Mikiko Sodeoka

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Organization: Synthetic Organic Chemistry Laboratory , Japan
Department: 1 Synthetic Organic Chemistry Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198 (Japan);2 Sodeoka Live Cell Chemistry Project, ERATO, Japan Science and Technology Agency, 2-1 Hirosawa, Wako, Saitama 351-0198 (Japan);3 School of Pharmaceutical Sciences
Title: (PhD)

TOPICS

Co-reporter:Samuel L. Bartlett, Yoshihiro Sohtome, Daisuke Hashizume, Peter S. White, Miki Sawamura, Jeffrey S. Johnson, and Mikiko Sodeoka
Journal of the American Chemical Society June 28, 2017 Volume 139(Issue 25) pp:8661-8661
Publication Date(Web):June 5, 2017
DOI:10.1021/jacs.7b03782
An enantioselective [3 + 2] cycloaddition reaction between nitrile oxides and transiently generated enolates of α-keto esters has been developed. The catalyst system was found to be compatible with in situ nitrile oxide-generation conditions. A versatile array of nitrile oxides and α-keto esters could participate in the cycloaddition, providing novel 5-hydroxy-2-isoxazolines in high chemical yield with high levels of diastereo- and enantioselectivity. Notably, the optimal reaction conditions circumvented concurrent reactions via O-imidoylation and hetero-[3 + 2] pathways.
Co-reporter:Shintaro Kawamura, Kento Dosei, Elena Valverde, Kiminori Ushida, and Mikiko Sodeoka
The Journal of Organic Chemistry December 1, 2017 Volume 82(Issue 23) pp:12539-12539
Publication Date(Web):October 20, 2017
DOI:10.1021/acs.joc.7b02307
This work describes a practical and efficient method for synthesizing a diverse array of perfluoroalkylated amines, including N-heterocycles, to afford perfluoroalkylated chemical libraries as potential sources of drug candidates, agrochemicals, and probe molecules for chemical-biology research. Perfluoro acid anhydrides, which are commonly used in organic synthesis, were employed as a perfluoroalkyl source for intramolecular amino- and carbo-perfluoroalkylations of aminoalkenes, affording perfluoroalkylated N-heterocycles, including: aziridines, pyrrolidines, benzothiazinane dioxides, indolines, and hydroisoquinolinones. Diacyl peroxides were generated in situ from the perfluoro acid anhydrides with urea·H2O2, and allowed to react with aminoalkenes in the presence of copper catalyst to control the product selectivity between amino- and carbo-perfluoroalkylations. To illustrate the synthetic utility of bench-stable trifluoromethylated aziridine, which was prepared on a gram scale, we used it to synthesize a wide variety of trifluoromethylated amines including complex molecules, such as trifluoromethylated tetrahydroharmine and spiroindolone. A mechanistic study of the role of the copper catalyst in the aminotrifluoromethylation of allylamine suggested that Cu(I) accelerates CF3 radical formation via decomposition of diacyl peroxide, which appears to be the turnover-limiting step, while Cu(II) controls the product selectivity.
Co-reporter:Qianqian Wang, Yuta Kuramoto, Yozo Okazaki, Eisuke Ota, Masaki Morita, Go Hirai, Kazuki Saito, Mikiko Sodeoka
Tetrahedron Letters 2017 Volume 58, Issue 30(Issue 30) pp:
Publication Date(Web):26 July 2017
DOI:10.1016/j.tetlet.2017.06.034
•Polyunsaturated fatty acid-containing glucuronosyl-diacylglycerol was synthesized.•Gold(I)-catalyzed glycosylation was used as a key step.•3,4-Dimethoxybenzyl ether/ester were used as protecting groups for glucuronic acid.We describe a total synthesis of a polyunsaturated fatty acid (PUFA)-containing glucuronosyldiacylglycerol (GlcADG), which is a surrogate glycolipid whose synthesis is remarkably upregulated in plant membranes under phosphorus-depleted conditions. Glycosylation between the glucuronide donor bearing 3,4-dimethoxybenzyl (DMPM) protecting groups and di-acylglycerol acceptor proceeded smoothly in the presence of gold(I) catalyst to provide the protected α-isomer of GlcADG as the major product.Download high-res image (77KB)Download full-size image
Co-reporter:Shintaro Kawamura, Daisuke Sekine, Mikiko Sodeoka
Journal of Fluorine Chemistry 2017 Volume 203(Volume 203) pp:
Publication Date(Web):1 November 2017
DOI:10.1016/j.jfluchem.2017.07.012
•Oxazoline-forming trifluoromethylation of allylamides with Togni reagent was achieved.•Alkali metal iodide enabled the efficient reaction, affording CF3-containing oxazolines.•High synthetic utility was proved by demonstration of the late-stage reaction of allylamides prepared from bioactive carboxylic acids.We report an efficient synthetic method for CF3-containing oxazolines via trifluoromethylation of allylamides by using Togni reagent in the presence of alkali metal iodides, which play a key role in selective production of the desired oxazoline. The reaction did not proceed efficiently with copper catalysts commonly used for oxytrifluoromethylations. Our method afforded a wide variety of CF3-containing oxazolines, which are potential candidates for pharmaceuticals, agrochemicals, and functional materials.Download high-res image (137KB)Download full-size image
Co-reporter:Jun Ando, Miwako Asanuma, Kosuke Dodo, Hiroyuki Yamakoshi, Satoshi Kawata, Katsumasa Fujita, and Mikiko Sodeoka
Journal of the American Chemical Society 2016 Volume 138(Issue 42) pp:13901-13910
Publication Date(Web):October 10, 2016
DOI:10.1021/jacs.6b06003
Identification of small-molecule-binding sites in protein is important for drug discovery and analysis of protein function. Modified amino-acid residue(s) can be identified by proteolytic cleavage followed by liquid chromatography–mass spectrometry (LC–MS), but this is often hindered by the complexity of the peptide mixtures. We have developed alkyne-tag Raman screening (ATRaS) for identifying binding sites. In ATRaS, small molecules are tagged with alkyne and form covalent bond with proteins. After proteolysis and HPLC, fractions containing the labeled peptides with alkyne tags are detected by means of surface-enhanced Raman scattering (SERS) using silver nanoparticles and sent to MS/MS to identify the binding site. The use of SERS realizes high sensitivity (detection limit: ∼100 femtomole) and reproducibility in the peptide screening. By using an automated ATRaS system, we successfully identified the inhibitor-binding site in cysteine protease cathepsin B, a potential drug target and prognostic marker for tumor metastasis. We further showed that the ATRaS system works for complex mixtures of trypsin-digested cell lysate. The ATRaS technology, which provides high molecular selectivity to LC–MS analysis, has potential to contribute in various research fields, such as drug discovery, proteomics, metabolomics and chemical biology.
Co-reporter:Dr. Shintaro Kawamura;Dr. Mikiko Sodeoka
Angewandte Chemie 2016 Volume 128( Issue 30) pp:8882-8885
Publication Date(Web):
DOI:10.1002/ange.201604127

Abstract

An efficient perfluoroalkylation of unactivated alkenes with perfluoro acid anhydrides was developed. Copper salts play a crucial role as a catalyst to achieve allylic perfluoroalkylation with the in situ generated bis(perfluoroacyl) peroxides. Furthermore, carboperfluoroalkylation of alkene bearing an aromatic ring at an appropriate position on the carbon side chain was found to proceed under metal-free conditions to afford carbocycles or heterocycles bearing a perfluoroalkyl group. This method, which makes use of readily available perfluoroalkyl sources, offers a convenient and powerful tool for introducing a perfluoroalkyl group onto an sp3 carbon to construct synthetically useful skeletons.

Co-reporter:Dr. Shintaro Kawamura;Dr. Mikiko Sodeoka
Angewandte Chemie International Edition 2016 Volume 55( Issue 30) pp:8740-8743
Publication Date(Web):
DOI:10.1002/anie.201604127

Abstract

An efficient perfluoroalkylation of unactivated alkenes with perfluoro acid anhydrides was developed. Copper salts play a crucial role as a catalyst to achieve allylic perfluoroalkylation with the in situ generated bis(perfluoroacyl) peroxides. Furthermore, carboperfluoroalkylation of alkene bearing an aromatic ring at an appropriate position on the carbon side chain was found to proceed under metal-free conditions to afford carbocycles or heterocycles bearing a perfluoroalkyl group. This method, which makes use of readily available perfluoroalkyl sources, offers a convenient and powerful tool for introducing a perfluoroalkyl group onto an sp3 carbon to construct synthetically useful skeletons.

