Freville et al.
857
7) and zinc–nickel complexes (8, 9). We cannot, therefore,
exclude the occurrence of different coordination patterns in
the metal-assisted hybridization of the oligonucleotides with
coordination links between the nearby terpyridines varying
from one to three.
(CH2NHCOCF3) 35.4 (CH2NHCO), 29.0 (CH2CH2CH2),
22.0 (CH3a), 20.9 (CH3b).
Compound 4
Compound 3 (3 g, 5.9 mmol) was dissolved in MeOH
(40 mL), then an aqueous solution of Na2CO3 (10%, 11 mL)
was added. The reaction mixture was stirred overnight at
65 °C, evaporated, diluted with 200 mL of EtOAc, washed
with 1.5% NaHCO3 (3 × 150 mL), then dried (Na2SO4),
evaporated, and co-evaporated with toluene (3 × 30 mL) and
CH2Cl2 (2 × 30 mL) to yield 2.2 g of 4 (74% yield). This
Experimental section
General
Thin layer chromatography was performed on Merck sil-
ica gel 60F254 aluminum-backed plates. Flash chromatogra-
phy refers to column chromatography performed with a
Biotage system. NMR spectra were recorded with a Bruker
1
compound was used without further purification. H NMR
(300 MHz, CDCl3, ppm) δ: 7.36–6.82 (m, 14H, HDMTr and
3
1
NHCO), JNH−CH = 6 Hz), 4.08 (s, 1H, CHOH), 3.78 (s,
Avance 300 spectrometer working at 300 MHz for H, 75.45
2
6H, OCH3), 3.16 (m, 3H, CH2NHCO and CH2aODMTr),
for 13C, and 121.49 for 31P. The chemical shifts are ex-
3
1
3.01 (d, 1H, CH2bODMTr), 2.62 (t, 2H, CH2NH2, JH–H
=
pressed in ppm using TMS as internal standard (for H and
6.6 Hz), 1.57 (m, 2H, CH2CH2CH2), 1.12 (s, 3H, CH3a),
1.02 (s, 3H, CH3b). 13C NMR (75.45 MHz, CDCl3, ppm) δ:
172.4 (CONH), 158.6 (COCH3), 144.1–113.4 (7C, DMTr),
86.4 (OCDMTr), 77.1 (CHOH), 70.8 (CH2ODMTr), 55.2
(OCH3), 39.3 (CH2NH2), 39.0 (C(CH3)2), 36.4 (CH2NHCO),
33.0 (CH2CH2CH2), 22.0 (CH3a), 20.9 (CH3b).
13C NMR data) and 85% H3PO4 as external standard for
31P NMR data. Mass spectra (MALDI-Q-TOF, negative
mode) were recorded on a Waters Ultima spectrometer. A
special preparation technique was designed to analyse the
TPY-modified oligonucleotides. The stainless steel target
was first covered with a thin layer of matrix (0.5 µL of
2,4,6-trihydroxyacetophenone (THAP), 10 mg/mL in ace-
tone) and this layer was washed with a saturated EDTA solu-
tion (2 × 1 µL) and water (2 × 1 µL). The oligonucleotides
(0.5 µL of a 20 µmol/L solution in water) were then depos-
ited on this matrix layer and allowed to dry. The final prepa-
ration step was the application of a second layer of matrix
(0.5 µL of a 1:1 solution of THAP (30 mg/mL in ethanol)
and 100 mmol/L aqueous ammonium citrate) that was al-
lowed to dry at room temperature.
Compound 5
4 was carefully dried by three co-evaporations with
pyridine and then dissolved in anhydrous pyridine. The NHS
ester 9 was added and the solution stirred at RT and moni-
tored by TLC. The reaction medium was evaporated and
purified by chromatography over aluminum oxide with a
gradient of ethyl acetate in hexane (50%–80%) in the pres-
1
ence of 0.25% triethylamine (1.35 g, yield 82%). H NMR
3
(300 MHz, CDCl3, ppm) δ: 8.68 (ddd, 2H, Jortho = 4.8 Hz,
5
4Jmeta = 1.8 Hz, and Jpara = 0.9 Hz, H6 and H6′′), 8.62 (ddd,
Chemical synthesis
3
4
5
2H, Jortho = 7.5 Hz, Jmeta = 1.0 Hz and Jpara = 0.9 Hz, H3
and H3′′ ), 8.02 (s, 2H, H3′ and H5′), 7.85 (ddd, 2H,
Compound 3
3Jortho = 7.8 Hz, Jortho = 7.5 Hz, and Jmeta = 1.5 Hz, H4 and
3
4
A solution of (R)-(–)-pantolactone (1 g, 7.68 mmol) and
1,3-diaminopropan (1.67 mL, 38.42 mmol) in 6 mL EtOH
was kept at 55 °C for 48 h, to which was added 13.7 mL
(115.3 mmol) of ethyl trifluoroacetate. The mixture was kept
at room temperature overnight, evaporated, then co-evaporated
with toluene and dry pyridine. The residue was dissolved in
dry pyridine (40 mL), cooled in an ice bath, and 4,4′-
dimethoxytrityl chloride (2.86 g, 8.45 mmol) was slowly
added. The reaction was stopped after 2 h by the addition of
0.5 mL of water and then diluted with 200 mL of CHCl3.
