2440
S. Lee et al. / Bioorg. Med. Chem. Lett. 26 (2016) 2438–2441
Table 2
The known compounds were identified as cyclo(
(5),19,20 cyclo( -Pro-Gly) (6),21 cyclo( -Ala) (7),22 and cyclo
-Pro-
-Pro-
-Ala) (8),23 by comparing their spectroscopic and physical
L-Pro-L-Asp)
1H and 13C NMR data of compounds 4 and 5 in D2Oa
D
L
L
(L
D
Position
4
5
data with reported values. Their absolute configurations were
established using a combination of NOESY and Marfey’s method.
dH
dC
dH
dC
1
2
3
4
5
6
7
168.6
171.9
On the other hand, cyclo(L-Pro-L-Asp) (5) has been previously
reported but only as a synthetic product.20 The NMR data assign-
ment of 5 as a natural product is reported here (Table 2).
4.16 dd (7.5, 7.0)
61.7
172.1
4.22 dd (7.5, 7.0)
61.7
170.5
The isolated diketopiperazines (1–8) were tested for antifungal
and antimicrobial properties in triplicate against standardized bac-
terial and yeast strains from the American Type Culture Collection
(ATCC) [Gram-negative bacteria; Escherichia coli (ATCC 25922),
Gram-positive bacteria; Bacillus subtilis (ATCC 6633) and Staphylo-
coccus aureus (BAA-2313) and yeasts; Saccharomyces cerevisiae
(ATCC 9763) and Candida albicans (ATCC 10231)]. In this study,
the minimum inhibitory concentration and the minimum fungici-
dal concentration values of compounds 1–8 were determined
using broth-dilution techniques. Unfortunately none of the isolates
4.01 br s
4.32 qd (6.5, 1.5)
62.8
68.7
4.38 dd (5.0, 4.5)
2.72 dd (19.5, 5.0)
2.77 dd (19.5, 4.5)
51.8
38.2
8
9
10
11
1.19 d (6.5)
21.3
31.5
24.4
48.1
177.3
30.8
24.7
48.2
2.21 m; 1.78 m
1.93 m; 1.84 m
3.51 m; 3.37 m
2.21 m; 1.82 m
1.96 m; 1.83 m
3.43 m; 3.41 m
1H and 13C NMR data were recorded at 600 and 150 MHz, respectively. Coupling
constants (in Hz) are given in parentheses.
a
displayed antimicrobial activities at <200 lg/mL.
elucidated by the HMBC correlations of each
a proton with the
amide carbonyl carbon. The stereochemistry of 2 and 3 was estab-
lished based on Marfey’s method and a NOESY analysis.11–13 The
relative configuration of the two stereogenic centers in 2 was
assigned 3S⁄ and 6R⁄ by the NOESY correlations combined with
molecular modeling, whereas the two stereogenic centers of 3
were deduced to be 3R⁄ and 6R⁄ in the relative configuration based
on the NOESY correlations (Fig. 3). An LC–MS analysis of the Mar-
fey’s derivative derived from 2 allowed us to determine that com-
Acknowledgement
This paper was supported by SEOK CHUN Research Fund, Sung-
kyunkwan University, 2014.