Co-reporter:Go Hirai and Mikiko Sodeoka
Accounts of Chemical Research 2015 Volume 48(Issue 5) pp:1464
Publication Date(Web):April 20, 2015
DOI:10.1021/acs.accounts.5b00048
Synthesis of a focused library is an important strategy to create novel modulators of specific classes of proteins. Compounds in a focused library are composed of a common core structure and different diversity structures. In this Account, we describe our design and synthesis of libraries focused on selective inhibitors of protein phosphatases (PPases). We considered that core structures having structural and electronic features similar to those of PPase substrates, phosphate esters, would be a reasonable choice. Therefore, we extracted core structures from natural products already identified as PPase inhibitors. Since many PPases share similar active-site structures, such phosphate-mimicking core structures should interact with many enzymes in the same family, and therefore the choice of diversity structures is pivotal both to increase the binding affinity and to achieve specificity for individual enzymes.Here we present case studies of application of focused libraries to obtain PPase inhibitors, covering the overall process from selection of core structures to identification and evaluation of candidates in the focused libraries. To synthesize a library focused on protein serine-threonine phosphatases (PPs), we chose norcantharidin as a core structure, because norcantharidin dicarboxylate shows a broad inhibition profile toward several PPs. From the resulting focused library, we identified a highly selective PP2B inhibitor, NCA-01. On the other hand, to find inhibitors of dual-specificity protein phosphatases (DSPs), we chose 3-acyltetronic acid extracted from natural product RK-682 as a core structure, because its structure resembles the transition state in the dephosphorylation reaction of DSPs. However, a highly selective inhibitor was not found in the resulting focused library. Furthermore, an inherent drawback of compounds having the highly acidic 3-acyltetronic acid as a core structure is very weak potency in cellulo, probably due to poor cell membrane permeability. Therefore, we next modified the core structure from acidic to neutral by transformation to the enamine derivative and constructed a second-generation focused library (RE derivatives). The resulting compounds showed dramatically improved cell membrane permeability and inhibitory selectivity and included VHR (vaccinia VH1-related)-selective RE12 and CDC25A/B (cell division cycle 25A/B)-selective RE44. These inhibitors act on target enzymes in cellulo and do not generate reactive oxygen species, which is a potential problem with quinoid-type inhibitors of CDC25s. The cellular activity of RE12 was further improved by replacement of the side chain to afford RE176, which showed more potent antiproliferative activity than RE12 against HeLa cells.The dramatic change of inhibitory selectivity obtained by core structure modification from 3-acyltetronic acid to its enamine derivative was associated with a change in the mode of action. Namely, RE derivatives were found to be noncompetitive inhibitors with respect to a small-molecular substrate of CDC25A/B, whereas RK-682 was a competitive inhibitor of VHR. We identified the binding site of RE derivatives on the CDC25A as a pocket adjacent to the active site; this appears to be a promising target site for development of further novel inhibitors of CDC25s.
Co-reporter:Shintaro Kawamura; Hiromichi Egami
Journal of the American Chemical Society 2015 Volume 137(Issue 14) pp:4865-4873
Publication Date(Web):March 23, 2015
DOI:10.1021/jacs.5b02046
We examined the mechanism of our previously reported aminotrifluoromethylation reaction, which proceeds via intramolecular cyclization of alkenylamines in the presence of the combination of copper catalyst and Togni reagent (1). Kinetic studies revealed that the initial rate of the reaction was first order with respect to Togni reagent and CuI, as well as the substrate. Changes of the 19F NMR chemical shift of Togni reagent during the reaction suggested the existence of a dynamic equilibrium involving coordination of not only Togni reagent, but also the substrate amine and the product aziridine to copper. ESI-MS analysis provided evidence of involvement of reactive Cu(II) intermediates in the catalytic cycle. Overall, our results indicate that the reaction proceeds at the hypervalent iodine moiety of Togni reagent, which is activated by Cu(II) species acting as a Lewis acid catalyst. On the basis of these mechanistic considerations, we developed an efficient synthesis of trifluoromethylated pyrrolidine derivatives. This transformation exhibited a remarkable rate enhancement upon addition of Et3N.
Co-reporter:Eisuke Ota, Yu Mikame, Go Hirai, Hiroyuki Koshino, Shigeru Nishiyama, Mikiko Sodeoka
Tetrahedron Letters 2015 Volume 56(Issue 44) pp:5991-5994
Publication Date(Web):28 October 2015
DOI:10.1016/j.tetlet.2015.09.038
A novel type of photocyclization of α-ketoamides was developed, affording unique cyclopropanols bearing amide functionality. N-tert-Butyl, N-trityl, or N-non-substituted α-ketoamides with a bulky substituent at the β-position of the amide functionality were efficiently converted to corresponding cyclopropanols through the activation of the γ-CH bond followed by CC bond formation between the α- and γ-positions of the amide. Hydrogen abstraction from the γ-position of the amide was considered to be the rate-determining step of cyclopropanol formation, based on the kinetic isotope effect. Cyclopropanols could be converted to two different types of functionalized α-ketoamides depending on the method of ring-opening.
Co-reporter:Hiroyuki Yamakoshi, Almar Palonpon, Kosuke Dodo, Jun Ando, Satoshi Kawata, Katsumasa Fujita, Mikiko Sodeoka
Bioorganic & Medicinal Chemistry Letters 2015 Volume 25(Issue 3) pp:664-667
Publication Date(Web):1 February 2015
DOI:10.1016/j.bmcl.2014.11.080
We previously showed that bisarylbutadiyne (BADY), which has a conjugated diyne structure, exhibits an intense peak in the cellular Raman-silent region. Here, we synthesized a mitochondria-selective Raman probe by linking bisphenylbutadiyne with triphenylphosphonium, a well-known mitochondrial targeting moiety. This probe, named MitoBADY, has a Raman peak 27 times more intense than that of 5-ethynyl-2′-deoxyuridine. Raman microscopy using submicromolar extracellular probe concentrations successfully visualized mitochondria in living cells. A full Raman spectrum is acquired at each pixel of the scanned sample, and we showed that simultaneous Raman imaging of MitoBADY and endogenous cellular biomolecules can be achieved in a single scan. MitoBADY should be useful for the study of mitochondrial dynamics.
Co-reporter:Hiromichi Egami, Yoshihiko Usui, Shintaro Kawamura, Ryo Shimizu, Sayoko Nagashima, Mikiko Sodeoka
Journal of Fluorine Chemistry 2015 Volume 179() pp:121-128
Publication Date(Web):November 2015
DOI:10.1016/j.jfluchem.2015.07.024
•Structure–reactivity-relationship study of this reaction was investigated.•Chelation of alkoxide and fluorine to the lithium ion plays a crucial role.•Theoretical investigation was examined for supporting the proposed mechanism.We previously found that treatment of (Z)-trifluoromethylated-2-aryl allylic alcohols with organolithium provided the SN2′-type product through CO bond cleavage. Interestingly, no additive was required to enhance the nucleophilicity of the organolithium, and the free hydroxyl group served as a leaving group. The mechanistic studies of the unique transformation indicated that chelation of alkoxide and fluorine of the trifluoromethyl group to the lithium ion play a crucial role in controlling the reactivity and selectivity. Furthermore, theoretical investigation supported this interpretation.Mechanistic study on SN2′-type reaction of (Z)-trifluoromethylated allylic alcohol with organolithium reagent was examined.
Co-reporter:Jun Ando;Masanao Kinoshita;Hiroyuki Yamakoshi;Jin Cui;Katsumasa Fujita;Michio Murata;Kosuke Dodo
PNAS 2015 Volume 112 (Issue 15 ) pp:4558-4563
Publication Date(Web):2015-04-14
DOI:10.1073/pnas.1418088112
Sphingomyelin (SM) and cholesterol (chol)-rich domains in cell membranes, called lipid rafts, are thought to have important biological functions related to membrane signaling and protein trafficking. To visualize the distribution of SM in lipid rafts by means of Raman microscopy, we designed and synthesized an SM analog tagged with a Raman-active diyne moiety (diyne-SM). Diyne-SM showed a strong peak in a Raman silent region that is free of interference from intrinsic vibrational modes of lipids and did not appear to alter the properties of SM-containing monolayers. Therefore, we used Raman microscopy to directly visualize the distribution of diyne-SM in raft-mimicking domains formed in SM/dioleoylphosphatidylcholine/chol ternary monolayers. Raman images visualized a heterogeneous distribution of diyne-SM, which showed marked variation, even within a single ordered domain. Specifically, diyne-SM was enriched in the central area of raft domains compared with the peripheral area. These results seem incompatible with the generally accepted raft model, in which the raft and nonraft phases show a clear biphasic separation. One of the possible reasons is that gradual changes of SM concentration occur between SM-rich and -poor regions to minimize hydrophobic mismatch. We believe that our technique of hyperspectral Raman imaging of a single lipid monolayer opens the door to quantitative analysis of lipid membranes by providing both chemical information and spatial distribution with high (diffraction-limited) spatial resolution.
Co-reporter:Dr. Hiromichi Egami;Yoshihiko Usui;Dr. Shintaro Kawamura;Dr. Sayoko Nagashima;Dr. Mikiko Sodeoka
Chemistry – An Asian Journal 2015 Volume 10( Issue 10) pp:2190-2199
Publication Date(Web):
DOI:10.1002/asia.201500359