The organic phase was washed with 2.5% NaHCO3 (3 ×
60 mL), water (2 × 60 mL), and 20% NaCl (60 mL), then
dried (MgSO4). The residue was purified by flash chroma-
tography using a stepwise gradient of EtOAC (0%–15%) in
CH2Cl2–Et3N (0.25%) to yield 3 as a colorless oil (3.14 g,
H4′′ ), 7.41–6.85 (m, 15H, HDMTr, H5 and H5′), 6.64 (t, 1H,
3
3JH–H = 6 Hz, NHCO), 6.52 (t, 1H, JH–H = 5.7 Hz, NHCO),
3
4.29 (t, 2H, JH–H = 5.9 Hz, CH2CH2O), 4.09 (s, 1H,
CHOH), 3.80 (s, 6H, CH3O), 3.19 (m, 5H, CH2NHCO and
CH2aODMTr), 3.02 (d, 1H, CH2bODMTr), 2.45 (t, 2H,
3JH–H = 7.2 Hz, CH2CO), 2.22 (m, 2H, NHCH2CH2CH2NH),
1.50 (m, 2H, CH2CH2CH2), 1.07 (s, 3H, CH3a), 1.00 (s, 3H,
CH3b). 13C NMR (75.45 MHz, CDCl3, ppm) δ: 172.8
(CONH), 172.2 (CONH), 166.9 (C4′), 158.5 (COCH3),
156.9 (C2′, C6′), 155.9 (C2,C2′′ ), 148.9 (C6, C6′′ ), 144.3–
113.2 (12C, DMTr), 136.6 (C4, C4′′ ), 123.7 (C5, C5′′ ),
121.2 (C3, C3′′ ), 107.4 (C3′, C5′), 86.4 (OCDMTr), 77.3
(CHOH), 70.8 (CH2ODMTr), 66.2 (OCH2), 55.2 (OCH3),
38.8 (C(CH3)2), 35.8 (CH2NHCO) 35.6 (CH2NHCO), 32.8
(OCH2CH2CH2CONH), 29.6 (NHCH2CH2CH2NH), 25.1
(NHCH2CH2CH2O), 22.0 (CH3a), 20.9 (CH3b). MS (FAB–)
calcd.: 823.97; found: 822 (M – H)–.
1
68%). H NMR (300 MHz, CDCl3, ppm) δ: 8.03 (t, 1H,
NHCOCF3), 7.36–6.82 (m, 13H, HDMTr), 6.66 (t, 1H,
3
NHCOCH(OH), JNH−CH = 6 Hz), 4.07 (s, 1H, CHOH),
3.77 (s, 6H, OCH3), 3.272(m, 2H, CH2NHCOCF3), 3.16 (m,
3H, CH2NHCO and CH2aODMTr), 3.01 (d, 1H,
CH2bODMTr), 1.57 (m, 2H, CH2CH2CH2), 1.12 (s, 3H,
CH3a), 1.02 (s, 3H, CH3b). 13C NMR (75.45 MHz, CDCl3,
ppm) δ: 173.8 (CONH), 158.7 (COCH3), 157.5 (q, COCF3,
2JC–F = 36.5 Hz), 144.1–113.4 (7C, DMTr), 116.0 (q,
COCF3, 1JC–F = 285.9 Hz), 86.8 (OCDMTr), 77.8 (CHOH),
71.2 (CH2ODMTr), 55.3 (OCH3), 38.9 (C(CH3)2), 36.0
Compound 6
5 (1 g, 1.2 mmol) was dissolved in anhydr. CH2Cl2
(10 mL). Diisopropylethylamine (520 µL, 3 mmol) and
2-cyanoethyl diisopropylchlorophosphoramidite (1.8 mmol,
430 mg) were then added to the previous solution. The reac-
tion was stopped after 1 h at RT with 500 mL of CH3OH
and diluted with 100 mL of EtOAc, washed with 2.5%
© 2006 NRC Canada