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PII: S0968-0896(20)30317-5
DOI: https://doi.org/10.1016/j.bmc.2020.115496
Reference: BMC 115496
Please cite this article as: A. Grandane, A. Nocentini, T. Werner, R. Zalubovskis, C.T. Supuran, Benzoxepinones:
A new isoform-selective class of tumor associated carbonic anhydrase inhibitors, Bioorganic & Medicinal
Chemistry (2020), doi: https://doi.org/10.1016/j.bmc.2020.115496
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Abstract
Benzoxepinones (“homocoumarins”) are identified as a new class of selective inhibitors for
tumor associated human carbonic anhydrases (hCA, EC 4.2.1.1) isoforms IX and XII. Similar to
coumarins, they do not inhibit or poorly inhibit cytosolic human (h) isoforms hCA I and II, but act as
nanomolar inhibitors of the trans-membrane, tumor associated isoforms hCA IX and XII.
1. Introduction
S O
O O O
O
Coumarin Sulfocoumarin
O S O O
O O
3H-1,2-benzoxathiepine 2,2-dioxide Benzoxepinone
R2 OH O CO2Me
R3 R1 R1
O O O
(i) (ii) (iii)
HO CO2Me Cl CO2Me R 2
O CO2Me R2 O
R 3
R3 O
1 2, 99% 3 4
1 H H H 3a 97 4a 36
2 H H OMe 3b 87 4b 29
3 H OMe H 3c 68 4c 44
4 OMe H H 3d 81 4d 35
5 H Me H 3e 86 4e 36
6 Me H H 3f 96 4f 40
7 t-Bu H H 3g 90 4g 34
8 H NEt2 H 3h 73 4h* 27
9 H benzo 3i 61 4i 43
10 H Cl H 3j 69 4j 32
11 Cl H H 3k 64 4k 42
12 CO2Me H H 3l 99 4l 31
Reagents and conditions: (i) SOCl2, DMF (cat.), CH2Cl2, reflux, 3 h; (ii) NEt3, CH2Cl2, RT, 16 h; (iii)
methyl-1-phenyl-2-phospholen 1-oxide (5, 5 mol%), benzoic acid (5 mol%), (MeO)3SiH, toluene,
100 °C, 16 h.
*R2=NEt2·HCl
A plausible mechanism of the catalytic Wittig reaction starts with a reduction of the oxidized
form of the catalyst methyl-1-phenyl-2-phospholen 1-oxide (5) forming phospholene 6 (step A,
Scheme 2).10, 11 The next step is a Michael addition of 6 to the α,β-unsaturated carbonyl compound 3
forming enolate 7 (step B). Subsequently ylide 8 is formed by a protonation/deprotonation sequence
(step C). Then an intramolecular Wittig reaction between aldehyde moiety and ylide leads to
formation of benzoxepinone 4 and 5 the oxidized form of the catalyst which can enter another
catalytic cycle (step D).
CO2Me
O Ph
R 2 HSi(OMe)3
P
O
O
4 O
Me (MeO)3Si Si(OMe)3
D 5 A
Me Ph
O P
O P
R Ph Me
O CO2Me 6 O
8 O
R
C B
Me O CO2Me
O 3
O P
R Ph
O CO2Me
7
2.2. CA inhibition
Benzoxepinones 4a-l were screened for the inhibition of four human CA isoforms - the
cytosolic, widespread hCA I and hCA II (off-targets in this case) as well as transmembrane tumor-
associated hCA IX and hCA XII which are anticancer drug targets.12–15 Inhibition data of
benzoxepinones 4a–4l (as well as the sulfonamide acetazolamide AAZ, as standard) against hCA I,
II, IX and XII, after 6 h of incubation period of the enzyme and inhibitor solutions have been collected
(Table 1).16 It should be noted that assaying the inhibition with the 15 min incubation period (as for
the sulfonamides)17 leads to very weak inhibition (data not shown). This was also observed in the
case with the coumarins.12,18–21 Hence, a 6 h incubation period has been used for assaying all
benzoxepinones as CA inhibitors.
