DNA polymerases from distantly related parents, and later developed to create a combinatorial mutant library of sesquiterpene synthases to explore the catalytic landscapes underlying the functional divergence of related enzymes. This chapter presents a simplified protocol of SCOPE that can be integrated with different mutagenesis techniques and is suitable for automation by liquid-handling robots. Two examples are presented to illustrate the application of SCOPE to create gene libraries using plant sesquiterpene synthases as the model system. In the first example, we outline how to create an active-site library as a series of complex mixtures of diverse mutants. In the second example, we outline how to create a focused library as an array of individual clones to distil minimal combinations of functionally important mutations. Through these examples, the principles of the technique are illustrated and the suitability of automating various aspects of the procedure for given applications are discussed.


Assuntos
Alquil e Aril Transferases/genética , Artemisia annua/genética , Técnicas de Química Combinatória/métodos , Biblioteca Gênica , Engenharia de Proteínas/métodos , Alquil e Aril Transferases/metabolismo , Artemisia annua/enzimologia , Sequência de Bases , Domínio Catalítico , Clonagem Molecular , Embaralhamento de DNA , Genes de Plantas , Modelos Genéticos , Mutagênese , Mutação , Plasmídeos/genética , Plasmídeos/metabolismo , Reação em Cadeia da Polimerase , Conformação Proteica , Recombinação Genética
17.
J Am Chem Soc ; 133(32): 12632-41, 2011 Aug 17.
Artigo em Inglês | MEDLINE | ID: mdl-21714557

RESUMO

The biogenic origins of complex cyclic terpenes derive from the interplay of enzymes and the intrinsic reactivity of carbocation species at major branch-points along intramolecular cyclization pathways to ultimately determine the distribution of terpene skeletal types in nature. Solanaceous plants biosynthesize chemical defense compounds, largely derived from the eremophilane and spirovetivane-type sesquiterpenes. These hydrocarbon skeletons share a common biogenic origin, stemming from alternative Wagner-Meerwein rearrangements of the eudesm-5-yl carbocation during the cyclization of farnesyl pyrophosphate (FPP) catalyzed by sesquiterpene synthases. While the spirojatamane skeleton shares the same carbocation intermediate, this class of sesquiterpenes has not been reported in the Solanaceae and is exceedingly rare in nature. To investigate the physical basis for alternative rearrangements of the eudesm-5-yl carbocation, we carried out quantum mechanics (QM) analyses to calculate the allowable conformations, energies, and transition states linking conformers of the eudesm-5-yl carbocation to the eremophilene, spirovetivane, and spirojatamane skeletons. Additionally, we conducted parallel investigations on simplified decalin carbocation systems to examine the contribution of ring substituents to allowable conformations and rearrangement pathways. Our study reveals that ring substituents expand the conformational space accessible to the eudesm-5-yl carbocation while sterically blocking rearrangements in certain contexts. From our analysis, we define a conformational threshold for each possible rearrangement based on dihedral angles describing transition state geometry. Further, our calculations indicate that methylene migration rearrangements leading to spiro compounds are thermodynamically dominant in the eudesm-5-yl and simpler decalin carabocation systems. Interestingly, the theoretical abundance of sesquiterpene skeletal types arising from the intrinsic reactivity of the eudesm-5-yl carbocation stands in sharp contrast to their currently known natural abundance. The implications of these results for the catalytic tragectories catalyzed by sesquiterpene synthases are discussed.


Assuntos
Sesquiterpenos de Eudesmano/química , Sesquiterpenos/química , Solanaceae/química , Ciclização , Modelos Moleculares , Conformação Molecular , Termodinâmica
18.
J Biol Chem ; 286(24): 21601-11, 2011 Jun 17.
Artigo em Inglês | MEDLINE | ID: mdl-21515683

RESUMO

Sesquiterpene lactones (STLs) are terpenoid natural products possessing the γ-lactone, well known for their diverse biological and medicinal activities. The occurrence of STLs is sporadic in nature, but most STLs have been isolated from plants in the Asteraceae family. Despite the implication of the γ-lactone group in many reported bioactivities of STLs, the biosynthetic origins of the γ-lactone ring remains elusive. Germacrene A acid (GAA) has been suggested as a central precursor of diverse STLs. The regioselective (C6 or C8) and stereoselective (α or ß) hydroxylation on a carbon of GAA adjacent to its carboxylic acid at C12 is responsible for the γ-lactone formation. Here, we report two cytochrome P450 monooxygenases (P450s) capable of catalyzing 6α- and 8ß-hydroxylation of GAA from lettuce and sunflower, respectively. To identify these P450s, sunflower trichomes were isolated to generate a trichome-specific transcript library, from which 10 P450 clones were retrieved. Expression of these clones in a yeast strain metabolically engineered to synthesize substrate GAA identified a P450 catalyzing 8ß-hydroxylation of GAA, but the STL was not formed by spontaneous lactonization. Subsequently, we identified the closest homolog of the GAA 8ß-hydroxylase from lettuce and discovered 6α-hydroxylation of GAA by the recombinant enzyme. The resulting 6α-hydroxy-GAA spontaneously undergoes a lactonization to yield the simplest form of STL, costunolide. Furthermore, we demonstrate the milligram per liter scale de novo synthesis of costunolide using the lettuce P450 in an engineered yeast strain, an important advance that will enable exploitation of STLs. Evolution and homology models of these two P450s are discussed.