Abstract

Hydrotrifluoromethylation, vinylic trifluoromethylation, and iodotrifluoromethylation of simple alkenes have been achieved by using Togni reagent in the absence of any transition metal catalyst. These reactions were readily controllable by selection of appropriate salts and solvents. The addition of K2CO3 afforded the hydrotrifluoromethylation product, with DMF acting not only as a solvent, but also as the hydrogen source. In contrast, the use of tetra-n-butylammonium iodide (TBAI) in 1,4-dioxane resulted in vinylic trifluoromethylation, while the use of KI afforded the iodotrifluoromethylation product. The vinylic trifluoromethylation product was obtained by treatment of the iodotrifluoromethylation product with ammonium 2-iodobenzoate, indicating that it was formed through an elimination reaction of the in-situ-generated iodotrifluoromethylation product, and the solubility of the resulting 2-iodobenzoate salt plays a key role in the product switching. A radical-clock experiment showed that these reactions proceed via radical intermediates.

Co-reporter:Kenji Hayamizu, Naoki Terayama, Daisuke Hashizume, Kosuke Dodo, Mikiko Sodeoka
Tetrahedron 2015 Volume 71(Issue 37) pp:6594-6601
Publication Date(Web):16 September 2015
DOI:10.1016/j.tet.2015.07.002
We have previously reported enantioselective reactions of 1,3-diketones and β-ketoesters with various electrophiles catalyzed by chiral Pd complex, in which chiral Pd enolates play a key role. Here, we present a detailed examination of Pd-catalyzed enantioselective Michael addition and fluorination reactions of β-ketoamides. β-Ketoamide showed higher reactivity than 1,3-diketone and β-ketoester, though its α-proton is likely to be least acidic. Pd enolate formation of β-ketoamide was much faster than that of β-ketoester. The crystal structures of (R)-BINAP-Pd-diketone and ketoamide complexes were found to be quite distinct. Pd-diketone complex has bidentate square-planar geometry as have been predicted before, whereas Pd-ketoamide complex was greatly distorted, probably due to steric constraints of the amide bond.
Co-reporter:Takao Yamaguchi, Miwako Asanuma, Shuichi Nakanishi, Yohei Saito, Masateru Okazaki, Kosuke Dodo and Mikiko Sodeoka  
Chemical Science 2014 vol. 5(Issue 3) pp:1021-1029
Publication Date(Web):19 Dec 2013
DOI:10.1039/C3SC52704B
Affinity labeling has become a powerful tool to identify target proteins, as well as to visualize/characterize target functions in living cells. However, although various functional groups have been utilized for affinity labeling, many of them have disadvantages such as complex structure and large size. To address this problem, we designed a simple chemical probe bearing a small bifunctional O-NBD unit (NBD: nitrobenzoxadiazole). Model ligand–protein experiments showed that the O-NBD unit has excellent characteristics for target-specific labeling even in the presence of a large excess of non-target proteins. Moreover, attachment of the O-NBD unit to N,N-dialkyl-2-phenylindol-3-ylglyoxylamides (PIGAs), which are recently developed translocator protein (TSPO) ligands, enabled us to visualize mitochondria expressing TSPO in living cells by means of “turn-ON” fluorescence. Two-dimensional PAGE analysis of the labeled mouse kidney mitochondria strongly suggested that our synthetic probe selectively modified a partner protein of TSPO, voltage-dependent anion channel (VDAC).
Co-reporter:Hiroyuki Yamakoshi, Almar F. Palonpon, Kosuke Dodo, Jun Ando, Satoshi Kawata, Katsumasa Fujita and Mikiko Sodeoka  
Chemical Communications 2014 vol. 50(Issue 11) pp:1341-1343
Publication Date(Web):28 Nov 2013
DOI:10.1039/C3CC48587K
We report the simultaneous imaging of protonated and deprotonated forms of carbonylcyanide p-trifluoromethoxy-phenylhydrazone (FCCP) molecules in live cells by Raman microscopy. Nitriles, structure-sensitive Raman tags, are used to detect the two distinct molecular structures, demonstrating the potential of Raman microscopy for structure-based imaging of bioactive small molecules.
Co-reporter:Frédéric Thuaud, Shuntaro Kojima, Go Hirai, Kana Oonuma, Ayako Tsuchiya, Takako Uchida, Teruhisa Tsuchimoto, Mikiko Sodeoka
Bioorganic & Medicinal Chemistry 2014 Volume 22(Issue 9) pp:2771-2782
Publication Date(Web):1 May 2014
DOI:10.1016/j.bmc.2014.03.012
Co-reporter:Hiromichi Egami, Ryo Shimizu, Yoshihiko Usui, Mikiko Sodeoka
Journal of Fluorine Chemistry 2014 Volume 167() pp:172-178
Publication Date(Web):November 2014
DOI:10.1016/j.jfluchem.2014.05.009
•Trifluoromethylation of α- and β-methylstyrene derivatives was achieved by using Togni's reagent with Cu catalyst.•1,4-Oxy-trifluoromethylation of dienes was accomplished.•β-Trifluoromethylstyrene derivatives were synthesized from styrenes.Oxy-trifluoromethylation of di-substituted styrenes and dienes was achieved by using Cu/Togni's reagent system. Not only gem-di-substituted styrenes, but also a β-methylstyrene derivative were transformed to the corresponding oxy-trifluoromethylation products. 1,4-Addition products were obtained selectively in the reaction of mono-substituted dienes. These reactions provide a new approach for the synthesis of β-trifluoromethyl styrene derivatives.Trifluoromethylation of α- and β-methylstyrenes and dienes was achieved by using Togni's reagent with Cu catalyst. These reactions were successfully applied for β-trifluoromethylstyrene synthesis.Figure optionsDownload full-size imageDownload as PowerPoint slide
Co-reporter:Dr. Hiromichi Egami;Dr. Mikiko Sodeoka
Angewandte Chemie 2014 Volume 126( Issue 32) pp:8434-8449
Publication Date(Web):
DOI:10.1002/ange.201309260

Abstract

Die Trifluormethylgruppe ist Bestandteil vieler synthetischer bioaktiver Verbindungen, und die Difunktionalisierung von CC-Bindung wurde als wirksame Strategie zum Aufbau von Verbindungen mit verschiedenen Funktionalitäten intensiv erforscht. Folgerichtig ist die difunktionalisierende Trifluormethylierung von Alkenen auf wachsendes Interesse gestoßen, da die Produkte potenzielle Bausteine für bioaktive Moleküle darstellen. Dieser Aufsatz stellt neueste Fortschritte bei der Trifluormethylierung von Alkenen unter gleichzeitiger Einführung weiterer funktioneller Gruppen vor.