Data presented in Table 1 represent the following SAR: the cytosolic isoforms hCA I and II
were generally not inhibited by the investigated benzoxepinones which in most cases showed
inhibition constants >10 µm. Benzoxepinones 4d, 4g, and 4k containing 7-methoxy, 7-tetrt-butyl or
7-chloro substituents demonstrated weak inhibitory activities of hCA II (KI=67–86 µm).
Acetazolamide, the sulfonamide CA inhibitor in clinical use, shows a low nanomolar inhibitory
activity of hCA II, and also significantly inhibits hCA I (KI=250 nM).
The transmembrane, tumor associated hCA IX was effectively inhibited by benzoxepinones
with inhibition constants in the range of 20.0–302.7 nM (Table 1). The weakest hCA IX inhibitors
were benzoxepinones 4e and 4i containing 8-methyl substituent or naphthyl substituent as well as
unsubstituted benzoxepinone 4a (KI in the range of 171.1–302.7 nM). Slightly better inhibition was
observed for 8-substituted benzoxepinones 4c, 4h, and 4j containing methoxy, diethylammonium
chloride or chloro functional groups (KI in the range of 78.0–93.4 nM), as well as for 7-methyl
substitued benzoxepinone 4f with KI=71.7 nM. Highly effective hCA IX inhibitors were
benzoxepinones 4b, 4d, 4g, and 4l (KI in the range of 37.3–46.3 nM). They incorporate 9-methoxy
substituent or substituents in 7th position like methoxy, tert-butyl or acyl functional groups. The most
effective hCA IX inhibitor in benzoxepinone series reported here was 7-chloro substituted compound
4k with KI=20.0 nM. Notably, this inhibitory activity is comparable with acetazolamide (AAZ, KI=25
nM).
The second transmembrane isoform, hCA XII, was also effectively inhibited by
benzoxepinones reported here with KIs in the range of 12.9–466.3 nM (Table 1). The weakest
hCA XII inhibitors were benzoxepinones 4c, 4e, 4h, 4i, and 4a (KI in the range of 184.1–466.3 nM).
They incorporated 8-methoxy, 8-methyl, 8-diethylammonium chloride substituents, naphthalene
moiety as well as unsubstituted benzoxepinone. Slightly more effective hCA XII inhibitor was 8-
chloro substituted benzoxepinone 4j (KI= 68.7 nM). High inhibitory activities were demonstrated by
benzoxepinones 4b, 4d, and 4f (KI in the range of 34.7–48.0 nM) containing 9-methoxy, 7-methoxy,
and 7-methyl substituents, respectively. Gratifyingly, excellent inhibitory activities were observed
for benzoxepinones 4g, 4k, 4l, and 4k. Benzoxepinones containing 7-tert-butyl (4g) and 7-acyl (4l)
moieties showed KI in the range between 26.8 and 25.1 nM, respectively. Furthermore, the most
effective hCA XII inhibitor by benzoxepinones reported here was 7-chloro substituted compound 4k
(KI=12.9 nM). It should be also noted that acetazolamide is a very effective hCA XII inhibitor, but
as mentioned earlier, it is a promiscuous CA inhibitor, significantly inhibiting most of the 15 hCA
isoforms.1a,22,12 Although the CA inhibitory mechanism of benzoxepinones is currently unknown, we
postulate that it could be similar to coumarins, i.e. lactone ring opening by hydrolysis to the
corresponding 4-phenyl-3-butenoic acids which thereafter anchor to the zinc-coordinated water
molecule within the enzyme active site.23
Table 2: Inhibition data of human CA isoforms hCA I, II, IX and XII by compounds 4a-l and the
standard sulfonamide inhibitor acetazolamide (AAZ) by a stopped flow CO2 hydrase assay.
CO2Me O
R O N N
S NH2
N S
H O
O
4a-l O AAZ
KI* (nM)
*Mean from 3 different assays, by a stopped flow technique (errors were in the range of 5–10 % of the
reported values).
3. Conclusions
4. Experimental
4.1. Chemistry
All reagents were purchased from commercial sources and used as received without further
purification. Thin layer chromatography was performed on Merck TLC-plates with fluorescence
indication (silica type 60, F254), spots were visualized using UV-light or KMnO4 stains. Flash
chromatography was performed using silica with a grain size of 40–63 µm from Macherey-Nagel.
