1
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Wahi A, Jain P, Sinhari A, Jadhav HR. Progress in discovery and development of natural inhibitors of histone deacetylases (HDACs) as anti-cancer agents. NAUNYN-SCHMIEDEBERG'S ARCHIVES OF PHARMACOLOGY 2024; 397:675-702. [PMID: 37615708 DOI: 10.1007/s00210-023-02674-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Accepted: 08/12/2023] [Indexed: 08/25/2023]
Abstract
The study of epigenetic translational modifications had drawn great interest for the last few decades. These processes play a vital role in many diseases and cancer is one of them. Histone acetyltransferase (HAT) and histone deacetylases (HDACs) are key enzymes involved in the acetylation and deacetylation of histones and ultimately in post-translational modifications. Cancer frequently exhibits epigenetic changes, particularly disruption in the expression and activity of HDACs. It includes the capacity to regulate proliferative signalling, circumvent growth inhibitors, escape cell death, enable replicative immortality, promote angiogenesis, stimulate invasion and metastasis, prevent immunological destruction, and genomic instability. The majority of tumours develop and spread as a result of HDAC dysregulation. As a result, HDAC inhibitors (HDACis) were developed, and they today stand as a very promising therapeutic approach. One of the most well-known and efficient therapies for practically all cancer types is chemotherapy. However, the efficiency and safety of treatment are constrained by higher toxicity. The same has been observed with the synthetic HDACi. Natural products, owing to many advantages over synthetic compounds for cancer treatment have always been a choice for therapy. Hence, naturally available molecules are of particular interest for HDAC inhibition and HDAC has drawn the attention of the research fraternity due to their potential to offer a diverse array of chemical structures and bioactive compounds. This diversity opens up new avenues for exploring less toxic HDAC inhibitors to reduce side effects associated with conventional synthetic inhibitors. The review presents comprehensive details on natural product HDACi, their mechanism of action and their biological effects. Moreover, this review provides a brief discussion on the structure activity relationship of selected natural HDAC inhibitors and their analogues which can guide future research to discover selective, more potent HDACi with minimal toxicity.
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Affiliation(s)
- Abhishek Wahi
- Department of Pharmaceutical Chemistry, School of Pharmaceutical Sciences, Delhi Pharmaceutical Sciences and Research University, DPSRU, New Delhi, 110017, India
| | - Priti Jain
- Department of Pharmaceutical Chemistry, School of Pharmaceutical Sciences, Delhi Pharmaceutical Sciences and Research University, DPSRU, New Delhi, 110017, India.
| | - Apurba Sinhari
- Department of Pharmacy, Birla Institute of Technology and Science, Pilani Campus, Vidya Vihar, Pilani, Rajasthan, 333031, India
| | - Hemant R Jadhav
- Department of Pharmacy, Birla Institute of Technology and Science, Pilani Campus, Vidya Vihar, Pilani, Rajasthan, 333031, India
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2
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Kohr M, Papenkordt N, Jung M, Kazmaier U. Total synthesis and biological evaluation of histone deacetylase inhibitor WF-3161. Org Biomol Chem 2023; 21:4382-4387. [PMID: 37194325 DOI: 10.1039/d3ob00641g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
A novel synthesis of the naturally occurring HDAC inhibitor WF-3161 is described. Key steps include the Matteson homologation to generate the stereogenic centres in the side chain, and Pd-catalysed C-H functionalisation to connect the side chain to the peptide backbone. WF-3161 was found to be highly selective for HDAC1, whereas no activity was observed towards HDAC6. High activity was also found against the cancer cell line HL-60.
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Affiliation(s)
- Michael Kohr
- Organic Chemistry, Saarland University, D-66123 Saarbrücken, Germany.
| | - Niklas Papenkordt
- Institute of Pharmaceutical Sciences, University of Freiburg, Albertstr. 25, 79104 Freiburg, Germany
| | - Manfred Jung
- Institute of Pharmaceutical Sciences, University of Freiburg, Albertstr. 25, 79104 Freiburg, Germany
| | - Uli Kazmaier
- Organic Chemistry, Saarland University, D-66123 Saarbrücken, Germany.
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3
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Li G, Tian Y, Zhu WG. The Roles of Histone Deacetylases and Their Inhibitors in Cancer Therapy. Front Cell Dev Biol 2020; 8:576946. [PMID: 33117804 PMCID: PMC7552186 DOI: 10.3389/fcell.2020.576946] [Citation(s) in RCA: 128] [Impact Index Per Article: 32.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2020] [Accepted: 09/04/2020] [Indexed: 12/14/2022] Open
Abstract
Genetic mutations and abnormal gene regulation are key mechanisms underlying tumorigenesis. Nucleosomes, which consist of DNA wrapped around histone cores, represent the basic units of chromatin. The fifth amino group (Nε) of histone lysine residues is a common site for post-translational modifications (PTMs), and of these, acetylation is the second most common. Histone acetylation is modulated by histone acetyltransferases (HATs) and histone deacetylases (HDACs), and is involved in the regulation of gene expression. Over the past two decades, numerous studies characterizing HDACs and HDAC inhibitors (HDACi) have provided novel and exciting insights concerning their underlying biological mechanisms and potential anti-cancer treatments. In this review, we detail the diverse structures of HDACs and their underlying biological functions, including transcriptional regulation, metabolism, angiogenesis, DNA damage response, cell cycle, apoptosis, protein degradation, immunity and other several physiological processes. We also highlight potential avenues to use HDACi as novel, precision cancer treatments.
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Affiliation(s)
- Guo Li
- Guangdong Key Laboratory for Genome Stability and Human Disease Prevention, Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Shenzhen University Health Science Center, Shenzhen, China
| | - Yuan Tian
- Guangdong Key Laboratory for Genome Stability and Human Disease Prevention, Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Shenzhen University Health Science Center, Shenzhen, China
- Shenzhen Bay Laboratory, Shenzhen, China
| | - Wei-Guo Zhu
- Guangdong Key Laboratory for Genome Stability and Human Disease Prevention, Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Shenzhen University Health Science Center, Shenzhen, China
- Shenzhen Bay Laboratory, Shenzhen, China
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4
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Owens DK, Bajsa-Hirschel J, Duke SO, Carbonari CA, Gomes GLGC, Asolkar R, Boddy L, Dayan FE. The Contribution of Romidepsin to the Herbicidal Activity of Burkholderia rinojensis Biopesticide. JOURNAL OF NATURAL PRODUCTS 2020; 83:843-851. [PMID: 32091209 DOI: 10.1021/acs.jnatprod.9b00405] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The culture broth of Burkholderia rinojensis strain A396 is herbicidal to a number of weed species with greater observed efficacy against broadleaf than grass weeds. A portion of this activity is attributed to romidepsin, a 16-membered cyclic depsipeptide bridged by a 15-membered macrocyclic disulfide. Romidepsin, which is present in small amounts in the broth (18 to 25 μg mL-1), was isolated and purified using standard chromatographic techniques. It was established that romidepsin is a natural proherbicide that targets the activity of plant histone deacetylases (HDAC). Assays to measure plant HDAC activity were optimized by testing a number of HDAC substrates. The activity of romidepsin was greater when its macrocyclic-forming disulfide bridge was reduced to liberate a highly reactive free butenyl thiol side chain. Reduction was achieved using 200 mM tris(2-carboxyethyl)phosphine hydrochloride. A similar bioactivation of the proherbicide via reduction of the disulfide bridge of romidepsin was observed in plant-cell-free extracts. Molecular dynamic simulation of the binding of romidepsin to Arabidopsis thaliana HDAC19 indicated the reduced form of the compound could reach deep inside the catalytic domain and interact with an associated zinc atom required for enzyme activity.
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Affiliation(s)
- Daniel K Owens
- Molecular Biosciences and Bioengineering, University of Hawaii at Manoa, Honolulu, Hawaii 96822, United States
| | - Joanna Bajsa-Hirschel
- Natural Products Utilization Research Unit, USDA-ARS, Thad Cochran Center, University Avenue, University, Mississippi 38677 United States
| | - Stephen O Duke
- Natural Products Utilization Research Unit, USDA-ARS, Thad Cochran Center, University Avenue, University, Mississippi 38677 United States
| | - Caio A Carbonari
- Faculty of Agronomic Sciences, São Paulo State University, Botucatu, 01049-010, SP, Brazil
| | - Giovanna L G C Gomes
- Faculty of Agronomic Sciences, São Paulo State University, Botucatu, 01049-010, SP, Brazil
| | - Ratnakar Asolkar
- Marrone Bio Innovations, 1540 Drew Avenue, Davis, California 95618, United States
| | - Louis Boddy
- Marrone Bio Innovations, 1540 Drew Avenue, Davis, California 95618, United States
| | - Franck E Dayan
- Agricultural Biology, Colorado State University, Fort Collins, Colorado 80523, United States
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5
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Discovery of class I histone deacetylase inhibitors based on romidpesin with promising selectivity for cancer cells. Future Med Chem 2020; 12:311-323. [DOI: 10.4155/fmc-2019-0290] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Aim: Class I histone deacetylases (HDACs) are considered to be promising anticancer targets, but selective inhibition of class I HDAC isoforms remains a challenge. Methods & results: Previously, we obtained a selective class I HDAC inhibitor 9 based on a macrocyclic HDAC inhibitor Romidpesin. As our continuous efforts, a library of novel cyclicdepsipeptides based on 9 was established using a convergent synthesis strategy. The most active compounds 10, 16 and 19 selectively inhibit class I HDACs and exhibit promising nanomolar antiproliferative activities against several cancer cell lines with excellent selectivity toward cancer cells over normal cells. Besides, compound 10 demonstrates excellent antitumor effects in human prostate carcinoma PC3 xenograft models with no observed toxicity. Conclusion: These cyclicdepsipeptides show great therapeutic potential as novel anticancer agents for clinical translation.