Co-reporter:Dr. Hiromichi Egami;Takafumi Ide;Masashi Fujita;Toshifumi Tojo;Dr. Yoshitaka Hamashima;Dr. Mikiko Sodeoka
Chemistry - A European Journal 2014 Volume 20( Issue 38) pp:12061-12065
Publication Date(Web):
DOI:10.1002/chem.201403447

Abstract

Trifluoromethylation of propargylic alcohols to provide (Z)-α-trifluoromethylated enones and β-unsubstituted α-trifluoromethylated enones proceeded with high yield and selectivity in the presence of CuI/Re2O7. The Z isomer was formed under kinetic control, though it is less stable than the E isomer in terms of steric repulsion.

Co-reporter:Dr. Ayako Miyazaki;Dr. Miwako Asanuma;Dr. Kosuke Dodo;Dr. Hiromichi Egami;Dr. Mikiko Sodeoka
Chemistry - A European Journal 2014 Volume 20( Issue 26) pp:8116-8128
Publication Date(Web):
DOI:10.1002/chem.201400056

Abstract

The development of new and mild protocols for the specific enrichment of biomolecules is of significant interest from the perspective of chemical biology. A cobalt–phosphine complex immobilised on a solid-phase resin has been found to selectively bind to a propargyl carbamate tag, that is, “catch”, under dilute aqueous conditions (pH 7) at 4 °C. Upon acidic treatment of the resulting resin-bound alkyne–cobalt complex, the Nicholas reaction was induced to “release” the alkyne-tagged molecule from the resin as a free amine. Model studies revealed that selective enrichment of the alkyne-tagged molecule could be achieved with high efficiency at 4 °C. The proof-of-concept was applied to an alkyne-tagged amino acid and dipeptide. Studies using an alkyne-tagged dipeptide proved that this protocol is compatible with various amino acids bearing a range of functionalities in the side-chain. In addition, selective enrichment and detection of an amine derived from the “catch and release” of an alkyne-tagged dipeptide in the presence of various peptides has been accomplished under highly dilute conditions, as determined by mass spectrometry.

Co-reporter:Dr. Hiromichi Egami;Dr. Mikiko Sodeoka
Angewandte Chemie International Edition 2014 Volume 53( Issue 32) pp:8294-8308
Publication Date(Web):
DOI:10.1002/anie.201309260

Abstract

The trifluoromethyl group is found in many synthetic bioactive compounds, and the difunctionalization of a CC bond, as a powerful strategy for the construction of compounds with various functional groups, has been intensively investigated. Therefore, the difunctionalizing trifluoromethylation of alkenes has attracted growing interest because of the potential of the products as building blocks for bioactive molecules. In this review, we focus on recent advances in the trifluoromethylation of alkenes with concomitant introduction of additional functional groups.

