Shinya Adachi's research while affiliated with University of Toronto and other places

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Publications (18)


Synthesis of α-Borylated Ketones by Regioselective Wacker Oxidation of Alkenylboronates
  • Article

August 2018

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66 Reads

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36 Citations

Organic Letters

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Hayden Foy

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As part of a program aimed at metal-catalyzed oxidative transformations of molecules with carbon–metalloid bonds, the synthesis of α-borylated ketones is reported via regioselective TBHP-mediated Wacker-type oxidation of N-methyliminodiacetic acid (MIDA)-protected alkenylboronates. The observed regioselectivity correlates with the hemilabile nature of the B–N dative bond in the MIDA boronate functional group, which allows boron to guide selectivity through a neighboring group effect.

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Fig. 3 MIDA boronate library synthesized and screened for biological activity. An overview of our overall goal, building blocks used, molecular scaffolds we have developed and the respective compounds synthesized in this study. Each panel represents a different chemical reaction and a specific chemotype. The molecules within each panel expand on that chemotype
Fig. 4 MIDA boronates inhibit ABHD3 in mouse brain proteome. ABPP gel of the membrane fraction of mouse brain treated with compounds 4a-4l (20 µM, 30 min, 37 °C), followed by the broad-spectrum, serine hydrolasedirected activity-based probe FP-rhodamine (1 µM, 30 min, RT) 
Fig. 7 Metabolomic profiling of compound 4j in human cells. a SW620 cells were treated with 4j (2.5 µM, 4 h) or DMSO and collected for metabolomic analysis. Untargeted metabolomics showed a number of significant metabolite changes (p < 0.01) measured in positive ionization mode. Bubble sizes represent fold change, while increasing statistical significance is represented by darker shadings. The two bubbles at RT ≈26 min correspond to hydrogen or sodium adduct of a cellular metabolite of 4j (M = 4j-C 5 H 6 BNO 3 ). Several species in the expanded inset were deduced to be potential phosphatidylcholines (PCs) by mass-to-charge ratio and retention time. b Multiple reaction monitoring of PC-related transitions (M+H→ phosphocholine) confirmed elevations in 26:0 PC in 4j-treated cells. c Negative mode fragmentation (M+HCO 2 − → RCOO − ) revealed PC(26:0) to be a mixture of PC (10:0-16:0) and PC(12:0-14:0) species. For b and c, the data represent average values ± S.E.M. values from five independent experiments per group. Statistical significance was calculated with unpaired students t-tests comparing 4j-treated to DMSO-treated groups; ***p < 0.001; ****p < 0.0001
An overview of the α- and β-aminoboronic acids investigated in this study. a A comparison of the structural similarities between amino acids and aminoboronic acids. b A comparison of the structural relations between the peptide backbone and the aminoboronic acid frameworks investigated in this work
General synthesis of the MIDA boronates developed in this study. a Synthesis of β-amino(MIDA)boronates using a reductive amination approach. b Synthesis of β-aminocyano(MIDA)boronates using a reductive cyanation approach. c Synthesis of α-aminocyano(MIDA)boronates using a reductive cyanation approach

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Multicomponent mapping of boron chemotypes furnishes selective enzyme inhibitors
  • Article
  • Full-text available

November 2017

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316 Reads

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31 Citations

Nature Communications

Heteroatom-rich organoboron compounds have attracted attention as modulators of enzyme function. Driven by the unmet need to develop chemoselective access to boron chemotypes, we report herein the synthesis of α- and β-aminocyano(MIDA)boronates from borylated carbonyl compounds. Activity-based protein profiling of the resulting β-aminoboronic acids furnishes selective and cell-active inhibitors of the (ox)lipid-metabolizing enzyme α/β-hydrolase domain 3 (ABHD3). The most potent compound displays nanomolar in vitro and in situ IC50 values and fully inhibits ABHD3 activity in human cells with no detectable cross-reactivity against other serine hydrolases. These findings demonstrate that synthetic methods that enhance the heteroatom diversity of boron-containing molecules within a limited set of scaffolds accelerate the discovery of chemical probes of human enzymes.

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Cyclols Revisited: Facile Synthesis of Medium-Sized Cyclic Peptides

August 2017

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62 Reads

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47 Citations

Chemistry - A European Journal

Chemistry - A European Journal

Medium-sized rings, particularly the corresponding cyclic peptides, are challenging synthetic targets. In the present study, we report an approach to medium-sized cyclic peptides through targeted formation and collapse of β-amino imide derived cyclol intermediates. This methodology operates on 2,5-diketopiperazines and offers a straightforward transition from frequently examined scaffolds in drug discovery to rarely visited class of medium-sized rings.