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6
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Elek GZ, Koppel K, Zubrytski DM, Konrad N, Järving I, Lopp M, Kananovich DG. Divergent Access to Histone Deacetylase Inhibitory Cyclopeptides via a Late-Stage Cyclopropane Ring Cleavage Strategy. Short Synthesis of Chlamydocin. Org Lett 2019; 21:8473-8478. [PMID: 31596600 DOI: 10.1021/acs.orglett.9b03305] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A unified step-economical strategy for accessing histone deacetylase inhibitory peptides is proposed, based on the late-stage installation of multiple zinc-binding functionalities via the cleavage of the strained cyclopropane ring in the common pluripotent cyclopropanol precursor. The efficacy of the proposed diversity-oriented approach has been validated by short stereoselective synthesis of natural product chlamydocin, containing a challenging-to-install fragment of (2S,9S)-2-amino-8-oxo-9,10-epoxydecanoic acid (Aoe) and a range of its analogues, derivatives of 2-amino-8-oxodecanoic and 2-aminosuberic acids.
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Affiliation(s)
- Gábor Zoltán Elek
- Tallinn University of Technology , School of Science, Department of Chemistry and Biotechnology , Akadeemia tee 15 , 12618 Tallinn , Estonia
| | - Kaur Koppel
- Tallinn University of Technology , School of Science, Department of Chemistry and Biotechnology , Akadeemia tee 15 , 12618 Tallinn , Estonia
| | - Dzmitry M Zubrytski
- Belarusian State University , Department of Organic Chemistry , Leningradskaya 14 , 220050 Minsk , Belarus
| | - Nele Konrad
- Tallinn University of Technology , School of Science, Department of Chemistry and Biotechnology , Akadeemia tee 15 , 12618 Tallinn , Estonia
| | - Ivar Järving
- Tallinn University of Technology , School of Science, Department of Chemistry and Biotechnology , Akadeemia tee 15 , 12618 Tallinn , Estonia
| | - Margus Lopp
- Tallinn University of Technology , School of Science, Department of Chemistry and Biotechnology , Akadeemia tee 15 , 12618 Tallinn , Estonia
| | - Dzmitry G Kananovich
- Tallinn University of Technology , School of Science, Department of Chemistry and Biotechnology , Akadeemia tee 15 , 12618 Tallinn , Estonia
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7
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Abstract
This Review is devoted to the chemistry of macrocyclic peptides having heterocyclic fragments in their structure. These motifs are present in many natural products and synthetic macrocycles designed against a particular biochemical target. Thiazole and oxazole are particularly common constituents of naturally occurring macrocyclic peptide molecules. This frequency of occurrence is because the thiazole and oxazole rings originate from cysteine, serine, and threonine residues. Whereas other heteroaryl groups are found less frequently, they offer many insightful lessons that range from conformational control to receptor/ligand interactions. Many options to develop new and improved technologies to prepare natural products have appeared in recent years, and the synthetic community has been pursuing synthetic macrocycles that have no precedent in nature. This Review attempts to summarize progress in this area.
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Affiliation(s)
- Ivan V Smolyar
- Department of Chemistry , Moscow State University , Leninskije Gory , 199991 Moscow , Russia
| | - Andrei K Yudin
- Davenport Research Laboratories, Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada
| | - Valentine G Nenajdenko
- Department of Chemistry , Moscow State University , Leninskije Gory , 199991 Moscow , Russia
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8
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Mahindra A, Millard CJ, Black I, Archibald LJ, Schwabe JWR, Jamieson AG. Synthesis of HDAC Substrate Peptidomimetic Inhibitors Using Fmoc Amino Acids Incorporating Zinc-Binding Groups. Org Lett 2019; 21:3178-3182. [PMID: 30998366 PMCID: PMC6503537 DOI: 10.1021/acs.orglett.9b00885] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
![]()
Syntheses of Fmoc
amino acids having zinc-binding groups were prepared
and incorporated into substrate inhibitor H3K27 peptides using Fmoc/tBu solid-phase peptide synthesis (SPPS). Peptide 11, prepared using Fmoc-Asu(NHOtBu)-OH, is a potent inhibitor
(IC50 = 390 nM) of the core NuRD corepressor complex (HDAC1–MTA1–RBBP4).
The Fmoc amino acids have the potential to facilitate the rapid preparation
of substrate peptidomimetic inhibitor (SPI) libraries in the search
for selective HDAC inhibitors.
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Affiliation(s)
- Amit Mahindra
- School of Chemistry , University of Glasgow , Joseph Black Building, University Avenue , Glasgow G12 8QQ , U.K
| | - Christopher J Millard
- Leicester Institute of Structural and Chemical Biology, Department of Molecular and Cell Biology , University of Leicester , Leicester LE1 7RH , U.K
| | - Iona Black
- School of Chemistry , University of Glasgow , Joseph Black Building, University Avenue , Glasgow G12 8QQ , U.K
| | - Lewis J Archibald
- School of Chemistry , University of Glasgow , Joseph Black Building, University Avenue , Glasgow G12 8QQ , U.K
| | - John W R Schwabe
- Leicester Institute of Structural and Chemical Biology, Department of Molecular and Cell Biology , University of Leicester , Leicester LE1 7RH , U.K
| | - Andrew G Jamieson
- School of Chemistry , University of Glasgow , Joseph Black Building, University Avenue , Glasgow G12 8QQ , U.K
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9
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Létévé M, Gonzalez C, Moroy G, Martinez A, Jeanblanc J, Legastelois R, Naassila M, Sapi J, Bourguet E. Unexpected effect of cyclodepsipeptides bearing a sulfonylhydrazide moiety towards histone deacetylase activity. Bioorg Chem 2018; 81:222-233. [PMID: 30153587 DOI: 10.1016/j.bioorg.2018.08.016] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2018] [Revised: 08/08/2018] [Accepted: 08/09/2018] [Indexed: 12/01/2022]
Affiliation(s)
- Mathieu Létévé
- Institut de Chimie Moléculaire de Reims, UMR 7312-CNRS, Université de Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096 Reims Cedex, France; Structure Fédérative de Recherche-Champagne Ardenne Picardie Santé (SFR-CAP Santé), France
| | - Céline Gonzalez
- INSERM U1247, Groupe de Recherche sur l'Alcool et les Pharmacodépendances (GRAP), Université de Picardie Jules Verne, C.U.R.S. (Centre Universitaire de Recherche en Santé), Chemin du Thil, 80000 Amiens, France; Structure Fédérative de Recherche-Champagne Ardenne Picardie Santé (SFR-CAP Santé), France
| | - Gautier Moroy
- INSERM UMR-S 973, Molécules Thérapeutiques In Silico, Université de Paris Diderot, Sorbonne Paris Cité, 35 rue Hélène Brion, 75013 Paris Cedex, France
| | - Agathe Martinez
- Institut de Chimie Moléculaire de Reims, UMR 7312-CNRS, Université de Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096 Reims Cedex, France
| | - Jérôme Jeanblanc
- INSERM U1247, Groupe de Recherche sur l'Alcool et les Pharmacodépendances (GRAP), Université de Picardie Jules Verne, C.U.R.S. (Centre Universitaire de Recherche en Santé), Chemin du Thil, 80000 Amiens, France; Structure Fédérative de Recherche-Champagne Ardenne Picardie Santé (SFR-CAP Santé), France
| | - Rémi Legastelois
- INSERM U1247, Groupe de Recherche sur l'Alcool et les Pharmacodépendances (GRAP), Université de Picardie Jules Verne, C.U.R.S. (Centre Universitaire de Recherche en Santé), Chemin du Thil, 80000 Amiens, France; Structure Fédérative de Recherche-Champagne Ardenne Picardie Santé (SFR-CAP Santé), France
| | - Mickaël Naassila
- INSERM U1247, Groupe de Recherche sur l'Alcool et les Pharmacodépendances (GRAP), Université de Picardie Jules Verne, C.U.R.S. (Centre Universitaire de Recherche en Santé), Chemin du Thil, 80000 Amiens, France; Structure Fédérative de Recherche-Champagne Ardenne Picardie Santé (SFR-CAP Santé), France
| | - Janos Sapi
- Institut de Chimie Moléculaire de Reims, UMR 7312-CNRS, Université de Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096 Reims Cedex, France; Structure Fédérative de Recherche-Champagne Ardenne Picardie Santé (SFR-CAP Santé), France
| | - Erika Bourguet
- Institut de Chimie Moléculaire de Reims, UMR 7312-CNRS, Université de Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096 Reims Cedex, France; Structure Fédérative de Recherche-Champagne Ardenne Picardie Santé (SFR-CAP Santé), France.
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10
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Ali I, Conrad RJ, Verdin E, Ott M. Lysine Acetylation Goes Global: From Epigenetics to Metabolism and Therapeutics. Chem Rev 2018; 118:1216-1252. [PMID: 29405707 DOI: 10.1021/acs.chemrev.7b00181] [Citation(s) in RCA: 222] [Impact Index Per Article: 37.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Post-translational acetylation of lysine residues has emerged as a key regulatory mechanism in all eukaryotic organisms. Originally discovered in 1963 as a unique modification of histones, acetylation marks are now found on thousands of nonhistone proteins located in virtually every cellular compartment. Here we summarize key findings in the field of protein acetylation over the past 20 years with a focus on recent discoveries in nuclear, cytoplasmic, and mitochondrial compartments. Collectively, these findings have elevated protein acetylation as a major post-translational modification, underscoring its physiological relevance in gene regulation, cell signaling, metabolism, and disease.
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Affiliation(s)
- Ibraheem Ali
- Gladstone Institute of Virology and Immunology , San Francisco, California 94158, United States.,University of California, San Francisco , Department of Medicine, San Francisco, California 94158, United States
| | - Ryan J Conrad
- Gladstone Institute of Virology and Immunology , San Francisco, California 94158, United States.,University of California, San Francisco , Department of Medicine, San Francisco, California 94158, United States
| | - Eric Verdin
- Buck Institute for Research on Aging , Novato, California 94945, United States
| | - Melanie Ott
- Gladstone Institute of Virology and Immunology , San Francisco, California 94158, United States.,University of California, San Francisco , Department of Medicine, San Francisco, California 94158, United States
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11
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Servatius P, Kazmaier U. Total synthesis of the natural HDAC inhibitor Cyl-1. Org Biomol Chem 2018; 16:3464-3472. [DOI: 10.1039/c8ob00391b] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A chelate enolate Claisen rearrangement was used as a key step in the first total synthesis of Cyl-1, a cyclic tetrapeptide from Cylindrocladium scoparium.