Co-reporter:Hiromichi Egami, Ryo Shimizu, Yoshihiko Usui and Mikiko Sodeoka  
Chemical Communications 2013 vol. 49(Issue 66) pp:7346-7348
Publication Date(Web):17 Jun 2013
DOI:10.1039/C3CC43936D
Iron-catalyzed trifluoromethylation with concomitant 1,2-migration of an aryl group starting from diaryl allyl alcohol was achieved under mild conditions. This reaction system affords α-substituted-β-trifluoromethyl carbonyl compounds in high efficiency. In the case of substrates bearing different aryl groups, selective migration was observed.
Co-reporter:Masaaki Ozawa, Masaki Morita, Go Hirai, Satoru Tamura, Masao Kawai, Ayako Tsuchiya, Kana Oonuma, Keiji Maruoka, and Mikiko Sodeoka
ACS Medicinal Chemistry Letters 2013 Volume 4(Issue 8) pp:730-735
Publication Date(Web):June 6, 2013
DOI:10.1021/ml400144e
A library of oxygenated natural steroids, including physalins, withanolides, and perulactones, coupled with the synthetic cage-shaped right-side structure of type B physalins, was constructed. SAR studies for inhibition of NF-κB activation showed the importance of both the B-ring and the oxygenated right-side partial structure. The 5β,6β-epoxy derivatives of both physalins and withanolides showed similar profiles of inhibition of NF-κB activation and appeared to act on NF-κB signaling via inhibition of phosphorylation and degradation of IκBα. In contrast, type B physalins with C5–C6 olefin functionality inhibited nuclear translocation and DNA binding of RelA/p50 protein dimer, which lie downstream of IκBα degradation, although withanolides having the same AB-ring functionality did not. These results indicated that the right-side partial structure of these steroids influences their mode of action.Keywords: highly oxygenated steroid; NF-κB; physalin; Physalis plants; SAR; synthetic analogues; withanolide;
Co-reporter:Ayako Tsuchiya, Miwako Asanuma, Go Hirai, Kana Oonuma, Muhammad Muddassar, Eri Nishizawa, Yusuke Koyama, Yuko Otani, Kam Y. J. Zhang and Mikiko Sodeoka  
Molecular BioSystems 2013 vol. 9(Issue 5) pp:1026-1034
Publication Date(Web):11 Feb 2013
DOI:10.1039/C3MB00003F
RE derivatives, which are cell-permeable and non-electrophilic dual-specificity protein phosphatase inhibitors developed in our laboratory, inhibit CDC25A/B non-competitively, as determined by means of kinetic experiments. To identify the binding site of RE derivatives, we designed and synthesized the new probe molecule RE142, having a Michael acceptor functionality for covalent bond formation with the enzyme, a biotin tag to enable enrichment of probe-bound peptide(s), and a chemically cleavable linker to facilitate release of probe-bound peptides from avidin beads. LC-MS analysis indicated that RE142 binds to one of the residues Cys384-Tyr386 of CDC25A, within a pocket adjacent to the catalytic site.
Co-reporter:Shinya Fujishiro, Kosuke Dodo, Eriko Iwasa, Yuou Teng, Yoshihiro Sohtome, Yoshitaka Hamashima, Akihiro Ito, Minoru Yoshida, Mikiko Sodeoka
Bioorganic & Medicinal Chemistry Letters 2013 Volume 23(Issue 3) pp:733-736
Publication Date(Web):1 February 2013
DOI:10.1016/j.bmcl.2012.11.087
Chaetocin (1), a structurally complex epidithiodiketopiperazine (ETP) alkaloid produced by Chaetomium minutum, is a potent inhibitor of protein lysine methyltransferase G9a, which plays important roles in many biological processes. Here we present our synthetic investigations to identify a simple prototype G9a inhibitor structure based on structure–activity relationship (SAR) studies on chaetocin derivatives. The simple derivative PS-ETP-1 (14) was found to be a potent G9a inhibitor with greatly reduced cytotoxicity.
Co-reporter:Hiromichi Egami, Ryo Shimizu, Mikiko Sodeoka
Journal of Fluorine Chemistry 2013 Volume 152() pp:51-55
Publication Date(Web):August 2013
DOI:10.1016/j.jfluchem.2013.03.009
•Trifluoromethylation of acryloanilides was achieved by using Togni's reagent with CuI.•This reaction afforded oxindole derivatives bearing trifluoromethyl group in high yields.•Various functional groups were tolerant of the reaction conditions.Carbotrifluoromethylation of acryloanilide derivatives with the combination of CuI and Togni's reagent affords oxindole derivatives bearing a 3-trifluoroethyl group in high yields under mild conditions that are compatible with various functional groups.Trifluoromethylation of acryloanilides was achieved by using Togni's reagent with CuI. This reaction affords oxindole derivatives bearing a trifluoromethyl group in high yields.Figure optionsDownload full-size imageDownload as PowerPoint slide
Co-reporter:Ayato Sato, Kosuke Dodo, Makoto Makishima, Yuichi Hashimoto, Mikiko Sodeoka
Bioorganic & Medicinal Chemistry Letters 2013 Volume 23(Issue 10) pp:3013-3017
Publication Date(Web):15 May 2013
DOI:10.1016/j.bmcl.2013.03.024
2,3-Dinorprostaglandins (dinor-PGs) have been regarded as β-oxidation products of arachidonic-acid-derived prostaglandins, but their biological activities in mammalian cells remain unclear. On the other hand, C18 polyunsaturated fatty acids (PUFAs), such as γ-linolenic acid (GLA), have various biological activities, and dinor-PGs are speculated to be biosynthesized from GLA. Here, we synthesized dinor-PGs that may possibly be derived from GLA and examined their activities towards peroxisome proliferator-activated receptors (PPARs). Dinor-PGD1 (1) and its epimer 13-epi-dinor-PGD1 (epi-1) were found to be dual agonists for PPARα/γ, whereas PGD2 derived from arachidonic acid is selective for PPARγ. Thus, GLA-derived dinor-PGs may have unique biological roles.We synthesized 2,3-dinorprostaglandins, dinor-PGD1, 13-epi-dinor-PGD1, and 13-deoxy-Δ10,12-dinor-PGJ1, and examined their effects on the activity of peroxisome proliferator-activated receptors (PPARs). Dinor-PGD1 and 13-epi-dinor-PGD1 were dual agonists for PPARα/γ, in contrast to the highly PPARγ-selective prostaglandins derived from arachidonic acid.
Co-reporter:Dr. Hiromichi Egami;Dr. Shintaro Kawamura;Dr. Ayako Miyazaki;Dr. Mikiko Sodeoka
Angewandte Chemie 2013 Volume 125( Issue 30) pp:7995-7998
Publication Date(Web):
DOI:10.1002/ange.201303350
Co-reporter:Dr. Hiromichi Egami;Ryo Shimizu;Shintaro Kawamura;Dr. Mikiko Sodeoka
Angewandte Chemie 2013 Volume 125( Issue 14) pp:4092-4095
Publication Date(Web):
DOI:10.1002/ange.201210250
Co-reporter:Dr. Hiromichi Egami;Dr. Shintaro Kawamura;Dr. Ayako Miyazaki;Dr. Mikiko Sodeoka
Angewandte Chemie International Edition 2013 Volume 52( Issue 30) pp:7841-7844
Publication Date(Web):
DOI:10.1002/anie.201303350
Co-reporter:Dr. Hiromichi Egami;Ryo Shimizu;Shintaro Kawamura;Dr. Mikiko Sodeoka
Angewandte Chemie International Edition 2013 Volume 52( Issue 14) pp:4000-4003
Publication Date(Web):
DOI:10.1002/anie.201210250
Co-reporter:Hiroyuki Yamakoshi ; Kosuke Dodo ; Almar Palonpon ; Jun Ando ; Katsumasa Fujita ; Satoshi Kawata
Journal of the American Chemical Society 2012 Volume 134(Issue 51) pp:20681-20689
Publication Date(Web):December 1, 2012
DOI:10.1021/ja308529n
Alkyne has a unique Raman band that does not overlap with Raman scattering from any endogenous molecule in live cells. Here, we show that alkyne-tag Raman imaging (ATRI) is a promising approach for visualizing nonimmobilized small molecules in live cells. An examination of structure–Raman shift/intensity relationships revealed that alkynes conjugated to an aromatic ring and/or to a second alkyne (conjugated diynes) have strong Raman signals in the cellular silent region and can be excellent tags. Using these design guidelines, we synthesized and imaged a series of alkyne-tagged coenzyme Q (CoQ) analogues in live cells. Cellular concentrations of diyne-tagged CoQ analogues could be semiquantitatively estimated. Finally, simultaneous imaging of two small molecules, 5-ethynyl-2′-deoxyuridine (EdU) and a CoQ analogue, with distinct Raman tags was demonstrated.
Co-reporter:Masaki Morita, Go Hirai, Megumi Ohkubo, Hiroyuki Koshino, Daisuke Hashizume, Keiji Maruoka, and Mikiko Sodeoka
Organic Letters 2012 Volume 14(Issue 13) pp:3434-3437
Publication Date(Web):June 15, 2012
DOI:10.1021/ol301394b
The characteristic DEFGH-ring system of type B physalins has been synthesized by means of a one-pot procedure incorporating domino-type ring transformations. Unexpectedly, we found that introduction of an α-hydroxyester functionality at C17 in ring E allowed the key 7-endo oxy-Michael reaction to proceed. Originally this was thought to be an unfavored process. This afforded the desired caged ring system to be formed in a kinetically controlled manner. Consecutive treatment with AcOH at 100 °C furnished the DEFGH-ring system in one pot.
Co-reporter:Ayako Tsuchiya, Go Hirai, Yusuke Koyama, Kana Oonuma, Yuko Otani, Hiroyuki Osada, and Mikiko Sodeoka
ACS Medicinal Chemistry Letters 2012 Volume 3(Issue 4) pp:294
Publication Date(Web):February 15, 2012
DOI:10.1021/ml2002778
Focused libraries of enamine derivatives with a nonacidic, nonelectrophilic core structure were screened for inhibitors of dual-specificity protein phosphatases, and an o-hydroxybenzyl derivative RE44 (10d) was identified as a selective inhibitor of CDC25A/B. This inhibitor induced cell-cycle arrest of tsFT210 cells at the G2/M phase and inhibited dephosphorylation of the CDC25B substrate CDK1. Unlike most quinone-based inhibitors, 10d does not generate reactive oxygen species.Keywords: CDC25; cell cycle; dual-specificity protein phosphatases; focused library; inhibitor; reactive oxygen species
Co-reporter:Hiromichi Egami, Ryo Shimizu, Mikiko Sodeoka
Tetrahedron Letters 2012 Volume 53(Issue 41) pp:5503-5506
Publication Date(Web):10 October 2012
DOI:10.1016/j.tetlet.2012.07.134
Oxytrifluoromethylation reaction of styrene derivatives and alkynes with external and internal oxygen nucleophiles, catalyzed by copper (I) salts under mild conditions, was developed. Direct formation of a β-trifluoromethylstyrene derivative from a styrene derivative was also achieved by the reaction in the presence of a Brønsted acid. Further transformation of the oxytrifluoromethylated products was conducted to demonstrate their utility.
Co-reporter:Dr. Tadashi Shimizu ;Masato Iizuka;Hiroko Matsukura;Dr. Daisuke Hashizume;Dr. Mikiko Sodeoka
Chemistry – An Asian Journal 2012 Volume 7( Issue 6) pp:1221-1230
Publication Date(Web):
DOI:10.1002/asia.201200077

Abstract

An efficient synthetic route to optically pure norcantharidin analogue NCA-01, a highly selective inhibitor of protein phosphatase 2B (PP2B; calcineurin), has been developed. The absolute stereochemistry of the enantiomers was determined by X-ray crystallographic analysis. Optically pure NCA derivatives that had various substituents at the C1 position were synthesized in a similar manner. The PP2B-inhibitory activities of NCA-01 and its derivatives were independent of the enantiomeric form. NCA-01 dimethyl ester potently inhibited IL-2 production in Jurkat cells.

Co-reporter:Ryo Shimizu;Dr. Hiromichi Egami;Dr. Yoshitaka Hamashima;Dr. Mikiko Sodeoka
Angewandte Chemie 2012 Volume 124( Issue 19) pp:4655-4658
Publication Date(Web):
DOI:10.1002/ange.201201095
Co-reporter:Dr. Shoko Suzuki;Dr. Yuki Kitamura;Dr. Sylvain Lectard;Dr. Yoshitaka Hamashima;Dr. Mikiko Sodeoka
Angewandte Chemie 2012 Volume 124( Issue 19) pp:4659-4663
Publication Date(Web):
DOI:10.1002/ange.201201303
Co-reporter:Dr. Shoko Suzuki;Dr. Yuki Kitamura;Dr. Sylvain Lectard;Dr. Yoshitaka Hamashima;Dr. Mikiko Sodeoka
Angewandte Chemie International Edition 2012 Volume 51( Issue 19) pp:4581-4585
Publication Date(Web):
DOI:10.1002/anie.201201303
Co-reporter:Ryo Shimizu;Dr. Hiromichi Egami;Dr. Yoshitaka Hamashima;Dr. Mikiko Sodeoka
Angewandte Chemie International Edition 2012 Volume 51( Issue 19) pp:4577-4580
Publication Date(Web):
DOI:10.1002/anie.201201095
Co-reporter:Hiroyuki Yamakoshi ; Kosuke Dodo ; Masaya Okada ; Jun Ando ; Almar Palonpon ; Katsumasa Fujita ; Satoshi Kawata
Journal of the American Chemical Society 2011 Volume 133(Issue 16) pp:6102-6105
Publication Date(Web):March 28, 2011
DOI:10.1021/ja108404p
Click-free imaging of the nuclear localization of an alkyne-tagged cell proliferation probe, EdU, in living cells was achieved for the first time by means of Raman microscopy. The alkyne tag shows an intense Raman band in a cellular Raman-silent region that is free of interference from endogenous molecules. This approach may eliminate the need for click reactions in the detection of alkyne-labeled molecules.
Co-reporter:Hiromichi Egami, Shinji Kamisuki, Kosuke Dodo, Miwako Asanuma, Yoshitaka Hamashima and Mikiko Sodeoka  
Organic & Biomolecular Chemistry 2011 vol. 9(Issue 22) pp:7667-7670
Publication Date(Web):19 Aug 2011
DOI:10.1039/C1OB06123B
A cobalt–phosphine complex supported on PS-PEG beads was found to react with a propargyl carbamate tag, and the tagged molecules immobilized on the beads could be released by acidic treatment through the Nicholas reaction pathway. These reactions work in aqueous media at 4 °C, so that this catch and release procedure is compatible with conditions generally used in biochemical experiments.
Co-reporter:Yoshitaka Hamashima;Tatsuya Nagi;Ryo Shimizu;Teruhisa Tsuchimoto
European Journal of Organic Chemistry 2011 Volume 2011( Issue 20-21) pp:3675-3678
Publication Date(Web):
DOI:10.1002/ejoc.201100453