Oxalyl Boronates Enable Modular Synthesis of Bioactive Imidazoles

March 2017

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44 Reads

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70 Citations

Described herein is the preparation of oxalyl boronate building blocks and their application for the construction of heterocycles. The oxalyl unit, readily accessible through commercially available starting materials, enables a modular approach for the synthesis of imidazoles. A variety of aromatic, heteroaromatic, and alkyl carboxaldehydes were condensed with oxalyl boronates to afford substituted boryl imidazoles in a regiocontrolled fashion. Subsequent palladium-catalyzed cross-coupling with haloarenes furnished the desired trisubstituted imidazole scaffolds. To demonstrate the utility of these scaffolds, potent inhibitors of the serine/threonine-protein kinase STK10 were synthesized.


Oxalyl Boronates Enable Modular Synthesis of Bioactive Imidazoles

March 2017

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21 Reads

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31 Citations

Angewandte Chemie

Described herein is the preparation of oxalyl boronate building blocks and their application for the construction of heterocycles. The oxalyl unit, readily accessible through commercially available starting materials, enables a modular approach for the synthesis of imidazoles. A variety of aromatic, heteroaromatic, and alkyl carboxaldehydes were condensed with oxalyl boronates to afford substituted boryl imidazoles in a regiocontrolled fashion. Subsequent palladium-catalyzed cross-coupling with haloarenes furnished the desired trisubstituted imidazole scaffolds. To demonstrate the utility of these scaffolds, potent inhibitors of the serine/threonine-protein kinase STK10 were synthesized.


Synthesis of Aminoboronic Acid Derivatives from Amines and Amphoteric Boryl Carbonyl Compounds

September 2016

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55 Reads

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70 Citations

Angewandte Chemie International Edition

Angewandte Chemie International Edition

Herein, we demonstrate the use of α-boryl aldehydes and acyl boronates in the synthesis of aminoboronic acid derivatives. This work highlights the untapped potential of boron-substituted iminium ions and offers insights into the behavior of N-methyliminodiacetyl (MIDA) boronates during condensation and tautomerization processes. The preparative value of this contribution lies in the demonstration that various amines, including linear and cyclic peptides, can be readily conjugated with boron-containing fragments. A mild deprotection of amino MIDA-boronates enables access to α- and β-aminoboronic acids in high chemical yields. This simple process should be applicable to the synthesis of a wide range of bioactive molecules as well as precursors for cross-coupling reactions.


Citations (12)


... While the use of 8-methylquinoline N-oxide (2 b) resulted in a lower yield of 3 a (entry 8), those oxidants derived from pyridines, however, were completely ineffective (entries 9 and 10). Other solvents including DCE, PhF, toluene, and THF were less effective or not suitable (entries [11][12][13][14]. ...

Reference:

Reactivities of α‐Oxo BMIDA Gold Carbenes Generated by Gold‐Catalyzed Oxidation of BMIDA‐Terminated Alkynes
Synthesis of α-Borylated Ketones by Regioselective Wacker Oxidation of Alkenylboronates
  • Citing Article
  • August 2018

Organic Letters

... Starting from this consideration and going on with our diversity-oriented synthetic chemistry programs, focused on both IMCRs [16][17][18][19][20][21][22][23][24] and boron-containing compounds [25,26], we considered aliphatic isocyano boronic acids as attractive components, able to greatly increase IMCRs products scope, as better well-known boryl aldehydes [27,28] and amino boronic acids [29] already do. Boron-containing peptidomimetics are currently highly relevant in drug discovery, mainly due to the ability of amino boronic acids to act as amino acid bioisosteres and reversible covalent inhibitors [30]. Their demonstrated mechanisms of interaction with nucleophilic groups in biomolecules underlie the use of such compounds in medicinal chemistry, resulting in many boron-containing drugs approved by FDA in the last few years [31]. ...

Multicomponent mapping of boron chemotypes furnishes selective enzyme inhibitors

Nature Communications

... To the best of our knowledge, similar studies have been reported so far only on amidation using BnNH 2 by the Dewynter group (Scheme 1d) 14 and ring expansion by the Yudin group (Scheme 1e). 15 Although the two groups have conducted pioneering studies on metal-free C-N bond cleavage of lactams, reactions such as intermolecular peptide bond formation have not yet been examined, and there is signicant scope for improvement in terms of substrate limitation and versatility. ...

Cyclols Revisited: Facile Synthesis of Medium-Sized Cyclic Peptides
  • Citing Article
  • August 2017

Chemistry - A European Journal

Chemistry - A European Journal

... Nitrogen-containing aromatic heterocyclic compounds, particularly imidazoles, have garnered significant attention in research and industrial chemistry in recent years, mainly due to their versatile range of biological and pharmacological activities [1]. They play a pivotal role in the synthesis of biologically active molecules [2,3], such as anticancer, antiaging, anticoagulant, anti-inflammatory, antimicrobial, antitubercular, antidiabetic, antimalarial, antiviral drugs, and enzyme inhibitors [4][5][6]. ...