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Affiliation(s)
- Phil Servatius
- Institute of Organic Chemistry
- Saarland University
- 66041 Saarbrücken
- Germany
| | - Uli Kazmaier
- Institute of Organic Chemistry
- Saarland University
- 66041 Saarbrücken
- Germany
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12
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Wood M, Rymarchyk S, Zheng S, Cen Y. Trichostatin A inhibits deacetylation of histone H3 and p53 by SIRT6. Arch Biochem Biophys 2017; 638:8-17. [PMID: 29233643 DOI: 10.1016/j.abb.2017.12.009] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2017] [Revised: 11/15/2017] [Accepted: 12/08/2017] [Indexed: 02/07/2023]
Abstract
SIRT6 is an epigenetic modification enzyme that regulates gene transcription through its deacetylase activity. In addition to histone protein, SIRT6 also modify other proteins and enzymes, some of which are central players in metabolic reprogramming and aging process. Therefore, SIRT6 has emerged as a therapeutic target for the treatment of metabolic disorder and age-related diseases. Here, we report that SIRT6 deacetylates lysine 382 of p53 in short synthetic peptide sequence and in full length p53. Further studies showed that the deacetylation of H3K9Ac and p53K382Ac are insensitive to nicotinamide inhibition, but are sensitive to trichostatin A (TSA) inhibition. Detailed kinetic analysis revealed that TSA competes with the peptide substrate for inhibition, and this inhibition is unique to SIRT6 in the sirtuin family. Taken together, this study not only suggests potential roles of SIRT6 in regulating apoptosis and stress resistance via direct deacetylation of p53, but also provides lead compound for the development of potent and selective SIRT6 inhibitors.
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Affiliation(s)
- Marci Wood
- Department of Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, 261 Mountain View Drive, Colchester, VT 05446, USA
| | - Stacia Rymarchyk
- Department of Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, 261 Mountain View Drive, Colchester, VT 05446, USA
| | - Song Zheng
- Department of Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, 261 Mountain View Drive, Colchester, VT 05446, USA
| | - Yana Cen
- Department of Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, 261 Mountain View Drive, Colchester, VT 05446, USA.
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13
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Hartl M, Füßl M, Boersema PJ, Jost JO, Kramer K, Bakirbas A, Sindlinger J, Plöchinger M, Leister D, Uhrig G, Moorhead GB, Cox J, Salvucci ME, Schwarzer D, Mann M, Finkemeier I. Lysine acetylome profiling uncovers novel histone deacetylase substrate proteins in Arabidopsis. Mol Syst Biol 2017; 13:949. [PMID: 29061669 PMCID: PMC5658702 DOI: 10.15252/msb.20177819] [Citation(s) in RCA: 94] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
Histone deacetylases have central functions in regulating stress defenses and development in plants. However, the knowledge about the deacetylase functions is largely limited to histones, although these enzymes were found in diverse subcellular compartments. In this study, we determined the proteome‐wide signatures of the RPD3/HDA1 class of histone deacetylases in Arabidopsis. Relative quantification of the changes in the lysine acetylation levels was determined on a proteome‐wide scale after treatment of Arabidopsis leaves with deacetylase inhibitors apicidin and trichostatin A. We identified 91 new acetylated candidate proteins other than histones, which are potential substrates of the RPD3/HDA1‐like histone deacetylases in Arabidopsis, of which at least 30 of these proteins function in nucleic acid binding. Furthermore, our analysis revealed that histone deacetylase 14 (HDA14) is the first organellar‐localized RPD3/HDA1 class protein found to reside in the chloroplasts and that the majority of its protein targets have functions in photosynthesis. Finally, the analysis of HDA14 loss‐of‐function mutants revealed that the activation state of RuBisCO is controlled by lysine acetylation of RuBisCO activase under low‐light conditions.
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Affiliation(s)
- Markus Hartl
- Plant Proteomics, Max Planck Institute for Plant Breeding Research, Cologne, Germany.,Plant Molecular Biology, Department Biology I, Ludwig-Maximilians-University Munich, Martinsried, Germany.,Mass Spectrometry Facility, Max F. Perutz Laboratories (MFPL), Vienna Biocenter (VBC), University of Vienna, Vienna, Austria
| | - Magdalena Füßl
- Plant Proteomics, Max Planck Institute for Plant Breeding Research, Cologne, Germany.,Plant Molecular Biology, Department Biology I, Ludwig-Maximilians-University Munich, Martinsried, Germany.,Plant Physiology, Institute of Plant Biology and Biotechnology, University of Muenster, Muenster, Germany
| | - Paul J Boersema
- Proteomics and Signal Transduction, Max-Planck Institute of Biochemistry, Martinsried, Germany
| | - Jan-Oliver Jost
- Interfaculty Institute of Biochemistry, University of Tübingen, Tübingen, Germany
| | - Katharina Kramer
- Plant Proteomics, Max Planck Institute for Plant Breeding Research, Cologne, Germany
| | - Ahmet Bakirbas
- Plant Proteomics, Max Planck Institute for Plant Breeding Research, Cologne, Germany.,Plant Physiology, Institute of Plant Biology and Biotechnology, University of Muenster, Muenster, Germany
| | - Julia Sindlinger
- Interfaculty Institute of Biochemistry, University of Tübingen, Tübingen, Germany
| | - Magdalena Plöchinger
- Plant Molecular Biology, Department Biology I, Ludwig-Maximilians-University Munich, Martinsried, Germany
| | - Dario Leister
- Plant Molecular Biology, Department Biology I, Ludwig-Maximilians-University Munich, Martinsried, Germany
| | - Glen Uhrig
- Department of Biological Sciences, University of Calgary, Calgary, AB, Canada
| | - Greg Bg Moorhead
- Department of Biological Sciences, University of Calgary, Calgary, AB, Canada
| | - Jürgen Cox
- Proteomics and Signal Transduction, Max-Planck Institute of Biochemistry, Martinsried, Germany
| | - Michael E Salvucci
- US Department of Agriculture, Agricultural Research Service, Arid-Land Agricultural Research Center, Maricopa, AZ, USA
| | - Dirk Schwarzer
- Interfaculty Institute of Biochemistry, University of Tübingen, Tübingen, Germany
| | - Matthias Mann
- Proteomics and Signal Transduction, Max-Planck Institute of Biochemistry, Martinsried, Germany
| | - Iris Finkemeier
- Plant Proteomics, Max Planck Institute for Plant Breeding Research, Cologne, Germany .,Plant Molecular Biology, Department Biology I, Ludwig-Maximilians-University Munich, Martinsried, Germany.,Plant Physiology, Institute of Plant Biology and Biotechnology, University of Muenster, Muenster, Germany
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14
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Cheng-Sánchez I, García-Ruiz C, Guerrero-Vásquez GA, Sarabia F. An Olefin Cross-Metathesis Approach to Depudecin and Stereoisomeric Analogues. J Org Chem 2017; 82:4744-4757. [PMID: 28397496 DOI: 10.1021/acs.joc.7b00424] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
A new total synthesis of the natural product (-)-depudecin, a unique and unexplored histone deacetylase (HDAC) inhibitor, is reported. A key feature of the synthesis is the utilization of an olefin cross-metathesis strategy, which provides for an efficient and improved access to natural depudecin, compared with our previous linear synthesis. Featured by its brevity and convergency, our developed synthetic strategy was applied to the preparation of the 10-epi derivative and the enantiomer of depudecin, which represent interesting stereoisomeric analogues for structure-activity relationship studies.
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Affiliation(s)
- Iván Cheng-Sánchez
- Department of Organic Chemistry, Faculty of Sciences, University of Malaga , Campus de Teatinos s/n, 29071, Malaga, Spain
| | - Cristina García-Ruiz
- Department of Organic Chemistry, Faculty of Sciences, University of Malaga , Campus de Teatinos s/n, 29071, Malaga, Spain
| | - Guillermo A Guerrero-Vásquez
- Department of Organic Chemistry, Faculty of Sciences, University of Malaga , Campus de Teatinos s/n, 29071, Malaga, Spain
| | - Francisco Sarabia
- Department of Organic Chemistry, Faculty of Sciences, University of Malaga , Campus de Teatinos s/n, 29071, Malaga, Spain
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15
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Traoré MM, Zwick V, Simões-Pires CA, Nurisso A, Issa M, Cuendet M, Maynadier M, Wein S, Vial H, Jamet H, Wong YS. Hydroxyl Ketone-Based Histone Deacetylase Inhibitors To Gain Insight into Class I HDAC Selectivity versus That of HDAC6. ACS OMEGA 2017; 2:1550-1562. [PMID: 30023639 PMCID: PMC6044785 DOI: 10.1021/acsomega.6b00481] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2016] [Accepted: 03/29/2017] [Indexed: 06/07/2023]
Abstract
Little is known about the biological and structural features that govern the isoform selectivity for class I histone deacetylases (HDACs) over HDAC6. In addition to that for known inhibitors, like benzamides, psammaplin A, and cyclodepsipeptide-derived thiols, selectivity was also observed for naturally occurring cyclopeptide HDAC inhibitors with an aliphatic flexible linker and ketonelike zinc-binding group (ZBG). The present study reports that this isoform selectivity is mainly due to the linker and ZBG, as replacement of the cyclopeptide cap region by a simple aniline retained class I HDAC isoform selectivity toward HDAC6 in enzymatic assays. The best cyclopeptide-free analogues preserved efficacy against Plasmodium falciparum and cancer cell lines. Molecular modeling provided hypotheses to explain this selectivity and suggests different behaviors of the flexible linker on HDAC1 and HDAC6 pockets, which may influence, on the basis of the strength of the ZBG, its coordination with the zinc ion.
