Designed Folding of Pseudopeptides
FULL PAPER
concentration (in m), and l is the pathlength (in cm). No changes were
observed for normalized spectra at different overall concentrations.
53.7, 63.4, 128.8, 130.0, 130.8, 132.3, 133.5, 135.4, 168.5 ppm; IR (KBr):
n˜ =3402, 3048, 2935, 2856, 1668, 1557 cmꢀ1; MS (ESI-TOF): m/z (%):
409.4 (100) [M+2H]2+
.
Suitable crystals of 3d for X-ray diffraction were obtained as follows: A
small amount of pseudopeptidic macrocycle 3d (ꢁ3 mg) was dispersed
in HPLC-grade methanol (1 mL). Then a small excess of 10% aqueous
HCl was added dropwise until complete dissolution. Crystals of 3d·4HCl
were obtained by the very slow (several weeks) evaporation of the sol-
vents. C64H80N8O4·4Clꢀ·8H2O; formula weight 1311.29; orthorhombic;
space group P212121; a=13.0283(15) , b=13.0834(10), c=42.757(4) ꢇ;
V=7288.1(12) ꢇ3; Z=4; colorless block-shaped crystals; STOE-IPDS-II
two-circle diffractometer; T=173 K; MoKa radiation; 2q range=3.26–
Compound m-3c: This compound was obtained as described above start-
ing from 1c and isophthaldehyde, and was characterized as the corre-
sponding HCl salt. Yield: 35%; pale-yellow solid; m.p. 2308C (decomp);
[a]2D0 =+7.63 (c=0.375 in CH3OH); 1H NMR (CD3OD, 500 MHz): d=
1.04–1.16 (m, 24H), 1.37–1.43 (m, 8H), 1.78 (brs, 4H), 2.11 (d, J=
9.7 Hz, 4H), 2.29–2.36 (m, 4H), 3.57–3.82 (m, 4H), 3.91–4.30 (m, 12H),
7.40–7.61 ppm (m, 8H); 13C NMR (CD3OD, 125 MHz): d=18.3, 19.6,
25.4, 31.0, 33.6, 51.3, 54.1, 66.6, 131.0, 132.4, 132.9, 134.6, 168.0 ppm; IR
(KBr): n˜ =3387, 3215, 3055, 1959, 2936, 2856, 1670, 1554 cmꢀ1; MS (ESI):
51.36o; 26237 reflections collected; 12668 independent reflections (Rint
0.1586); empirical absorption correction[35] (MULABS); structure solu-
tion with SHELXD, refinement on F2 with SHELXL-97,[36]
1A[I>2s(I)]=
=
m/z (%): 415.1 (100) [M+2H]2+, 746.1 (30) [M+Na+K]2+
.
R CHTUNGTRENNUNG
Compound 3e: This compound was obtained as described above starting
from 1e and terephthaldehyde, and was characterized as the free amine.
Yield: 58%; white solid; m.p. 232–2378C; [a]2D0 =+11.76 (c=1.04 in
CHCl3/CH3OH 7:3); 1H NMR (CDCl3 with a few drops of CD3OD,
500 MHz): d=0.81–0.84 (brt, J=6.6 Hz, 24H), 1.22–1.33 (m, 12H), 1.50–
1.52 (m, 8H), 1.71 (brs, 4H), 1.97 (d, J=10.9 Hz, 2H), 2.08 (d, J=
11.8 Hz, 2H), 3.05–3.11 (m, 4H), 3.56 (ABq, dA =3.59, dB =3.52 ppm,
jJAB j=11.5 Hz, 8H), 3.63–3.68 (m, 4H), 7.11 (s, 6H), 7.22 ppm (s, 2H);
13C NMR (CDCl3 with drops of CD3OD, 75 MHz): d=22.5, 22.8, 24.8,
25.2, 32.7, 42.6, 52.6, 52.9, 61.0, 129.1, 137.8, 175.2 ppm; IR (KBr): n˜ =
3302, 3054, 2932, 2867, 1643, 1516 cmꢀ1; MS (ESI-TOF): m/z (%): 885.6
0.1215, GOF=0.858. The absolute configuration was determined: Flack x
parameter=ꢀ0.06(18). All non-hydrogen atoms were refined anisotropi-
cally. Hydrogen atoms were generated according to the stereochemistry
and refined by using a riding model. CCDC-682038 contains the supple-
mentary crystallographic data for this paper. These data can be obtained
free of charge from The Cambridge Crystallographic Data Centre via
Molecular modeling: All the theoretical calculations were performed
using Spartan ꢈ06 program.[37] The optimized geometries for the corre-
sponding minima were obtained as follows: A stochastic conformational
search was applied (Monte Carlo search followed by MMFF force-field
minimization) without restrictions to each compound. More than 100
conformers were obtained in this way (with a cut off of ca. 10 kcalmolꢀ1).