Oxalyl Boronates Enable Modular Synthesis of Bioactive Imidazoles
  • Citing Article
  • March 2017

Angewandte Chemie

... As depicted in Scheme 1, one of the classic approaches to synthesize 1,2,4,5-tetrasubstituted or 2,4,5-trisubstituted imidazoles is the three-component cyclization of α-diketone, aldehyde, and amine or ammonia sources catalyzed by transition metal complexes or under acidic conditions (Equation (1)). Recently, this protocol has been evolved using internal alkynes as starting materials via generating 1,2-diketones in situ by oxidation reaction [21][22][23][24]. On the other hand, the formal [3+2] annulation of substituted amidines with alkyne forming imidazole ring usually shows high atom-utilization, and two representative procedures are concluded in Scheme 1. ...

Oxalyl Boronates Enable Modular Synthesis of Bioactive Imidazoles
  • Citing Article
  • March 2017

Angewandte Chemie International Edition

Angewandte Chemie International Edition

... We surmised that borylated b-ketoesters could be synthesized through a Lewis acid-catalyzed Roskamp reaction. [7] Our investigation focused on parent acyl-MIDA boronate 1 a, as it is easily accessible, [8] and commercially available ethyl diazoacetate 2 as reaction partners. The presence of a Lewis acid was necessary for the reaction to occur (Table 1, entry 1). ...

Synthesis of Aminoboronic Acid Derivatives from Amines and Amphoteric Boryl Carbonyl Compounds
  • Citing Article
  • September 2016

Angewandte Chemie

... Although many synthetic methods are now available for amino boronic acids derivatives, their application for preparation of peptidomimetics and heteroatom-rich boron-containing small molecules remains underdeveloped. [8,9] Remarkable exceptions come from the impressive work of Professor Yudin and his research group, which, over the last few years, exploited various borylated reagents [10,11] and, in particular, both αand βamino boronic acids, [12][13][14] even coming to the discovery of boron-based peptidomimetics endowed with relevant biolog-ical activities. [7,[15][16] Quite recently, from the same group, amidoboronic acid-containing peptidomimetics with constrained backbone were also achieved, and successfully demonstrated as novel VIM-2 metallo-β-lactamase inhibitors [17] (Figure 1). ...

Synthesis of Aminoboronic Acid Derivatives from Amines and Amphoteric Boryl Carbonyl Compounds
  • Citing Article
  • September 2016

Angewandte Chemie International Edition

Angewandte Chemie International Edition

... [22] Considering the stability of acylborons, we decided to include the well-known MIDA boronate (MIDA = methyliminodiacetic acid) into the structure of CABT. Following Yudin's α-bromoacetyl boronate synthesis, [23] ring-opening chlorination of commercially available BMIDA-ethylene oxide produced chlorohydrin 2. This chlorohydrin was then oxidized by Dess-Martin periodinane to form acylboron 3. Finally, the reaction of 3 with tosylhydrazide produced the desired CABT in a good yield. Of note, this procedure is highly reproducible and scalable, and does not require any silica-gel column purification. ...

Condensation-Driven Assembly of Boron-Containing Bis(Heteroaryl) Motifs Using a Linchpin Approach
  • Citing Article
  • November 2015

Organic Letters

... [8,9] Remarkable exceptions come from the impressive work of Professor Yudin and his research group, which, over the last few years, exploited various borylated reagents [10,11] and, in particular, both αand βamino boronic acids, [12][13][14] even coming to the discovery of boron-based peptidomimetics endowed with relevant biolog-ical activities. [7,[15][16] Quite recently, from the same group, amidoboronic acid-containing peptidomimetics with constrained backbone were also achieved, and successfully demonstrated as novel VIM-2 metallo-β-lactamase inhibitors [17] (Figure 1). ...

Facile synthesis of borofragments and their evaluation in activity-based protein profiling
  • Citing Article
  • January 2015

Chemical Communications

... [40] Our work on a-boryl enamine functionalization led us to consider electrophilic fluorination chemistry towards fluorinated b-aminoalkylboronic acids. [41][42][43] We subjected N-methyliminodiacetic acid (MIDA)-protected a-boryl acetaldehyde [44] 1 to electrophilic fluorination employing Selectfluor or N-fluorobenzenesulfonimide (NFSI) and catalytic amounts of pyrrolidine. Initial screening showed modest conversion with poor selectivity (Table 1, Entries 1-6). ...

ChemInform Abstract: Boron-Containing Enamine and Enamide Linchpins in the Synthesis of Nitrogen Heterocycles.
  • Citing Article
  • November 2014

Journal of the American Chemical Society