Supplementary data
Supplementary data associated with this article can be found, in
pound 2 possessed
L-proline, indicating the absolute configuration
of the proline -position as 3S. This result determined a 6R config-
a
uration of 2 based on the relative stereochemistry previously
established in 2. On the other hand, the LC–MS analysis of the Mar-
fey’s derivative derived from 3 allowed determination of the abso-
References and notes
lute configuration of its
6R configuration based on the assigned relative configuration of
a-carbon as 3R, which also determined a
3. Thus, the structure of 2 was characterized as a cyclic dipeptide
called cyclo(
dipeptide called cyclo(
Compound 4 was isolated as a white amorphous powder with a
L-Pro-D
-Glu)15 and the structure of 3 was a cyclic
D
-Pro-D
-Glu).16
25
negative specific rotation value, [
a
]
À11.0 (c 0.05, H2O). Its
D
molecular formula was established to be C9H14N2O3 from the [M
+H]+ peak at m/z 199.1091 (calcd. for C9H15N2O3, 199.1083) in
the positive-ion HR-ESI-MS spectrum. The 1H and 13C NMR spectra
(Table 2) of 4 and the detailed analysis of the 2D NMR data (COSY,
HSQC, and HMBC data) of 4 suggested the presence of threonine
and proline, whose diketopiperazine structure was further estab-
lished by COSY and HMBC experiments (Fig. 2). The absolute con-
figuration of 4 was determined by the modified Mosher’s method
(see Supplementary Data) and the Marfey’s method in combination
10. The EtOH extract of liquid cultures was fractionated by the HP-20 column
chromatography eluting with a step gradient of two column volumes of 100%
H2O, 20% MeOH/H2O, 40% MeOH/H2O, 60% MeOH/H2O, 80% MeOH/H2O, and
100% MeOH to give six fractions (fractions A–F). Fraction C was fractionated by
preparative reversed-phase HPLC (C18 column, Phenomenex Luna,
250 Â 21.2 mm, 5
lm) using 8% CH3CN/H2O (+0.1% formic acid) for 20 min,
then to 100% CH3CN (+0.1% formic acid) in the next 10 min, and 100% CH3CN
(+0.1% formic acid) for the next 5 min (flow rate: 10 mL/min) to give 35
fractions (fractions C1–C35). Fractions C11, C12, C13 and C14 were further
purified using semi-preparative HPLC (Agilent 1200 Series HPLC system,
with a NOESY analysis.11–13 Treating 4 with (S)-(+)-
a-methoxy-a-
(trifluoromethyl)phenylacetyl chloride [(S)-MTPA-Cl] and DMAP
in the pyridine produced the (R)-MTPA esters 4r. Similarly, treating
4 with (R)-(-)-MTPA-Cl afforded the (S)-MTPA ester 4s. Analysis of
Phenyl-hexyl column, Phenomenex Luna, 250 Â 10.0 mm, 5
lm, flow rate:
2 mL/min). Fraction C11 was purified with 3.3% CH3CN/H2O (+0.1% formic acid)
to give compounds 4 (0.5 mg, tR 24.8 min), 5 (0.6 mg, tR 25.5 min) and 6
(0.8 mg, tR 21.2 min), and fraction C12 with 4.0% CH3CN/H2O (+0.1% formic
acid) to give compounds 1 (0.5 mg, tR 31.8 min) and 8 (0.4 mg, tR 23.5 min).
Fraction C13 was purified using 4.0% CH3CN/H2O (+0.1% formic acid) to give 7
(1.4 mg, tR 30.3 min), and fraction C14 using 5.7% CH3CN/H2O (+0.1% formic
acid) to give compounds 2 (1.1 mg, tR 26.7 min) and 3 (0.7 mg, tR 28.1 min)
the 1H NMR chemical shift differences (
DdS-R) (see Supplementary
Data) of the two MTPA esters allowed assignment of the absolute
configuration of C-7 as 7R. In addition, the LC–MS analysis of the
Marfey’s derivative derived from 4 allowed assignment of the
absolute configuration of C-3 as 3S. Finally, the NOESY correlation
between H-3 and H-7, but the lack of a NOESY correlation between
H-3 and H-6, determined a 6R configuration of 4 (Fig. 3). Thus, the
13. Small samples of compounds 1–4 (1: 0.2 mg; 2: 0.1 mg; 3: 0.1 mg; 4: 0.1 mg)
were individually hydrolyzed with 6 N HCl (1 mL) at 110 °C for 15 h. Each
reaction was allowed to cool to room temperature, dried in vacuo. A solution of
structure of 4 was elucidated as a cyclic dipeptide called cyclo(
Pro-
-allo-Thr).17 A literature survey revealed that compound 4,
cyclo( -Pro-D-allo-Thr), was recently isolated from the South China
L-
D
L
Marfey’s reagent (20
aqueous NaHCO3 (100
cooled to room temperature, and acidified with 2 N HCl (50
l
L, 10 mg/mL in acetone) was added, followed by 1 N
L). Each reaction was heated to 80 °C for 10 min,
L). The reaction
Sea marine sponge Callyspongia sp.,18 but its NMR spectroscopic
l
l
data were not reported. This is the first NMR data assignment of
cyclo(L-Pro-D-allo-Thr).
mixture was filtered and analyzed by LC–MS using the following gradient; 0–
30 min, linear gradient from 10% to 70% CH3CN/H2O + 0.1% formic acid; 30–