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Affiliation(s)
- Mohamed
D. M. Traoré
- Département
de Pharmacochimie Moléculaire, CNRS
UMR 5063, ICMG FR 2607, Univ. Grenoble Alpes, 470 rue de la chimie, 38041 Grenoble cedex 9, France
- Département
de Chimie Moléculaire, CNRS UMR 5250,
ICMG FR 2607, Univ. Grenoble Alpes, 301 rue de la chimie, 38041 Grenoble cedex 9, France
| | - Vincent Zwick
- School
of Pharmaceutical Sciences, University of
Geneva, University of Lausanne, rue Michel Servet 1, 1211 Geneva, Switzerland
| | - Claudia A. Simões-Pires
- School
of Pharmaceutical Sciences, University of
Geneva, University of Lausanne, rue Michel Servet 1, 1211 Geneva, Switzerland
| | - Alessandra Nurisso
- School
of Pharmaceutical Sciences, University of
Geneva, University of Lausanne, rue Michel Servet 1, 1211 Geneva, Switzerland
- Laboratoire
Dynamique des Interactions Membranaires Normales et Pathologiques, UMR 5235, CNRS, University of Montpellier, Place Eugène Bataillon, 34095 Montpellier, France
| | - Mark Issa
- School
of Pharmaceutical Sciences, University of
Geneva, University of Lausanne, rue Michel Servet 1, 1211 Geneva, Switzerland
| | - Muriel Cuendet
- School
of Pharmaceutical Sciences, University of
Geneva, University of Lausanne, rue Michel Servet 1, 1211 Geneva, Switzerland
| | - Marjorie Maynadier
- Département
de Biochimie, Université de Montréal, Montréal, Québec, Canada H3C 3J7
| | - Sharon Wein
- Département
de Biochimie, Université de Montréal, Montréal, Québec, Canada H3C 3J7
| | - Henri Vial
- Département
de Biochimie, Université de Montréal, Montréal, Québec, Canada H3C 3J7
| | - Helene Jamet
- Département
de Chimie Moléculaire, CNRS UMR 5250,
ICMG FR 2607, Univ. Grenoble Alpes, 301 rue de la chimie, 38041 Grenoble cedex 9, France
| | - Yung-Sing Wong
- Département
de Pharmacochimie Moléculaire, CNRS
UMR 5063, ICMG FR 2607, Univ. Grenoble Alpes, 470 rue de la chimie, 38041 Grenoble cedex 9, France
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16
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Kim B, Ratnayake R, Lee H, Shi G, Zeller SL, Li C, Luesch H, Hong J. Synthesis and biological evaluation of largazole zinc-binding group analogs. Bioorg Med Chem 2017; 25:3077-3086. [PMID: 28416100 DOI: 10.1016/j.bmc.2017.03.071] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2017] [Revised: 03/23/2017] [Accepted: 03/27/2017] [Indexed: 11/24/2022]
Abstract
Histone acetylation is an extensively investigated post-translational modification that plays an important role as an epigenetic regulator. It is controlled by histone acetyl transferases (HATs) and histone deacetylases (HDACs). The overexpression of HDACs and consequent hypoacetylation of histones have been observed in a variety of different diseases, leading to a recent focus of HDACs as attractive drug targets. The natural product largazole is one of the most potent natural HDAC inhibitors discovered so far and a number of largazole analogs have been prepared to define structural requirements for its HDAC inhibitory activity. However, previous structure-activity relationship studies have heavily investigated the macrocycle region of largazole, while there have been only limited efforts to probe the effect of various zinc-binding groups (ZBGs) on HDAC inhibition. Herein, we prepared a series of largazole analogs with various ZBGs and evaluated their HDAC inhibition and cytotoxicity. While none of the analogs tested were as potent or selective as largazole, the Zn2+-binding affinity of each ZBG correlated with HDAC inhibition and cytotoxicity. We expect that our findings will aid in building a deeper understanding of the role of ZBGs in HDAC inhibition as well as provide an important basis for the future development of new largazole analogs with non-thiol ZBGs as novel therapeutics for cancer.
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Affiliation(s)
- Bumki Kim
- Department of Chemistry, Duke University, Durham, NC 27708, United States
| | - Ranjala Ratnayake
- Department of Medicinal Chemistry, College of Pharmacy, University of Florida, Gainesville, FL 32610, United States; Center for Natural Products, Drug Discovery and Development (CNPD3), University of Florida, Gainesville, FL 32610, United States
| | - Hyunji Lee
- Department of Chemistry, Duke University, Durham, NC 27708, United States
| | - Guqin Shi
- Division of Medicinal Chemistry and Pharmacognosy, College of Pharmacy, The Ohio State University, Columbus, OH 43210, United States
| | - Sabrina L Zeller
- Department of Chemistry, Duke University, Durham, NC 27708, United States
| | - Chenglong Li
- Department of Medicinal Chemistry, College of Pharmacy, University of Florida, Gainesville, FL 32610, United States; Center for Natural Products, Drug Discovery and Development (CNPD3), University of Florida, Gainesville, FL 32610, United States
| | - Hendrik Luesch
- Department of Medicinal Chemistry, College of Pharmacy, University of Florida, Gainesville, FL 32610, United States; Center for Natural Products, Drug Discovery and Development (CNPD3), University of Florida, Gainesville, FL 32610, United States.
| | - Jiyong Hong
- Department of Chemistry, Duke University, Durham, NC 27708, United States; Department of Pharmacology and Cancer Biology, Duke University Medical Center, Durham, NC 27710, United States.
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17
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Zhao L, Dunne CE, Clausen DJ, Roberts JM, Paulk J, Liu H, Wiest OG, Bradner JE, Williams RM. Synthesis and Biochemical Evaluation of Biotinylated Conjugates of Largazole Analogues: Selective Class I Histone Deacetylase Inhibitors. Isr J Chem 2017; 57:319-330. [PMID: 30760938 PMCID: PMC6370329 DOI: 10.1002/ijch.201600130] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
The synthesis of biotinylated conjugates of synthetic analogues of the potent and selective histone deacetylase (HDAC) inhibitor largazole is reported. The thiazole moiety of the parent compound's cap group was derivatized to allow the chemical conjugation to biotin. The derivatized largazole analogues were assayed across a panel of HDACs 1-9 and retained potent and selective inhibitory activity towards the class I HDAC isoforms. The biotinylated conjugate was further shown to pull down HDACs 1, 2, and 3.
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Affiliation(s)
- Le Zhao
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523 (USA)
| | - Christine E. Dunne
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523 (USA)
| | - Dane J. Clausen
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523 (USA)
| | - Justin M. Roberts
- Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115 (USA)
| | - Joshiawa Paulk
- Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115 (USA)
| | - Haining Liu
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, Indiana 46556-5670 (USA)
| | - Olaf G. Wiest
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, Indiana 46556-5670 (USA)
| | - James E. Bradner
- Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115 (USA)
| | - Robert M. Williams
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523 (USA)
- University of Colorado Cancer Center, Aurora, Colorado 80045 (USA)
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18
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Maolanon AR, Kristensen HME, Leman LJ, Ghadiri MR, Olsen CA. Natural and Synthetic Macrocyclic Inhibitors of the Histone Deacetylase Enzymes. Chembiochem 2016; 18:5-49. [DOI: 10.1002/cbic.201600519] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2016] [Indexed: 12/18/2022]
Affiliation(s)
- Alex R. Maolanon
- Center for Biopharmaceuticals and; Department of Drug Design and Pharmacology; University of Copenhagen; Universitetsparken 2 2100 Copenhagen Denmark
| | - Helle M. E. Kristensen
- Center for Biopharmaceuticals and; Department of Drug Design and Pharmacology; University of Copenhagen; Universitetsparken 2 2100 Copenhagen Denmark
| | - Luke J. Leman
- Department of Chemistry; The Skaggs Institute for Chemical Biology; The Scripps Research Institute; 10550 North Torrey Pines Road La Jolla CA 92037 USA
| | - M. Reza Ghadiri
- Department of Chemistry; The Skaggs Institute for Chemical Biology; The Scripps Research Institute; 10550 North Torrey Pines Road La Jolla CA 92037 USA
| | - Christian A. Olsen
- Center for Biopharmaceuticals and; Department of Drug Design and Pharmacology; University of Copenhagen; Universitetsparken 2 2100 Copenhagen Denmark
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19
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Sindlinger J, Bierlmeier J, Geiger LC, Kramer K, Finkemeier I, Schwarzer D. Probing the structure-activity relationship of endogenous histone deacetylase complexes with immobilized peptide-inhibitors. J Pept Sci 2016; 22:352-9. [PMID: 27071932 DOI: 10.1002/psc.2875] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2015] [Revised: 02/12/2016] [Accepted: 02/19/2016] [Indexed: 12/31/2022]
Abstract
Histone deacetylases (HDACs) are key regulators of numerous cellular proteins by removing acetylation marks from modified lysine residues. Peptide-based HDAC probes containing α-aminosuberic acid ω-hydroxamate have been established as useful tools for investigating substrate selectivity and composition of endogenous HDAC complexes in cellular lysates. Here we report a structure-activity study of potential HDAC-probes containing derivatives of the hydroxamate moieties. While most of these probes did not recruit significant amounts of endogenous HDACs from cellular lysates, peptides containing Nε-acetyl-Nε-hydroxy-L-lysine served as HDAC probe. The recruitment efficiency varied between HDACs and was generally lower than that of α-aminosuberic acid ω-hydroxamate probes, but showed a similar global interaction profile. These findings indicate that Nε-acetyl-Nε-hydroxy-L-lysine might be a useful tool for investigations on HDAC complexes and the development of HDAC inhibitors. Copyright © 2016 European Peptide Society and John Wiley & Sons, Ltd.