Assuntos
Sistema Enzimático do Citocromo P-450/metabolismo , Proteínas de Plantas/química , Catálise , Sistema Enzimático do Citocromo P-450/química , Biblioteca Gênica , Helianthus/enzimologia , Lactonas/química , Modelos Químicos , Dados de Sequência Molecular , Filogenia , Conformação Proteica , Proteínas Recombinantes/química , Sesquiterpenos/química , Sesquiterpenos de Germacrano/química , Solventes/química , Estereoisomerismo
19.
J Am Chem Soc ; 132(12): 4281-9, 2010 Mar 31.
Artigo em Inglês | MEDLINE | ID: mdl-20201526

RESUMO

We report the structures and stereochemistry of seven bisabolyl-derived sesquiterpenes arising from an unprecedented 1,6-cyclization (cisoid pathway) efficiently catalyzed by tobacco 5-epi-aristolochene synthase (TEAS). The use of (2Z,6E)-farnesyl diphosphate as an alternate substrate for recombinant TEAS resulted in a robust enzymatic cyclization to an array of products derived exclusively (>/=99.5%) from the cisoid pathway, whereas these same products account for ca. 2.5% of the total hydrocarbons obtained using (2E,6E)-farnesyl diphosphate. Chromatographic fractionations of extracts from preparative incubations with the 2Z,6E substrate afforded, in addition to the acyclic allylic alcohols (2Z,6E)-farnesol (6.7%) and nerolidol (3.6%), five cyclic sesquiterpene hydrocarbons and two cyclic sesquiterpene alcohols: (+)-2-epi-prezizaene (44%), (-)-alpha-cedrene (21.5%), (R)-(-)-beta-curcumene (15.5%), alpha-acoradiene (3.9%), 4-epi-alpha-acoradiene (1.3%), and equal amounts of alpha-bisabolol (1.8%) and epi-alpha-bisalolol (1.8%). The structures, stereochemistry, and enantiopurities were established by comprehensive spectroscopic analyses, optical rotations, chemical correlations with known sesquiterpenes, comparisons with literature data, and GC analyses. The major product, (+)-2-epi-prezizaene, is structurally related to the naturally occurring tricyclic alcohol, jinkohol (2-epi-prezizaan-7beta-ol). Cisoid cyclization pathways are proposed by which all five sesquiterpene hydrocarbons are derived from a common (7R)-beta-bisabolyl(+)/pyrophosphate(-) ion pair intermediate. The implications of the "cisoid" catalytic activity of TEAS are discussed.


Assuntos
Nicotiana/enzimologia , Fosfatos de Poli-Isoprenil/química , Sesquiterpenos/química , Catálise , Ciclização , Estrutura Molecular , Sesquiterpenos Monocíclicos , Proteínas Recombinantes/genética , Sesquiterpenos/classificação
20.
ACS Chem Biol ; 5(4): 377-92, 2010 Apr 16.
Artigo em Inglês | MEDLINE | ID: mdl-20175559

RESUMO

Sesquiterpene skeletal complexity in nature originates from the enzyme-catalyzed ionization of (trans,trans)-farnesyl diphosphate (FPP) (1a) and subsequent cyclization along either 2,3-transoid or 2,3-cisoid farnesyl cation pathways. Tobacco 5-epi-aristolochene synthase (TEAS), a transoid synthase, produces cisoid products as a component of its minor product spectrum. To investigate the cryptic cisoid cyclization pathway in TEAS, we employed (cis,trans)-FPP (1b) as an alternative substrate. Strikingly, TEAS was catalytically robust in the enzymatic conversion of (cis,trans)-FPP (1b) to exclusively (>/=99.5%) cisoid products. Further, crystallographic characterization of wild-type TEAS and a catalytically promiscuous mutant (M4 TEAS) with 2-fluoro analogues of both all-trans FPP (1a) and (cis,trans)-FPP (1b) revealed binding modes consistent with preorganization of the farnesyl chain. These results provide a structural glimpse into both cisoid and transoid cyclization pathways efficiently templated by a single enzyme active site, consistent with the recently elucidated stereochemistry of the cisoid products. Further, computational studies using density functional theory calculations reveal concerted, highly asynchronous cyclization pathways leading to the major cisoid cyclization products. The implications of these discoveries for expanded sesquiterpene diversity in nature are discussed.


Assuntos
Alquil e Aril Transferases/química , Alquil e Aril Transferases/metabolismo , Nicotiana/enzimologia , Fosfatos de Poli-Isoprenil/química , Fosfatos de Poli-Isoprenil/metabolismo , Alquil e Aril Transferases/genética , Cristalografia por Raios X , Ciclização , Modelos Moleculares , Mutação , Sesquiterpenos/metabolismo , Estereoisomerismo , Especificidade por Substrato
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