Deuterated chloroform was purchased from Deutero. NMR spectra were recorded on Bruker 300
Fourier, Bruker AV 300 and Bruker AV 400 spectrometers. The chemical shifts () for 1H in CDCl3
are given in parts per million (ppm) and referenced to 7.26, respectively. Coupling constants are
expressed in Hertz (Hz). The following abbreviations are used: s= singlet, d= doublet, t= triplet, q=
quadruplet, m= multiplet.
Methyl 3-(chloroformyl)acrylate (2).10 Monomethyl fumarate (1, 5.00 g, 38.4 mmol) was dissolved
in CH2Cl2 (125 mL). After DMF (2 drops) was added the solution was cooled to 0 ºC and thionyl
chloride (3.1 mL, 42.3 mmol) was added dropwise. The resulting mixture was refluxed for 3 h. The
solvent was distilled off, afford the title compound as a yellow oil (5.6 g, 37.7 mmol, 99%). 1H NMR
(300 MHz, CDCl3) δ: 3.86 (s, 3H), 6.96 (d, J = 15.5 Hz, 1H), 7.03 (d, J = 15.5 Hz, 1H).
4.1.2. General procedure 2 (GP 2) for the synthesis of benzoxepinones 4a-l. Fumarate derivative 3a-l
(1 equiv) was dissolved in anhydrous toluene (2 mL·mmol–1). To the solution 3-methyl-1-phenyl-2-
phospholen 1-oxide (5, 0.05 equiv.), benzoic acid (0.05 equiv) and (MeO)3SiH (3 equiv) were added
under argon. The resulting solution was stirred at 100 °C for 16 h. After cooling to room temperature
all volatiles were removed. The crude product was purified by column chromatography on silica gel
(cyclohexane:EtOAc gradient).
4.2. CA inhibition
An Applied Photophysics stoppedflow instrument has been used for assaying the CA catalysed CO2
hydration activity. Phenol red (at a concentration of 0.2 mM) has been used as indicator, working at
the absorbance maximum of 557 nm, with 20 mM Hepes (pH 7.5) as buffer, and 20 mM Na2SO4 (for
maintaining constant the ionic strength), following the initial rates of the CA-catalyzed CO2 hydration
reaction for a period of 10–100 s. Saturated solutions of CO2 in water at 20°C were used (which have
a concentration of 17 mM). They were diluted with distilled water in order to arrive at CO2
concentrations as low as 1.7 mM. These were used thereafter for the determination of the kinetic
parameters and inhibition constants. For each inhibitor at least six traces of the initial 5–10% of the
reaction have been used for determining the initial rate. The uncatalyzed rates were determined in the
same manner and subtracted from the total observed rates. Stock solutions of inhibitor (0.1 mM) were
prepared in distilled–deionized water and dilutions up to 0.01 nM were done thereafter with the assay
buffer. Inhibitor and enzyme solutions were preincubated together for 15 min—6 h at room
temperature (15 min) or 4 °C (6 h) prior to assay, in order to allow for the formation of the E–I
complex. Data from Table 1 were obtained after 6 h incubation of enzyme and inhibitor, as for
coumarins reported earlier.1, 4d, 4f, 11, 17, 19a, 25 The inhibition constants were obtained by non-linear
leastsquares methods using PRISM 3, as reported earlier,2 and represent the mean from at least three
different determinations. All CA isofoms were recombinant ones obtained in-house as reported
earlier.1, 4d, 4f, 12, 18–21 26, 27
Acknowledgements
This work was supported by the European Regional Development Fund (ERDF, project no.
1.1.1.2/VIAA/1/16/235). CTS thanks the Italian Ministry for University and Research (MIUR) for
the grant PRIN 2017XYBP2R.
Author Information
ORCID
Aiga Grandane: 0000-0002-9563-131X
Thomas Werner: 0000-0001-9025-3244
Raivis Zalubovskis: 0000-0002-9471-1342
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Graphical abstract