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Affiliation(s)
- Julia Sindlinger
- Interfaculty Institute of Biochemistry, University of Tübingen, Hoppe-Seyler-Str. 4, D-72076, Tübingen, Germany
| | - Jan Bierlmeier
- Interfaculty Institute of Biochemistry, University of Tübingen, Hoppe-Seyler-Str. 4, D-72076, Tübingen, Germany
| | - Lydia-Christina Geiger
- Interfaculty Institute of Biochemistry, University of Tübingen, Hoppe-Seyler-Str. 4, D-72076, Tübingen, Germany
| | - Katharina Kramer
- Plant Proteomics, Max Planck-Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829, Cologne, Germany
| | - Iris Finkemeier
- Plant Proteomics, Max Planck-Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829, Cologne, Germany.,Institute for Plant Biology and Biotechnology, University of Muenster, Schlossplatz 7, 48149, Muenster, Germany
| | - Dirk Schwarzer
- Interfaculty Institute of Biochemistry, University of Tübingen, Hoppe-Seyler-Str. 4, D-72076, Tübingen, Germany
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20
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Moos WH, Maneta E, Pinkert CA, Irwin MH, Hoffman ME, Faller DV, Steliou K. Epigenetic Treatment of Neuropsychiatric Disorders: Autism and Schizophrenia. Drug Dev Res 2016; 77:53-72. [PMID: 26899191 DOI: 10.1002/ddr.21295] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Neuropsychiatric disorders are a heterogeneous group of conditions that often share underlying mitochondrial dysfunction and biological pathways implicated in their pathogenesis, progression, and treatment. To date, these disorders have proven notoriously resistant to molecular-targeted therapies, and clinical options are relegated to interventional types, which do not address the core symptoms of the disease. In this review, we discuss emerging epigenetic-driven approaches using novel acylcarnitine esters (carnitinoids) that act on master regulators of antioxidant and cytoprotective genes and mitophagic pathways. These carnitinoids are actively transported, mitochondria-localizing, biomimetic coenzyme A surrogates of short-chain fatty acids, which inhibit histone deacetylase and may reinvigorate synaptic plasticity and protect against neuronal damage. We outline these neuroprotective effects in the context of treatment of neuropsychiatric disorders such as autism spectrum disorder and schizophrenia.
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Affiliation(s)
- Walter H Moos
- Department of Pharmaceutical Chemistry, School of Pharmacy, University of California San Francisco, San Francisco, CA, USA.,SRI Biosciences, A Division of SRI International, Menlo Park, CA, USA
| | - Eleni Maneta
- Department of Psychiatry, Boston Children's Hospital, Boston, MA, USA.,Harvard Medical School, Boston, MA, USA
| | - Carl A Pinkert
- Department of Biological Sciences, College of Arts and Sciences, The University of Alabama, Tuscaloosa, AL, USA.,Department of Pathobiology, College of Veterinary Medicine, Auburn University, Auburn, AL, USA
| | - Michael H Irwin
- Department of Pathobiology, College of Veterinary Medicine, Auburn University, Auburn, AL, USA
| | - Michelle E Hoffman
- Department of Pathobiology, College of Veterinary Medicine, Auburn University, Auburn, AL, USA
| | - Douglas V Faller
- Cancer Research Center, Boston University School of Medicine, Boston, MA, USA
| | - Kosta Steliou
- Cancer Research Center, Boston University School of Medicine, Boston, MA, USA.,PhenoMatriX, Inc., Boston, MA, USA
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21
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Mukherjee JP, Sil S, Chattopadhyay SK. A modular approach to cyclic tetrapeptides related to histone deacetylase inhibition: synthesis of epi-microsporin A. Tetrahedron Lett 2016. [DOI: 10.1016/j.tetlet.2016.01.005] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
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22
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Bodireddy MR, Mahla RS, Khaja Mohinuddin PM, Reddy GT, Raghava Prasad DV, Kumar H, Reddy NCG. Discovery of a new class of 16-membered (2Z,11Z)-3,11-di(aryl/naphthyl)-1,13-dioxa-5,9-dithia-2,12-diazacyclohexadeca-2,11-dienes as anti-tumor agents. RSC Adv 2016. [DOI: 10.1039/c6ra15140j] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
A series of new 16-membered macrocyclic compounds were synthesized and evaluation of in vitro anti-tumor activities on MDAMB-231 cell lines reveal that the macrocycles, 1a, 1f, 1g, 1i and 1k are promising anti-tumor agents.
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Affiliation(s)
- Mohan Reddy Bodireddy
- Department of Chemistry
- School of Physical Sciences
- Yogi Vemana University
- Kadapa-516 003
- India
| | - Ranjeet Singh Mahla
- Department of Biological Sciences
- Indian Institute of Science Education and Research (IISER)
- Bhopal-462023
- India
| | | | - G. Trivikram Reddy
- Department of Chemistry
- School of Physical Sciences
- Yogi Vemana University
- Kadapa-516 003
- India
| | | | - Himanshu Kumar
- Department of Biological Sciences
- Indian Institute of Science Education and Research (IISER)
- Bhopal-462023
- India
- Laboratory of Host Defense
| | - N. C. Gangi Reddy
- Department of Chemistry
- School of Physical Sciences
- Yogi Vemana University
- Kadapa-516 003
- India
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23
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Mukherjee J, Sil S, Chattopadhyay SK. Diversity-oriented synthesis of analogues of the novel macrocyclic peptide FR-225497 through late stage functionalization. Beilstein J Org Chem 2015; 11:2487-92. [PMID: 26734096 PMCID: PMC4685926 DOI: 10.3762/bjoc.11.270] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2015] [Accepted: 11/23/2015] [Indexed: 12/14/2022] Open
Abstract
A concise synthetic approach to a class of biologically interesting cyclic tetrapeptides is reported which involves a late-stage functionalization of a macrocyclic scaffold through cross metathesis in an attempt to create diversity. The utility of this protocol is demonstrated through the preparation of three structural analogues of the important naturally occurring histone deacetylase inhibitor FR-225497.
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Affiliation(s)
- Jyotiprasad Mukherjee
- Department of Chemistry, University of Kalyani, Kalyani - 741235, West Bengal, India
| | - Suman Sil
- Department of Chemistry, University of Kalyani, Kalyani - 741235, West Bengal, India
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24
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García-Ruiz C, Cheng-Sánchez I, Sarabia F. Stereoselective Total Synthesis of (-)-Depudecin. Org Lett 2015; 17:5558-61. [PMID: 26517569 DOI: 10.1021/acs.orglett.5b02697] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
The total synthesis of the natural product depudecin, an antiangiogenic microbial polyketide with inhibitory activity against histone deacetylases, is reported. Characterized by a highly oxidized 11-carbon chain containing two epoxides conjugated through a trans-disubstituted olefin, its total synthesis was efficiently accomplished by a novel asymmetric methodology of epoxide formation based on a new class of chiral sulfonium salts, allowing for the construction of the oxirane rings in an efficient and stereoselective fashion.
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Affiliation(s)
- Cristina García-Ruiz
- Department of Organic Chemistry, Faculty of Sciences, University of Málaga , Campus de Teatinos s/n, 29071 Málaga, Spain
| | - Iván Cheng-Sánchez
- Department of Organic Chemistry, Faculty of Sciences, University of Málaga , Campus de Teatinos s/n, 29071 Málaga, Spain
| | - Francisco Sarabia
- Department of Organic Chemistry, Faculty of Sciences, University of Málaga , Campus de Teatinos s/n, 29071 Málaga, Spain
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25
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Halsall JA, Turan N, Wiersma M, Turner BM. Cells adapt to the epigenomic disruption caused by histone deacetylase inhibitors through a coordinated, chromatin-mediated transcriptional response. Epigenetics Chromatin 2015; 8:29. [PMID: 26380582 PMCID: PMC4572612 DOI: 10.1186/s13072-015-0021-9] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2015] [Accepted: 08/03/2015] [Indexed: 12/18/2022] Open
Abstract
BACKGROUND The genome-wide hyperacetylation of chromatin caused by histone deacetylase inhibitors (HDACi) is surprisingly well tolerated by most eukaryotic cells. The homeostatic mechanisms that underlie this tolerance are unknown. Here we identify the transcriptional and epigenomic changes that constitute the earliest response of human lymphoblastoid cells to two HDACi, valproic acid and suberoylanilide hydroxamic acid (Vorinostat), both in widespread clinical use. RESULTS Dynamic changes in transcript levels over the first 2 h of exposure to HDACi were assayed on High Density microarrays. There was a consistent response to the two different inhibitors at several concentrations. Strikingly, components of all known lysine acetyltransferase (KAT) complexes were down-regulated, as were genes required for growth and maintenance of the lymphoid phenotype. Up-regulated gene clusters were enriched in regulators of transcription, development and phenotypic change. In untreated cells, HDACi-responsive genes, whether up- or down-regulated, were packaged in highly acetylated chromatin. This was essentially unaffected by HDACi. In contrast, HDACi induced a strong increase in H3K27me3 at transcription start sites, irrespective of their transcriptional response. Inhibition of the H3K27 methylating enzymes, EZH1/2, altered the transcriptional response to HDACi, confirming the functional significance of H3K27 methylation for specific genes. CONCLUSIONS We propose that the observed transcriptional changes constitute an inbuilt adaptive response to HDACi that promotes cell survival by minimising protein hyperacetylation, slowing growth and re-balancing patterns of gene expression. The transcriptional response to HDACi is mediated by a precisely timed increase in H3K27me3 at transcription start sites. In contrast, histone acetylation, at least at the three lysine residues tested, seems to play no direct role. Instead, it may provide a stable chromatin environment that allows transcriptional change to be induced by other factors, possibly acetylated non-histone proteins.