The structures obtained were ordered by their energies and analyzed.
The Boltzmann distributions of the corresponding conformers were cal-
culated at 298.15 K and the superposition of the energetically accessible
local minima were carried out by using the same software package.
(100) [M+H]+, 908.7 (95) [M+Na]+, 454.3 (45) [M+H+Na]2+
.
Compound 3 f: This compound was obtained as described above starting
from 1 f and terephthaldehyde, and was characterized as the free amine.
Yield: 41%; white solid; m.p. 2908C (decomp); [a]2D0 =+17.68 (c=0.90 in
CHCl3/CH3OH 7:3); 1H NMR (CDCl3, CD3OD, 500 MHz): d=0.75 (t,
J=7.3 Hz, 12H), 0.78 (d, J=6.8 Hz, 12H), 0.91–1.01 (m, 4H), 1.13–1.27
(m, 8H), 1.34–1.42 (m, 4H), 1.60–1.66 (m, 8H), 2.02 (d, J=12.5 Hz, 4H),
2.84 (brs, 4H), 3.23–3.27 (m, 4H, overlapped with solvent signal), 3.37
(ABq, dA =3.44, dB =3.30 ppm, jJAB j=11.6 Hz, 8H), 3.60–3.62 (m, 4H),
6.95 ppm (s, 8H); 13C NMR (CDCl3, CD3OD, 75 MHz): d=11.5, 15.1,
24.4, 25.5, 32.5, 37.7, 52.4, 52.6, 66.7, 128.7, 137.2, 173.7 ppm; IR (KBr):
n˜ =3294, 3056, 3011, 2933, 2857, 1655, 1522 cmꢀ1; MS (ESI-TOF): m/z
General procedure for the macrocyclization reaction—synthesis of com-
pound 3c: Compound 1c (160 mg, 0.512 mmol) was dissolved in degassed
CH3OH (5 mL) and the solution was placed inside a flask under nitrogen.
Terephthaldehyde (70 mg, 0.512 mmol) was dissolved in degassed
CH3OH (3 mL) and this solution was added to the solution of 1c and
then, CH3OH (2.5 mL) was added to give a final volume of 10.5 mL (a
final concentration of 0.05m for each reagent). The mixture was stirred
overnight. After 20 h a large excess of NaBH4 (158 mg, 4.096 mmol) was
carefully added and the mixture was allowed to react for 24 h before
being hydrolyzed (concd HCl, to acidity) and evaporated to dryness. The
residue thus obtained was dissolved in water and basified with 1n
NaOH. The product was extracted with CHCl3. The combined organic
(%): 885.6 (100) [M+H]+, 907.6 (70) [M+Na]+, 443.3 (65) [M+2H]2+
454.8 (50) [M+H+Na]2+
,
.
Compound 3g: This compound was obtained as described above starting
from 1g and terephthaldehyde. To avoid deprotection of the side-chain
the reduction was hydrolyzed with a 1m aqueous solution of ammonium
acetate. Yield: 17%; white solid; m.p. 173–1788C; [a]2D0 =+4.06 (c=1.20
in CHCl3); 1H NMR (CD3OD, 500 MHz): d=1.23–1.38 (m, 12H), 1.66–
1.75 (m, 8H), 1.78–1.85 (m, 4H), 2.03 (d, J=11.5 Hz, 4H), 2.25–2.32 (m,
4H), 2.35–2.41 (m, 4H), 3.04 (t, J=6.6 Hz, 4H), 3.42 (ABq, dA =3.52,
dB =3.32 ppm, jJAB j=14.6 Hz, 8H), 3.65–3.67 (m, 4H), 7.02 (s, 8H),
7.17–7.24 ppm (m, 60H); 13C NMR (CD3OD, 125 MHz): d=24.6, 29.4,
32.4, 32.9, 52.0, 52.6, 61.5, 70.4, 126.6, 127.5, 128.5, 128.8, 138.3, 144.8,
layers were dried (MgSO4) and the solvents were evaporated in
a
vacuum. The product was purified by silica flash chromatography using
CH2Cl2 as the eluent while slowly increasing the polarity with MeOH;