Abstract

Direct asymmetric α-chlorination of aryl acetic acid derivatives was achieved with a novel trinary activation system consisting of a catalytic amount of NiCl2/(R)-BINAP, Et3SiOTf, and a tertiary amine base. The reaction smoothly afforded the chlorinated compound in good yield with up to 89 % ee. Application of this reaction to a less acidic crotonic acid derivative gave the β,γ-unsaturated α-chlorinated compound through deprotonation at the γ-position.

Co-reporter:Eriko Iwasa ;Yoshitaka Hamashima  
Israel Journal of Chemistry 2011 Volume 51( Issue 3-4) pp:420-433
Publication Date(Web):
DOI:10.1002/ijch.201100012

Abstract

Epipolythiodiketopiperazine (ETP) alkaloids are structurally characterized by the presence of diketopiperazine rings having sensitive (poly)sulfide bridges, and most of them are classified as fungal secondary metabolites. Various biological activities have been reported for members of this family, including cytotoxic, antibacterial, antimicrobial, antiviral, antitumor, antiallergic, and antimalarial activities. Notably, some of the molecules were reported to show specific inhibitory activities against certain critical enzymes. Since the supply of these compounds from natural sources is quite limited, efficient chemical syntheses of ETP alkaloids would be useful for biological studies. However, total syntheses of ETP alkaloids remain a formidable challenge in current synthetic organic chemistry because of their structural complexity. In this review article, we present an overview of synthetic approaches to the ETP alkaloids during the past 50 years, and discuss significant milestones. We also summarize the biological activities of these compounds, focusing on the molecular mechanisms.

Co-reporter:Go Hirai, Megumi Ohkubo, Yuki Tamura, Mikiko Sodeoka
Bioorganic & Medicinal Chemistry Letters 2011 Volume 21(Issue 12) pp:3587-3590
Publication Date(Web):15 June 2011
DOI:10.1016/j.bmcl.2011.04.108
Novel types of PKCα activators based on isobenzofuranone bearing a myo-inositol moiety were designed and synthesized. The derivatives with bulky substituents on the myo-inositol moiety significantly activated PKCα, but their binding sites were not the same as that of phorbol ester.
Co-reporter:Dr. Yoshitaka Hamashima;Dr. Shoko Suzuki;Toshihiro Tamura;Dr. Hidenori Somei;Dr. Mikiko Sodeoka
Chemistry – An Asian Journal 2011 Volume 6( Issue 2) pp:658-668
Publication Date(Web):
DOI:10.1002/asia.201000740

Abstract

The tandem aza-Michael reaction/enantioselective protonation of α-substituted α,β-unsaturated carbonyl compounds is described in detail. The key to success is the combined use of a Brønsted basic palladium–μ-hydroxo complex and amine salts, which allows for the controlled generation of active catalyst and nucleophilic free amines. This catalytic system was applicable to various acceptors and aromatic amines, and the desired β-amino acid derivatives with a chiral center at the α position were produced in good yield with excellent enantioselectivity (up to 98 % ee). For electron-deficient amines, the introduction of free amine as an additive was effective in promoting the reaction. The results of mechanistic studies, including determination of the absolute configuration of the product, are discussed.

Co-reporter:Dr. Go Hirai;Dr. Ayako Tsuchiya;Yusuke Koyama;Dr. Yuko Otani;Kana Oonuma;Dr. Kosuke Dodo;Dr. Siro Simizu;Dr. Hiroyuki Osada;Dr. Mikiko Sodeoka
ChemMedChem 2011 Volume 6( Issue 4) pp:617-622
Publication Date(Web):
DOI:10.1002/cmdc.201100107
Co-reporter:Eriko Iwasa, Yoshitaka Hamashima, Shinya Fujishiro, Daisuke Hashizume, Mikiko Sodeoka
Tetrahedron 2011 67(35) pp: 6587-6599
Publication Date(Web):
DOI:10.1016/j.tet.2011.05.081
Co-reporter:Eriko Iwasa ; Yoshitaka Hamashima ; Shinya Fujishiro ; Eisuke Higuchi ; Akihiro Ito ; Minoru Yoshida
Journal of the American Chemical Society 2010 Volume 132(Issue 12) pp:4078-4079
Publication Date(Web):March 8, 2010
DOI:10.1021/ja101280p
The first total synthesis of (+)-chaetocin has been accomplished in nine steps starting from known N-Cbz-N-Me-serine using radical α-bromination reaction of diketopiperazine 10 and Co(I)-mediated reductive dimerization reaction of 12 as key reactions. The enantiomers show comparable inhibitory activity toward histone methyltransferase (HMT) G9a, but analogues without the sulfur functionality are inactive.
Co-reporter:Ayako Nakamura ; Sylvain Lectard ; Daisuke Hashizume ; Yoshitaka Hamashima
Journal of the American Chemical Society 2010 Volume 132(Issue 12) pp:4036-4037
Publication Date(Web):March 3, 2010
DOI:10.1021/ja909457b
A highly efficient, catalytic, diastereo- and enantioselective conjugate addition of α-ketoesters to nitroalkenes has been devised. The reaction was applicable to various substrates. Notably, the combination of endogenous and exogenous bases was effective, allowing a small amount of the catalyst (0.1−1 mol % Ni) to promote the reaction efficiently. The synthetic utility of this reaction was demonstrated in the synthesis of substituted pyrrolidine derivatives, whose stereochemistry is closely related to biologically important natural products such as kainic acid.
Co-reporter:Sylvain Lectard;Yoshitaka Hamashima
Advanced Synthesis & Catalysis 2010 Volume 352( Issue 16) pp:2708-2732
Publication Date(Web):
DOI:10.1002/adsc.201000624

Abstract

Since the incorporation of fluorine into biologically active compounds often enhances the properties of the parent compounds, there is a considerable demand for efficient enantioselective fluorination reactions. Over the past decade, a range of metal-catalyzed and organocatalyzed fluorination reactions has been developed. Nowadays, fluorine can be catalytically introduced into many compounds in good yield and with high enantioselectivity, and the scope of these reactions is broad. Herein, we review recent progress in the field of catalytic enantioselective fluorination reactions, including their scope and mechanism.