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Affiliation(s)
- John A Halsall
- Chromatin and Gene Expression Group, School of Cancer Sciences, College of Medical and Dental Sciences, University of Birmingham, Birmingham, B15 2TT UK
| | - Nil Turan
- Chromatin and Gene Expression Group, School of Cancer Sciences, College of Medical and Dental Sciences, University of Birmingham, Birmingham, B15 2TT UK
| | - Maaike Wiersma
- Chromatin and Gene Expression Group, School of Cancer Sciences, College of Medical and Dental Sciences, University of Birmingham, Birmingham, B15 2TT UK
| | - Bryan M Turner
- Chromatin and Gene Expression Group, School of Cancer Sciences, College of Medical and Dental Sciences, University of Birmingham, Birmingham, B15 2TT UK
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26
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Yao Y, Tu Z, Liao C, Wang Z, Li S, Yao H, Li Z, Jiang S. Discovery of Novel Class I Histone Deacetylase Inhibitors with Promising in Vitro and in Vivo Antitumor Activities. J Med Chem 2015; 58:7672-80. [DOI: 10.1021/acs.jmedchem.5b01044] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Yiwu Yao
- Laboratory of
Medicinal Chemistry, Guangzhou Institute of Biomedicine and Health,
Chinese Academy of Sciences, Guangzhou 510530, China
| | - Zhengchao Tu
- Laboratory of
Medicinal Chemistry, Guangzhou Institute of Biomedicine and Health,
Chinese Academy of Sciences, Guangzhou 510530, China
| | - Chenzhong Liao
- School
of Medical Engineering, Hefei University of Technology, Hefei, Anhui 230009, China
| | - Zhen Wang
- Laboratory of
Medicinal Chemistry, Guangzhou Institute of Biomedicine and Health,
Chinese Academy of Sciences, Guangzhou 510530, China
| | - Shang Li
- Laboratory of
Medicinal Chemistry, Guangzhou Institute of Biomedicine and Health,
Chinese Academy of Sciences, Guangzhou 510530, China
| | - Hequan Yao
- State
Key Laboratory of Natural Medicines and Department of Medicinal Chemistry, China Pharmaceutical University, Nanjing, 210009, China
| | - Zheng Li
- Department
of Nanomedicine, Houston Methodist Hospital Research Institute, Houston, Texas 77030, United States
| | - Sheng Jiang
- Laboratory of
Medicinal Chemistry, Guangzhou Institute of Biomedicine and Health,
Chinese Academy of Sciences, Guangzhou 510530, China
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27
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Kim B, Hong J. An overview of naturally occurring histone deacetylase inhibitors. Curr Top Med Chem 2015; 14:2759-82. [PMID: 25487010 DOI: 10.2174/1568026615666141208105614] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2014] [Revised: 11/26/2014] [Accepted: 11/29/2014] [Indexed: 12/13/2022]
Abstract
Histone deacetylases (HDACs) have recently emerged as key elements in epigenetic control of gene expression. Due to the implication of HDACs in a variety of diseases ranging from cancer to neurodegenerative disorder, HDAC inhibitors have received increased attention in recent years. Over the last few decades, a myriad of HDAC inhibitors containing a wide variety of structural features have been identified from natural sources. Here, we review the discovery, synthesis, biological properties, and modes of action of these naturally occurring HDAC inhibitors and consider their implications for future research.
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Affiliation(s)
| | - Jiyong Hong
- Duke University, Department of Chemistry, 124 Science Drive, Box 90346, Durham, NC 27708, USA.
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28
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Gabriel CM, Keener M, Gallou F, Lipshutz BH. Amide and Peptide Bond Formation in Water at Room Temperature. Org Lett 2015; 17:3968-71. [PMID: 26251952 DOI: 10.1021/acs.orglett.5b01812] [Citation(s) in RCA: 74] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
A general and environmentally responsible method for the formation of amide/peptide bonds in an aqueous micellar medium is described. Use of uronium salt (1-cyano-2-ethoxy-2-oxoethylidenaminooxy)dimethylaminomorpholinocarbenium hexafluorophosphate (COMU) as a coupling reagent, 2,6-lutidine, and TPGS-750-M represents mild conditions associated with these valuable types of couplings. The aqueous reaction medium is recyclable leading to low E Factors.
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Affiliation(s)
- Christopher M Gabriel
- †Department of Chemistry and Biochemistry, University of California, Santa Barbara, California 93106, United States
| | - Megan Keener
- †Department of Chemistry and Biochemistry, University of California, Santa Barbara, California 93106, United States
| | | | - Bruce H Lipshutz
- †Department of Chemistry and Biochemistry, University of California, Santa Barbara, California 93106, United States
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Clausen DJ, Smith WB, Haines BE, Wiest O, Bradner JE, Williams RM. Modular synthesis and biological activity of pyridyl-based analogs of the potent Class I Histone Deacetylase Inhibitor Largazole. Bioorg Med Chem 2015; 23:5061-5074. [PMID: 26054247 PMCID: PMC4626217 DOI: 10.1016/j.bmc.2015.03.063] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2015] [Revised: 03/23/2015] [Accepted: 03/24/2015] [Indexed: 11/26/2022]
Abstract
The formation of a series of analogs containing a pyridine moiety in place of the natural thiazole heterocycle, based on the potent, naturally occurring HDAC inhibitor Largazole has been accomplished. The synthetic strategy was designed modularly to access multiple inhibitors with different aryl functionalities containing both the natural depsipeptide and peptide isostere variant of the macrocycle. The cytotoxicity and biochemical activity of the library of HDAC inhibitors is described herein.
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Affiliation(s)
- Dane J Clausen
- Department of Chemistry, Colorado State University, Fort Collins, CO 80523, USA
| | - William B Smith
- Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA 02115, USA
| | - Brandon E Haines
- Department of Chemistry & Biochemistry, University of Notre Dame, Notre Dame, IN 46556, USA
| | - Olaf Wiest
- Department of Chemistry & Biochemistry, University of Notre Dame, Notre Dame, IN 46556, USA
| | - James E Bradner
- Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA 02115, USA
| | - Robert M Williams
- Department of Chemistry, Colorado State University, Fort Collins, CO 80523, USA; University of Colorado Cancer Center, Aurora, CO 80045, USA.
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30
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Cai J, Wei H, Hong KH, Wu X, Zong X, Cao M, Wang P, Li L, Sun C, Chen B, Zhou G, Chen J, Ji M. Discovery, bioactivity and docking simulation of Vorinostat analogues containing 1,2,4-oxadiazole moiety as potent histone deacetylase inhibitors and antitumor agents. Bioorg Med Chem 2015; 23:3457-71. [DOI: 10.1016/j.bmc.2015.04.028] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2015] [Revised: 04/09/2015] [Accepted: 04/10/2015] [Indexed: 12/30/2022]
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31
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Cai J, Wei H, Hong KH, Wu X, Cao M, Zong X, Li L, Sun C, Chen J, Ji M. Discovery and preliminary evaluation of 2-aminobenzamide and hydroxamate derivatives containing 1,2,4-oxadiazole moiety as potent histone deacetylase inhibitors. Eur J Med Chem 2015; 96:1-13. [DOI: 10.1016/j.ejmech.2015.04.002] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2015] [Revised: 04/01/2015] [Accepted: 04/02/2015] [Indexed: 10/23/2022]
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32
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Tan S, Liu ZP. Natural Products as Zinc-Dependent Histone Deacetylase Inhibitors. ChemMedChem 2015; 10:441-50. [DOI: 10.1002/cmdc.201402460] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2014] [Indexed: 12/21/2022]
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33
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Maolanon AR, Villadsen JS, Christensen NJ, Hoeck C, Friis T, Harris P, Gotfredsen CH, Fristrup P, Olsen CA. Methyl Effect in Azumamides Provides Insight Into Histone Deacetylase Inhibition by Macrocycles. J Med Chem 2014; 57:9644-57. [DOI: 10.1021/jm501399d] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Affiliation(s)
- Alex R. Maolanon
- Department
of Chemistry, Technical University of Denmark, Kemitorvet 207, DK-2800 Kongens Lyngby, Denmark
| | - Jesper S. Villadsen
- Department
of Chemistry, Technical University of Denmark, Kemitorvet 207, DK-2800 Kongens Lyngby, Denmark
| | - Niels J. Christensen
- Department
of Chemistry, Technical University of Denmark, Kemitorvet 207, DK-2800 Kongens Lyngby, Denmark
| | - Casper Hoeck
- Department
of Chemistry, Technical University of Denmark, Kemitorvet 207, DK-2800 Kongens Lyngby, Denmark
| | - Tina Friis
- Department
of Clinical Biochemistry, Immunology and Genetics, Statens Serum Institut, Artillerivej 5, DK-2300 Copenhagen, Denmark
| | - Pernille Harris
- Department
of Chemistry, Technical University of Denmark, Kemitorvet 207, DK-2800 Kongens Lyngby, Denmark
| | - Charlotte H. Gotfredsen
- Department
of Chemistry, Technical University of Denmark, Kemitorvet 207, DK-2800 Kongens Lyngby, Denmark
| | - Peter Fristrup
- Department
of Chemistry, Technical University of Denmark, Kemitorvet 207, DK-2800 Kongens Lyngby, Denmark
| | - Christian A. Olsen
- Department
of Chemistry, Technical University of Denmark, Kemitorvet 207, DK-2800 Kongens Lyngby, Denmark
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34
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Bassett SA, Barnett MPG. The role of dietary histone deacetylases (HDACs) inhibitors in health and disease. Nutrients 2014; 6:4273-301. [PMID: 25322459 PMCID: PMC4210916 DOI: 10.3390/nu6104273] [Citation(s) in RCA: 113] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2014] [Revised: 10/06/2014] [Accepted: 10/06/2014] [Indexed: 12/30/2022] Open
Abstract
Modification of the histone proteins associated with DNA is an important process in the epigenetic regulation of DNA structure and function. There are several known modifications to histones, including methylation, acetylation, and phosphorylation, and a range of factors influence each of these. Histone deacetylases (HDACs) remove the acetyl group from lysine residues within a range of proteins, including transcription factors and histones. Whilst this means that their influence on cellular processes is more complex and far-reaching than histone modifications alone, their predominant function appears to relate to histones; through deacetylation of lysine residues they can influence expression of genes encoded by DNA linked to the histone molecule. HDAC inhibitors in turn regulate the activity of HDACs, and have been widely used as therapeutics in psychiatry and neurology, in which a number of adverse outcomes are associated with aberrant HDAC function. More recently, dietary HDAC inhibitors have been shown to have a regulatory effect similar to that of pharmacological HDAC inhibitors without the possible side-effects. Here, we discuss a number of dietary HDAC inhibitors, and how they may have therapeutic potential in the context of a whole food.
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Affiliation(s)
- Shalome A Bassett
- Food Nutrition & Health Team, Food & Bio-based Products Group, AgResearch Limited, Grasslands Research Centre, Tennent Drive, Palmerston North 4442, New Zealand.
| | - Matthew P G Barnett
- Food Nutrition & Health Team, Food & Bio-based Products Group, AgResearch Limited, Grasslands Research Centre, Tennent Drive, Palmerston North 4442, New Zealand.