several drops of NH3 were added to the mobile phase to improve the ex-
traction of the product. The product was characterized as the correspond-
ing HCl salt, prepared by addition of concd HCl to a methanolic solution
of the free amine. Yield: 67%; pale-yellow solid; m.p. >2308C
(decomp); [a]2D0 =+11.59 (c=0.92 in CH3OH); 1H NMR (CD3OD,
500 MHz): d=1.06 (d, J=6.8 Hz, 12H), 1.12 (d, J=6.7 Hz, 12H), 1.30–
1.41 (m, 8H), 1,77 (brs, 4H), 2.13 (d, J=11.4 Hz, 4H), 2.29–2.36 (m,
4H), 3.83 (d, J=4.9 Hz, 4H), 3.88 (brs, 4H), 4.14 (ABq, dA =4.10, dB =
4.18 ppm, jJAB j=13.3 Hz, 8H), 7.60 (s, 8H), 8.52 ppm (brs, 4H, ex-
changeable with solvent); 13C NMR (D2O, 75 MHz, 908C): d=18.1, 19.3,
25.5, 30.8, 33.9, 50.8, 53.8, 66.2, 132.4, 133.2, 167.7 ppm; IR (KBr): n˜ =
3399, 3210, 3055, 2967, 2937, 2856, 1665, 1551 cmꢀ1; MS (ESI-TOF): m/z
173.3, 175.2 ppm; IR (KBr): n˜ =3315, 3057, 2931, 2857, 1803, 1513 cmꢀ1
MS (ESI-TOF): m/z (%): 639.0 (100) [M+3H]3+, 957.9 (90) [M+2H]2+
;
.
Compound 5a: Bis(amidoamine) 1c (50.5 mg, 0.1616 mmol) was dis-
solved in degassed CH3OH (3 mL) and the solution was placed inside a
flask under nitrogen. Freshly distilled benzaldehyde (33 mL, 0.3232 mmol)
was dissolved in degassed CH3OH (200 mL) and this solution was added
to the solution of 1c (a final concentration of 1c of 0.05m). The mixture
was stirred overnight and the solvent evaporated in vacuum. The com-
pound obtained showed high purity by NMR and was used without fur-
(%): 415.5 (100) [M+2H]2+
.
ther purification. Yield: quantitative; white solid; m.p. 172–1768C; [a]D20
=
ꢀ25.57 (c=1.08 in CHCl3); 1H NMR (CDCl3): d=0.91 (d, J=6.8 Hz,
6H), 0.94 (d, J=6.8 Hz, 6H), 1.11–1.19 (m, 2H), 1.26–1.33 (m, 2H),
1.66–1.67 (m, 2H), 2.12 (brs, 1H), 2.15 (brs, 1H), 2.31–2.38 (m, 2H),
3.56 (d, J=5.0 Hz, 2H), 3.71–3.75 (m, 2H), 6.99 (brd, J=6.1 Hz, 2H),
7.43–7.47 (m, 6H), 7.81 (dd, J1 =7.2, J2 =2.3 Hz, 4H), 8.14 ppm (s, 2H);
13C NMR (CDCl3, 125 MHz): d=18.4, 20.0, 24.8, 32.6, 32.8, 53.2, 80.1,
128.8, 128.9, 131.3, 135.9, 162.3, 173.3 ppm; IR (KBr): n˜ =3280, 3062,
2959, 2931, 2856, 1643, 1533 cmꢀ1; MS (ESI-TOF): m/z (%): 489.3 (100)
[M+H]+, 511.3 (90) [M+Na]+.
Compound 3d: This compound was obtained as described above starting
from 1d and terephthaldehyde, and was characterized as the correspond-
ing HCl salt. Yield: 55%; pale-yellow solid; m.p. 2308C (decomp);
[a]2D0 =+26.79 (c=0.89 in CH3OH); 1H NMR (CD3OD, 500 MHz): d=
0.57 (brd, J=12.9 Hz, 2H), 0.68 (brs, 2H), 1.00–1.07 (m, 4H), 1.28–1.32
(m, 4H), 1.48 (brd, J=8.8 Hz, 4H) 3.02 (t, J=11.8 Hz, 4H), 3.45 (dd,
J1 =13.1, J2 =5.0 Hz, 4H), 4.03 (dd, J1 =10.5, J2 =5.1 Hz, 2H), 4.20 (ABq,
dA =4.15, dB =4.26 ppm, jJAB j=12.9 Hz, 8H), 7.25–7.35 (m, 20H),
7.69 ppm (s, 8H); 13C NMR (CD3OD, 125 MHz): d=25.2, 33.0, 36.8, 50.3,
Chem. Eur. J. 2008, 14, 8879 – 8891
ꢅ 2008 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim
8889