Co-reporter:Ryo Shimizu, Hiromichi Egami, Tatsuya Nagi, Jungha Chae, Yoshitaka Hamashima, Mikiko Sodeoka
Tetrahedron Letters 2010 Volume 51(Issue 45) pp:5947-5949
Publication Date(Web):10 November 2010
DOI:10.1016/j.tetlet.2010.09.027
Direct C2-selective trifluoromethylation of indole derivatives was achieved with Togni’s hypervalent iodine reagent and CuOAc as a catalyst in MeOH under mild conditions, affording the desired C2-trifluoromethylated indoles in good yield (up to 90%).C2-selective trifluoromethylation of indole derivatives with hypervalent iodine reagent proceeded smoothly in the presence of copper acetate under mild conditions with good yield.
Co-reporter:Yuou Teng, Katsuya Iuchi, Eriko Iwasa, Shinya Fujishiro, Yoshitaka Hamashima, Kosuke Dodo, Mikiko Sodeoka
Bioorganic & Medicinal Chemistry Letters 2010 Volume 20(Issue 17) pp:5085-5088
Publication Date(Web):1 September 2010
DOI:10.1016/j.bmcl.2010.07.032
Chaetocin, a natural product isolated from Chaetomium species fungi, was reported to have various biological activities, including antitumor and antifungal activities. Recently, we reported the first total synthesis of chaetocin and its derivatives. Here, we examined the cell-death-inducing activity of these compounds in human leukemia HL-60 cells. The unnatural enantiomer of chaetocin (ent-chaetocin) was more potent than chaetocin, and was found to induce apoptosis through the caspase-8/caspase-3 activation pathway.The unnatural enantiomer of chaetocin (ent-chaetocin) was more potent than chaetocin, and was found to induce apoptosis through the caspase-8/caspase-3 activation pathway.
Co-reporter:Ayako Nakamura, Sylvain Lectard, Ryo Shimizu, Yoshitaka Hamashima, Mikiko Sodeoka
Tetrahedron: Asymmetry 2010 Volume 21(13–14) pp:1682-1687
Publication Date(Web):14 July 2010
DOI:10.1016/j.tetasy.2010.04.009
As a part of our research project on hard anion-late transition metal complexes as mild acid–base catalysts, we describe herein that CuII hydroxo complexes having chiral N-substituted-diaminocyclohexanes are mild and selective catalysts, which are applicable to the catalytic asymmetric conjugate addition of α-keto esters to nitroolefins. The reaction proceeded diastereoselectively without the detectable formation of self-aldol products, affording the corresponding coupling products with anti-stereochemistry in an enantioselective manner.(1R,2R)-N,N′-Bis[(2,4,6-triisopropylphenyl)methyl]-1,2-diaminocyclohexaneC38H62N2[α]D27=-56.5 (c 1.01, CHCl3)Source of chirality: chiral poolAbsolute configuration: (1R,2R)(3S,4S)-tert-Butyl 4-(3′,4′-methylenedioxyphenyl)-3-benzyl-5-nitro-2-oxopentanoateC23H25NO7Ee = 71%[α]D29=-16.1 (c 0.63, CHCl3)Source of chirality: asymmetric synthesisAbsolute configuration: (3S,4S)
Co-reporter:Mikiko Sodeoka ;Kosuke Dodo
The Chemical Record 2010 Volume 10( Issue 5) pp:308-314
Publication Date(Web):
DOI:10.1002/tcr.201000031

Abstract

Oxidative stress-induced necrosis plays an important role in ischemia-reperfusion injury, such as stroke and heart attack. Here, we describe the development of selective inhibitors of necrosis, MS-1 and IM-54, as potential cardioprotective agents and biological tools for investigating the molecular mechanisms of cell death. By means of chemical modifications of kinase inhibitor BM I, its affinity for various kinases was successfully removed and a potent and selective inhibitor of necrosis, IM-54, was obtained. IM-54 inhibits necrosis induced by oxidative stress, but not apoptosis induced by anticancer drugs. © 2010 The Japan Chemical Journal Forum and Wiley Periodicals, Inc. Published online in Wiley InterScience (www.interscience.wiley.com) DOI 10.1002/tcr.201000031

Co-reporter:Mikiko Sodeoka and Yoshitaka Hamashima  
Chemical Communications 2009 (Issue 39) pp:5787-5798
Publication Date(Web):17 Aug 2009
DOI:10.1039/B911015A
Chiral cationic Pd aqua complexes can function as acid–base catalysts, effectively activating active methylene and methine compounds to give chiral Pd enolates. It is noteworthy that such enolate formation occurs with concomitant formation of a strong protic acid. Although the reactivity of the Pd enolate itself is not sufficient for reactions with carbon-based electrophiles, its cooperative action with the protic acid to activate the electrophiles allows the desired C–C bond-forming reactions to proceed smoothly in a highly enantioselective manner. Based on this mechanistic feature, reactions with acetals have been developed; these are difficult to achieve using conventional basic enolate chemistry.
Co-reporter:Megumi Ohkubo;Go Hirai Dr. Dr.
Angewandte Chemie 2009 Volume 121( Issue 21) pp:3920-3924
Publication Date(Web):
DOI:10.1002/ange.200900634
Co-reporter:Megumi Ohkubo;Go Hirai Dr. Dr.
Angewandte Chemie International Edition 2009 Volume 48( Issue 21) pp:3862-3866
Publication Date(Web):
DOI:10.1002/anie.200900634
Co-reporter:Natsuko Umebayashi;Yoshitaka Hamashima Dr.;Daisuke Hashizume Dr.
Angewandte Chemie International Edition 2008 Volume 47( Issue 22) pp:4196-4199
Publication Date(Web):
DOI:10.1002/anie.200705344
Co-reporter:Yoshitaka Hamashima Dr.;Naoki Sasamoto;Natsuko Umebayashi Dr.
Chemistry – An Asian Journal 2008 Volume 3( Issue 8-9) pp:1443-1455
Publication Date(Web):
DOI:10.1002/asia.200800120

Abstract

This paper describes catalytic asymmetric Mannich-type reactions of β-ketoesters and malonates using chiral palladium complexes. Although readily enolizable, carbonyl compounds are attractive substrates, the use of such compounds as nucleophiles in Mannich-type reactions has not been extensively investigated. In the presence of chiral Pd aqua complexes (2.5 mol %), β-ketoesters reacted with various N-Boc imines (Boc=tert-butoxycarbonyl) to afford the desired β-aminocarbonyl compounds in good yield with high to excellent stereoselectivity (up to 96:4 d.r., 95–99 % ee in most cases). In these reactions, construction of highly crowded vicinal quaternary and tertiary carbon centers was achieved in one step. A chiral Pd enolate is considered to be the key intermediate. To elucidate the stereoselectivity observed in the reaction, possible transition-state models are discussed, taking into account steric and stereoelectronic effects. Furthermore, this catalytic system was applied to the Mannich-type reaction of malonates with N-Boc imine as well as one-pot classical aminomethylation of β-ketoesters using benzylamine salt and formalin. The reactions proceeded smoothly, and the corresponding Mannich products were obtained in high yield with moderate to good enantioselectivity.

Co-reporter:Natsuko Umebayashi;Yoshitaka Hamashima Dr.;Daisuke Hashizume Dr.
Angewandte Chemie 2008 Volume 120( Issue 22) pp:4264-4267
Publication Date(Web):
DOI:10.1002/ange.200705344
Co-reporter:Isao Fukuchi;Yoshitaka Hamashima
Advanced Synthesis & Catalysis 2007 Volume 349(Issue 4-5) pp:
Publication Date(Web):20 MAR 2007
DOI:10.1002/adsc.200600568

We herein describe novel catalytic asymmetric aldol reactions of acidic carbon pronucleophiles including β-keto esters and specific ketones with reactive electrophiles such as formaldehyde and ethyl glyoxylate. In the presence of a catalytic amount of chiral Pd(II)-BINAP complexes, the hydroxymethylation of β-keto esters with paraformaldehyde or formalin was examined, and the corresponding adducts were obtained in good yields with good to high enantioselectivity (ca. 86 % ee). In some cases, the similar Pt(II) complex also worked well to give the products with better enantioselectivity. Furthermore, these complexes were found to promote the aldol reactions of less acidic ketones, and ethyl glyoxylate underwent reaction with 3-coumaranone and β-tetralone, affording the aldol products with a significant level of enantioselectivity of up to 83 % ee.

Co-reporter:Toshiaki Suzuki;Yoshitaka Hamashima Dr.
Angewandte Chemie International Edition 2007 Volume 46(Issue 28) pp:
Publication Date(Web):14 JUN 2007
DOI:10.1002/anie.200701071

Not binary, but trinary: A binary system consisting of Ni(OTf)2–binap complex and 2,6-lutidine failed to promote the asymmetric fluorination of ester equivalents. However, upon the addition of a substoichiometric amount of Et3SiOTf to the NiCl2–binap/2,6-lutidine catalyst, the monofluorinated products were obtained in good yield with high enantioselectivity (see example). NFSI=N-fluorobenzenesulfonimide, Tf=trifluoromethanesulfonyl.