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35
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Synthesis of the unusual α-amino acid component of some novel histone deacetylase inhibiting cyclic peptides. Tetrahedron 2014. [DOI: 10.1016/j.tet.2014.07.045] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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36
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Schnekenburger M, Dicato M, Diederich M. Epigenetic modulators from “The Big Blue”: A treasure to fight against cancer. Cancer Lett 2014; 351:182-97. [DOI: 10.1016/j.canlet.2014.06.005] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2014] [Revised: 06/01/2014] [Accepted: 06/04/2014] [Indexed: 01/14/2023]
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37
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Chen F, Chai H, Su MB, Zhang YM, Li J, Xie X, Nan FJ. Potent and orally efficacious bisthiazole-based histone deacetylase inhibitors. ACS Med Chem Lett 2014; 5:628-33. [PMID: 24944733 DOI: 10.1021/ml400470s] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2013] [Accepted: 04/04/2014] [Indexed: 01/18/2023] Open
Abstract
Inspired by the thiazole-thiazoline cap group in natural product largazole, a series of structurally simplified bisthiazole-based histone deacetylase inhibitors were prepared and evaluated. Compound 8f was evaluated in vivo in an experimental autoimmune encephalomyelitis (EAE) model and found to be orally efficacious in ameliorating clinical symptoms of EAE mice.
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Affiliation(s)
- Fei Chen
- Chinese National Center for
Drug Screening, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, 189 Guoshoujing Road, Shanghai, 201203, China
| | - Hui Chai
- Chinese National Center for
Drug Screening, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, 189 Guoshoujing Road, Shanghai, 201203, China
| | - Ming-Bo Su
- Chinese National Center for
Drug Screening, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, 189 Guoshoujing Road, Shanghai, 201203, China
| | - Yang-Ming Zhang
- Chinese National Center for
Drug Screening, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, 189 Guoshoujing Road, Shanghai, 201203, China
| | - Jia Li
- Chinese National Center for
Drug Screening, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, 189 Guoshoujing Road, Shanghai, 201203, China
| | - Xin Xie
- Chinese National Center for
Drug Screening, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, 189 Guoshoujing Road, Shanghai, 201203, China
| | - Fa-Jun Nan
- Chinese National Center for
Drug Screening, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, 189 Guoshoujing Road, Shanghai, 201203, China
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38
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Guerra-Bubb JM, Bowers AA, Smith WB, Paranal R, Estiu G, Wiest O, Bradner JE, Williams RM. Synthesis and HDAC inhibitory activity of isosteric thiazoline-oxazole largazole analogs. Bioorg Med Chem Lett 2013; 23:6025-8. [PMID: 24035339 PMCID: PMC3859309 DOI: 10.1016/j.bmcl.2013.06.012] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2013] [Accepted: 06/03/2013] [Indexed: 11/15/2022]
Abstract
The synthesis of an isosteric analog of the natural product and HDAC inhibitor largazole is described. The sulfur atom in the thizaole ring of the natural product has been replaced with an oxygen atom, constituting an oxazole ring. The biochemical activity and cytotoxicity of this species is described.
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Affiliation(s)
- Jennifer M Guerra-Bubb
- Department of Chemistry, Colorado State University, Fort Collins, CO 80523, United States
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39
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Traoré M, Mietton F, Maubon D, Peuchmaur M, Francisco Hilário F, Pereira de Freitas R, Bougdour A, Curt A, Maynadier M, Vial H, Pelloux H, Hakimi MA, Wong YS. Flexible Synthesis and Evaluation of Diverse Anti-Apicomplexa Cyclic Peptides. J Org Chem 2013; 78:3655-75. [DOI: 10.1021/jo4001492] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Mariam Traoré
- Département de Pharmacochimie Moléculaire, Université Joseph Fourier-Grenoble 1, CNRS UMR 5063, CNRS ICMG FR 2607, bâtiment André
Rassat, 470 rue de la Chimie, F-38041 Grenoble Cedex 9, France
| | - Flore Mietton
- Laboratoire Adaptation et Pathogénie des Micro-organismes, Université Joseph Fourier-Grenoble 1, CNRS UMR 5163, BP 170, F-38042 Grenoble Cedex 9, France
| | - Danièle Maubon
- Laboratoire Adaptation et Pathogénie des Micro-organismes, Université Joseph Fourier-Grenoble 1, CNRS UMR 5163, BP 170, F-38042 Grenoble Cedex 9, France
- Laboratoire de Parasitologie-Mycologie, Département des Agents Infectieux, Centre Hospitalier Universitaire, BP
217, 38043 Grenoble cedex 9, France
| | - Marine Peuchmaur
- Département de Pharmacochimie Moléculaire, Université Joseph Fourier-Grenoble 1, CNRS UMR 5063, CNRS ICMG FR 2607, bâtiment André
Rassat, 470 rue de la Chimie, F-38041 Grenoble Cedex 9, France
| | - Flaviane Francisco Hilário
- Département de Pharmacochimie Moléculaire, Université Joseph Fourier-Grenoble 1, CNRS UMR 5063, CNRS ICMG FR 2607, bâtiment André
Rassat, 470 rue de la Chimie, F-38041 Grenoble Cedex 9, France
- Departamento de Quı́mica, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais,
Brasil
- CAPES Foundation, Ministry of Education of Brazil, Brasilia DF 70040-020, Brazil
| | | | - Alexandre Bougdour
- Laboratoire Adaptation et Pathogénie des Micro-organismes, Université Joseph Fourier-Grenoble 1, CNRS UMR 5163, BP 170, F-38042 Grenoble Cedex 9, France
| | - Aurélie Curt
- Laboratoire Adaptation et Pathogénie des Micro-organismes, Université Joseph Fourier-Grenoble 1, CNRS UMR 5163, BP 170, F-38042 Grenoble Cedex 9, France
- Laboratoire de Parasitologie-Mycologie, Département des Agents Infectieux, Centre Hospitalier Universitaire, BP
217, 38043 Grenoble cedex 9, France
| | - Marjorie Maynadier
- Dynamique
des Interactions Membranaires Normales et Pathologiques, Université de Montpellier 2,
CNRS UMR 5235, CP 107, Place E. Bataillon, F-34095 Montpellier Cedex
5, France
| | - Henri Vial
- Dynamique
des Interactions Membranaires Normales et Pathologiques, Université de Montpellier 2,
CNRS UMR 5235, CP 107, Place E. Bataillon, F-34095 Montpellier Cedex
5, France
| | - Hervé Pelloux
- Laboratoire Adaptation et Pathogénie des Micro-organismes, Université Joseph Fourier-Grenoble 1, CNRS UMR 5163, BP 170, F-38042 Grenoble Cedex 9, France
- Laboratoire de Parasitologie-Mycologie, Département des Agents Infectieux, Centre Hospitalier Universitaire, BP
217, 38043 Grenoble cedex 9, France
| | - Mohamed-Ali Hakimi
- Laboratoire Adaptation et Pathogénie des Micro-organismes, Université Joseph Fourier-Grenoble 1, CNRS UMR 5163, BP 170, F-38042 Grenoble Cedex 9, France
| | - Yung-Sing Wong
- Département de Pharmacochimie Moléculaire, Université Joseph Fourier-Grenoble 1, CNRS UMR 5063, CNRS ICMG FR 2607, bâtiment André
Rassat, 470 rue de la Chimie, F-38041 Grenoble Cedex 9, France
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40
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Steliou K, Boosalis MS, Perrine SP, Sangerman J, Faller DV. Butyrate histone deacetylase inhibitors. Biores Open Access 2013; 1:192-8. [PMID: 23514803 PMCID: PMC3559235 DOI: 10.1089/biores.2012.0223] [Citation(s) in RCA: 113] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Abstract
In addition to being a part of the metabolic fatty acid fuel cycle, butyrate is also capable of inducing growth arrest in a variety of normal cell types and senescence-like phenotypes in gynecological cancer cells, inhibiting DNA synthesis and cell growth in colonic tumor cell lines, suppressing hTERT mRNA expression and telomerase activity in human prostate cancer cells, and inducing stem cell differentiation and apoptosis by DNA fragmentation. It regulates gene expression by inhibiting histone deacetylases (HDACs), enhances memory recovery and formation in mice, stimulates neurogenesis in the ischemic brain, promotes osteoblast formation, selectively blocks cell replication in transformed cells (compared to healthy cells), and can prevent and treat diet-induced obesity and insulin resistance in mouse models of obesity, as well as stimulate fetal hemoglobin expression in individuals with hematologic diseases such as the thalassemias and sickle-cell disease, in addition to a multitude of other biochemical effects in vivo. However, efforts to exploit the potential of butyrate in the clinical treatment of cancer and other medical disorders are thwarted by its poor pharmacological properties (short half-life and first-pass hepatic clearance) and the multigram doses needed to achieve therapeutic concentrations in vivo. Herein, we review some of the methods used to overcome these difficulties with an emphasis on HDAC inhibition.
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Affiliation(s)
- Kosta Steliou
- PhenoMatriX, Inc. , Boston, Massachusetts. ; Cancer Research Center, Boston University School of Medicine , Boston, Massachusetts
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41
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Salvador LA, Luesch H. Discovery and mechanism of natural products as modulators of histone acetylation. Curr Drug Targets 2012; 13:1029-47. [PMID: 22594471 DOI: 10.2174/138945012802008973] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2011] [Revised: 01/30/2012] [Accepted: 05/15/2012] [Indexed: 12/31/2022]
Abstract
Small molecules that modulate histone acetylation by targeting key enzymes mediating this posttranslational modification - histone acetyltransferases and histone deacetylases - are validated chemotherapeutic agents for the treatment of cancer. This area of research has seen a rapid increase in interest in the past decade, with the structurally diverse natural products-derived compounds at its forefront. These secondary metabolites from various biological sources target this epigenetic modification through distinct mechanisms of enzyme regulation by utilizing a diverse array of pharmacophores. We review the discovery of these compounds and discuss their modes of inhibition together with their downstream biological effects.