Co-reporter:Go Hirai Dr.;Tadashi Shimizu Dr.;Toru Watanabe;Yosuke Ogoshi;Megumi Ohkubo Dr.
ChemMedChem 2007 Volume 2(Issue 7) pp:
Publication Date(Web):10 MAY 2007
DOI:10.1002/cmdc.200700080

Substituent direction is important: Type A–D isobenzofuranone derivatives were synthesized with differently directed hydrophobic alkyl side chains. These ligands bind in a similar conformation to protein kinase Cα but have contrasting activation abilities, possibly owing to different interaction of the side chain with the membrane lipid.

Co-reporter:Toshiaki Suzuki;Yoshitaka Hamashima Dr.
Angewandte Chemie 2007 Volume 119(Issue 28) pp:
Publication Date(Web):14 JUN 2007
DOI:10.1002/ange.200701071

Zwei sind nicht genug: Das binäre System aus einem Ni(OTf)2-Binap-Komplex und 2,6-Lutidin war ungeeignet für die asymmetrische Fluorierung von Esteräquivalenten, auf Zusatz einer substöchiometrischen Menge an Et3SiOTf katalysierte das System NiCl2-Binap/2,6-Lutidin hingegen die Bildung der monofluorierten Produkte in guten Ausbeuten und mit hohen Enantioselektivitäten (siehe Beispiel). NFSI=N-Fluorbenzolsulfonimid, Tf=Trifluormethansulfonyl.

Co-reporter:Yoshitaka Hamashima;Daido Hotta;Natsuko Umebayashi;Yasunori Tsuchiya;Takeyuki Suzuki
Advanced Synthesis & Catalysis 2005 Volume 347(Issue 11-13) pp:
Publication Date(Web):19 OCT 2005
DOI:10.1002/adsc.200505199

An efficient catalytic enantioselective Michael reaction has been developed using chiral palladium complexes. Various substrates including β-keto esters and 1,3-diketones reacted with α,β-unsaturated carbonyl compounds to give the corresponding Michael adducts in good yield with up to 99% ee, thereby affording chiral quaternary carbon centers. In these reactions, chiral palladium enolates were generated as key intermediates, which acted cooperatively with a strong protic acid to activate the Michael acceptors for promotion of the CC bond-forming reaction.

Co-reporter:Hiroyuki Yamakoshi, Almar F. Palonpon, Kosuke Dodo, Jun Ando, Satoshi Kawata, Katsumasa Fujita and Mikiko Sodeoka
Chemical Communications 2014 - vol. 50(Issue 11) pp:NaN1343-1343
Publication Date(Web):2013/11/28
DOI:10.1039/C3CC48587K
We report the simultaneous imaging of protonated and deprotonated forms of carbonylcyanide p-trifluoromethoxy-phenylhydrazone (FCCP) molecules in live cells by Raman microscopy. Nitriles, structure-sensitive Raman tags, are used to detect the two distinct molecular structures, demonstrating the potential of Raman microscopy for structure-based imaging of bioactive small molecules.
Co-reporter:Hiromichi Egami, Ryo Shimizu, Yoshihiko Usui and Mikiko Sodeoka
Chemical Communications 2013 - vol. 49(Issue 66) pp:NaN7348-7348
Publication Date(Web):2013/06/17
DOI:10.1039/C3CC43936D
Iron-catalyzed trifluoromethylation with concomitant 1,2-migration of an aryl group starting from diaryl allyl alcohol was achieved under mild conditions. This reaction system affords α-substituted-β-trifluoromethyl carbonyl compounds in high efficiency. In the case of substrates bearing different aryl groups, selective migration was observed.
Co-reporter:Mikiko Sodeoka and Yoshitaka Hamashima
Chemical Communications 2009(Issue 39) pp:NaN5798-5798
Publication Date(Web):2009/08/17
DOI:10.1039/B911015A
Chiral cationic Pd aqua complexes can function as acid–base catalysts, effectively activating active methylene and methine compounds to give chiral Pd enolates. It is noteworthy that such enolate formation occurs with concomitant formation of a strong protic acid. Although the reactivity of the Pd enolate itself is not sufficient for reactions with carbon-based electrophiles, its cooperative action with the protic acid to activate the electrophiles allows the desired C–C bond-forming reactions to proceed smoothly in a highly enantioselective manner. Based on this mechanistic feature, reactions with acetals have been developed; these are difficult to achieve using conventional basic enolate chemistry.
Co-reporter:Takao Yamaguchi, Miwako Asanuma, Shuichi Nakanishi, Yohei Saito, Masateru Okazaki, Kosuke Dodo and Mikiko Sodeoka
Chemical Science (2010-Present) 2014 - vol. 5(Issue 3) pp:NaN1029-1029
Publication Date(Web):2013/12/19
DOI:10.1039/C3SC52704B
Affinity labeling has become a powerful tool to identify target proteins, as well as to visualize/characterize target functions in living cells. However, although various functional groups have been utilized for affinity labeling, many of them have disadvantages such as complex structure and large size. To address this problem, we designed a simple chemical probe bearing a small bifunctional O-NBD unit (NBD: nitrobenzoxadiazole). Model ligand–protein experiments showed that the O-NBD unit has excellent characteristics for target-specific labeling even in the presence of a large excess of non-target proteins. Moreover, attachment of the O-NBD unit to N,N-dialkyl-2-phenylindol-3-ylglyoxylamides (PIGAs), which are recently developed translocator protein (TSPO) ligands, enabled us to visualize mitochondria expressing TSPO in living cells by means of “turn-ON” fluorescence. Two-dimensional PAGE analysis of the labeled mouse kidney mitochondria strongly suggested that our synthetic probe selectively modified a partner protein of TSPO, voltage-dependent anion channel (VDAC).
Co-reporter:Hiromichi Egami, Shinji Kamisuki, Kosuke Dodo, Miwako Asanuma, Yoshitaka Hamashima and Mikiko Sodeoka
Organic & Biomolecular Chemistry 2011 - vol. 9(Issue 22) pp:NaN7670-7670
Publication Date(Web):2011/08/19
DOI:10.1039/C1OB06123B
A cobalt–phosphine complex supported on PS-PEG beads was found to react with a propargyl carbamate tag, and the tagged molecules immobilized on the beads could be released by acidic treatment through the Nicholas reaction pathway. These reactions work in aqueous media at 4 °C, so that this catch and release procedure is compatible with conditions generally used in biochemical experiments.
Co-reporter:Florian Pünner, Yoshihiro Sohtome and Mikiko Sodeoka
Chemical Communications 2016 - vol. 52(Issue 98) pp:NaN14096-14096
Publication Date(Web):2016/10/25
DOI:10.1039/C6CC06935E
We present a copper-catalyzed oxidative cyclization of β,γ-unsaturated hydrazones, utilizing molecular oxygen as a stoichiometric oxidant. The methodology provides distinct classes of pyrazoles simply by changing the reaction solvent. Tris-substituted pyrazoles, having a ketone functionality at the C-5 position, were obtained as the major product in ethanol, while di-substituted pyrazoles were predominantly formed in 1,1,1,3,3,3-hexafluoro-2-propanol.
Benzoic acid, 4-(3-hydroxy-1-propynyl)-, ethyl ester
16-Heptadecynoic acid
Benzene, [(1E,3Z)-4-bromo-4-fluoro-1,3-butadien-1-yl]-
Benzene, 1-bromo-4-[(1Z)-2-bromo-2-fluoroethenyl]-
Cyclohexanamine, N-4-pentenyl-
Silane, (3-butenyloxy)triphenyl-
Carbamic acid, (4-methoxyphenyl)-2-propenyl-, 1,1-dimethylethyl ester
Butanamide, 3,3-dimethyl-2-oxo-
Benzene, 1-methoxy-4-[(1E)-3,3,3-trifluoro-1-propenyl]-
Benzene, [(1E)-3,3,3-trifluoro-1-propenyl]-