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Affiliation(s)
- Lilibeth A Salvador
- Department of Medicinal Chemistry, University of Florida, Gainesville, 32610, USA
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42
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Pereira R, Benedetti R, Pérez-Rodríguez S, Nebbioso A, García-Rodríguez J, Carafa V, Stuhldreier M, Conte M, Rodríguez-Barrios F, Stunnenberg HG, Gronemeyer H, Altucci L, de Lera ÁR. Indole-Derived Psammaplin A Analogues as Epigenetic Modulators with Multiple Inhibitory Activities. J Med Chem 2012; 55:9467-91. [DOI: 10.1021/jm300618u] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Raquel Pereira
- Departamento de Química
Orgánica, Universidade de Vigo,
36310 Vigo, Spain
| | - Rosaria Benedetti
- Dipartimento
di Patologia Generale, Seconda Università degli Studi di Napoli, Vico
L. de Crecchio 7, 80138 Napoli, Italy
| | | | - Angela Nebbioso
- Dipartimento
di Patologia Generale, Seconda Università degli Studi di Napoli, Vico
L. de Crecchio 7, 80138 Napoli, Italy
| | | | - Vincenzo Carafa
- Dipartimento
di Patologia Generale, Seconda Università degli Studi di Napoli, Vico
L. de Crecchio 7, 80138 Napoli, Italy
| | - Mayra Stuhldreier
- Departamento de Química
Orgánica, Universidade de Vigo,
36310 Vigo, Spain
| | - Mariarosaria Conte
- Dipartimento
di Patologia Generale, Seconda Università degli Studi di Napoli, Vico
L. de Crecchio 7, 80138 Napoli, Italy
| | | | - Hendrik G. Stunnenberg
- NCMLS, Department
of Molecular
Biology, Radboud University, 6525 GA Nijmegen,
The Netherlands
| | - Hinrich Gronemeyer
- Department
of Cancer Biology, Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC), CNRS, INSERM, ULP, BP 163, 67404
Illkirch Cedex, C. U. de Strasbourg, France
| | - Lucia Altucci
- Dipartimento
di Patologia Generale, Seconda Università degli Studi di Napoli, Vico
L. de Crecchio 7, 80138 Napoli, Italy
- Institute of Genetics and Biophysics (IGB), CNR, Via P. Castellino 111, 80131
Napoli, Italy
| | - Ángel R. de Lera
- Departamento de Química
Orgánica, Universidade de Vigo,
36310 Vigo, Spain
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43
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Liu Y, Liu J, Qi X, Du Y. One-Pot Synthesis of 2,4-Disubstituted Thiazoline from β-Azido Disulfide and Carboxylic Acid. J Org Chem 2012; 77:7108-13. [DOI: 10.1021/jo301030k] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Affiliation(s)
- Yi Liu
- School of Chemistry and Chemical
Engineering, Graduate University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jun Liu
- State Key Laboratory of Environmental Chemistry
and Eco-toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Xiangbing Qi
- Department of Biochemistry, Division of Chemistry, University of Texas Southwestern Medical Center at Dallas, 5323 Harry Hines Boulevard, Dallas, Texas 75390-9038, United States
| | - Yuguo Du
- State Key Laboratory of Environmental Chemistry
and Eco-toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
- School of Chemistry and Chemical
Engineering, Graduate University of Chinese Academy of Sciences, Beijing 100049, China
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44
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Abstract
The cyclic depsipeptide largazole from a cyanobacterium of the genus Symploca is a marine natural product with a novel chemical scaffold and potently inhibits class I histone deacetylases (HDACs). Largazole possesses highly differential growth-inhibitory activity, preferentially targeting transformed over non-transformed cells. The intriguing structure and biological activity of largazole have attracted strong interest from the synthetic chemistry community to establish synthetic routes to largazole and to investigate its potential as a cancer therapeutic. This Highlight surveys recent advances in this area with a focus on the discovery, synthesis, target identification, structure-activity relationships, HDAC8-largazole thiol crystal structure, and biological studies, including in vivo anticancer and osteogenic activities.
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Affiliation(s)
- Jiyong Hong
- Department of Chemistry, Duke University, Durham, NC 27708, USA.
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45
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Ungermannova D, Parker SJ, Nasveschuk CG, Wang W, Quade B, Zhang G, Kuchta RD, Phillips AJ, Liu X. Largazole and its derivatives selectively inhibit ubiquitin activating enzyme (e1). PLoS One 2012; 7:e29208. [PMID: 22279528 PMCID: PMC3261141 DOI: 10.1371/journal.pone.0029208] [Citation(s) in RCA: 55] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2011] [Accepted: 11/22/2011] [Indexed: 11/18/2022] Open
Abstract
Protein ubiquitination plays an important role in the regulation of almost every aspect of eukaryotic cellular function; therefore, its destabilization is often observed in most human diseases and cancers. Consequently, developing inhibitors of the ubiquitination system for the treatment of cancer has been a recent area of interest. Currently, only a few classes of compounds have been discovered to inhibit the ubiquitin-activating enzyme (E1) and only one class is relatively selective in E1 inhibition in cells. We now report that Largazole and its ester and ketone analogs selectively inhibit ubiquitin conjugation to p27Kip1 and TRF1 in vitro. The inhibitory activity of these small molecules on ubiquitin conjugation has been traced to their inhibition of the ubiquitin E1 enzyme. To further dissect the mechanism of E1 inhibition, we analyzed the effects of these inhibitors on each of the two steps of E1 activation. We show that Largazole and its derivatives specifically inhibit the adenylation step of the E1 reaction while having no effect on thioester bond formation between ubiquitin and E1. E1 inhibition appears to be specific to human E1 as Largazole ketone fails to inhibit the activation of Uba1p, a homolog of E1 in Schizosaccharomyces pombe. Moreover, Largazole analogs do not significantly inhibit SUMO E1. Thus, Largazole and select analogs are a novel class of ubiquitin E1 inhibitors and valuable tools for studying ubiquitination in vitro. This class of compounds could be further developed and potentially be a useful tool in cells.
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Affiliation(s)
- Dana Ungermannova
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, United States of America
| | - Seth J. Parker
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, United States of America
| | - Christopher G. Nasveschuk
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, United States of America
| | - Wei Wang
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, United States of America
| | - Bettina Quade
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, United States of America
| | - Gan Zhang
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, United States of America
| | - Robert D. Kuchta
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, United States of America
| | - Andrew J. Phillips
- Department of Chemistry, Yale University, New Haven, Connecticut, United States of America
| | - Xuedong Liu
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, United States of America
- * E-mail:
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46
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O' Connor CJ, Beckmann HSG, Spring DR. Diversity-oriented synthesis: producing chemical tools for dissecting biology. Chem Soc Rev 2012; 41:4444-56. [DOI: 10.1039/c2cs35023h] [Citation(s) in RCA: 348] [Impact Index Per Article: 29.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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47
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Total synthesis of largazole and analogues: HDAC inhibition, antiproliferative activity and metabolic stability. Bioorg Med Chem 2011; 19:3650-8. [DOI: 10.1016/j.bmc.2011.02.024] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2010] [Revised: 02/08/2011] [Accepted: 02/13/2011] [Indexed: 11/24/2022]
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48
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Krasteva S, Heiss E, Krenn L. Optimization and application of a fluorimetric assay for the identification of histone deacetylase inhibitors from plant origin. PHARMACEUTICAL BIOLOGY 2011; 49:658-668. [PMID: 21554009 DOI: 10.3109/13880209.2010.536556] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
CONTEXT Histonedeacetylase inhibitors (HDACi) are the focus of enormous interest as a new class of anticancer drugs and discussed as novel treatment in cardiovascular diseases or memory enhancement. In the search for new active substances the structural diversity of secondary plant metabolites provides an indispensable resource. Several molecules from the plant kingdom have gained importance as anticancer drugs. Thus, a search for new therapeutic agents inhibiting histonedeacetylases (HDACs) is an important topic. To accelerate the isolation of potential candidates from plants bioassays well suited for screenings of extracts are an indispensable prerequisite. OBJECTIVE In the presented study an enzymatic assay was modified, optimized and validated for the search for HDACi from plant origin. MATERIALS AND METHODS A fluorimetric assay was validated with respect to parameters such as temperature, incubation times, reproducibility, applicability of different enzyme sources and HDAC substrate. For the determination of the HDAC inhibitory potential of extracts the detailed study of the influence of different classes of primary and secondary metabolites probably interfering with the assay was most important. RESULTS In the experimental design autofluorescent coumarins and tannins were identified to disrupt the assay. Possibilities to avoid disturbances are demonstrated and the applicability of the method in the bioactivity-guided search for new HDACi was proven on the example Leonuri herba (Leonurus cardiaca L.; Lamiaceae). CONCLUSION The optimization of the assay led to a highly efficient fluorimetric method to study plant extracts and fractions of medium/high polarity for HDAC inhibition. In the bioactivity-guided fractionation of extracts from Leonuri herba the applicability for the aimed purpose was clearly demonstrated.
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Li B, Walsh CT. Streptomyces clavuligerus HlmI is an intramolecular disulfide-forming dithiol oxidase in holomycin biosynthesis. Biochemistry 2011; 50:4615-22. [PMID: 21504228 DOI: 10.1021/bi200321c] [Citation(s) in RCA: 56] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Holomycin and related dithiolopyrrolone antibiotics display broad-spectrum antimicrobial activities and contain a unique 5,5-bicyclic ring structure with an N-acylated aminopyrrolone fused to a cyclic ene-disulfide. Here we show that the intramolecular disulfide bridge is constructed from the acyclic ene-dithiol at a late stage in the pathway by a thioredoxin oxidoreductase-like enzyme HlmI from the holomycin producer Streptomyces clavuligerus. Recombinant HlmI was purified from E. coli with bound flavin adenine dinucleotide (FAD) and converts reduced holomycin to holomycin utilizing O(2) as cosubstrate. As a dithiol oxidase, HlmI is functionally homologous to GliT and DepH, which perform a similar dithiol to disulfide oxidation in the biosynthesis of fungal natural product gliotoxin and epigenetic regulator compound FK228, respectively. Deletion of the hlmI gene in the wild type S. clavuligerus and in a holomycin-overproducing mutant resulted in decreased level of holomycin production and increased sensitivity toward holomycin, suggesting a self-protection role of HlmI in the holomycin biosynthetic pathway. HlmI belongs to a new clade of uncharacterized thioredoxin oxidoreductase-like enzymes, distinctive from the GliT-like enzymes and the DepH-like enzymes, and represents a third example of oxidoreductases that catalyzes disulfide formation in the biosynthesis of small molecules.
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Affiliation(s)
- Bo Li
- Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA
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Fuse S, Okada K, Iijima Y, Munakata A, Machida K, Takahashi T, Takagi M, Shin-ya K, Doi T. Total synthesis of spiruchostatin B aided by an automated synthesizer. Org Biomol Chem 2011; 9:3825-33. [DOI: 10.1039/c0ob01169j] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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