along with 500 mL of benzylmercaptotetrazole in CH3CN
(0.3 M). The mixture was allowed to react for 15 min at RT with
mixing between two syringes. This procedure was repeated with
a second portion of each of a new solution of phosphoramidite
and benzylmercaptotetrazole. The CPG was washed with
CH3CN (5 ¥ 2 ml), oxidizer (700 mL, 0.1 M iodine solution in
THF : pyridine : water; 78 : 20 : 2) and CH3CN (2 ¥ 5 mL) and
dried yielding CPG–RNA–alkynes 8, 11 and 14. Cleavage from
the resin proceeded by the method described below furnishing
samples of 9, 12 and 15 respectively.
and cleavage from the resin (NH4OH), HPLC analysis indicated
almost quantitative conversion to the isoxazole–nucleotide conju-
gate 5a.
Procedure for naphthalene-1-nitrile oxide click reaction on
CPG-alkyne 1b and 11
To solid supported alkynes 1b or 11 and (0.5 mM) in an
eppendorf tube was added a premixed solution (10 min) of
1-naphthylaldehyde oxime22 (45 mg) and chloramine-T mono-
hydrate (59 mg) in ethanol (500 mL) and water (500 mL). The
mixture was agitated at room temperature for 4 h. Following
settling the supernatant liquid was removed by syringe and the
CPG washed firstly with CH3CN (5 ¥ 300 mL) and then H2O (5 ¥
300 mL). Cleavage from the CPG and HPLC analysis followed by
the procedures described above.
General cleavage–deprotection procedure
For analytical purposes a portion of the RNA or nucleoside
was deprotected and cleaved from the CPG by incubating the
◦
supported material in 40% aqueous CH3NH2 (500 mL) at 65 C
for 30 min or in the case of NBz-cytidine with conc. aqueous NH3,
ethanol 3 : 1 for 24 h at 25 ◦C. The CH3NH2/NH3 was evaporated
using a concentrator. The CPG was washed with H2O (5 ¥ 200 mL
aliquots), all solutions and washings were combined to afford an
aqueous solution of the RNA/nucleoside alkynes or cycloaddition
products.
Procedure for pyrene-1-nitrile oxide click reaction on 1b
To solid supported alkyne 1b (0.2 mM) in an eppendorf tube was
added a solution of 1-phenoxyacetaldehyde oxime23 (16 mg) in
ethanol (900 mL) followed by water (100 mL) and chloramine-T
monohydrate (15 mg). The combined mixture was agitated at
room temperature for 16 h. Workup, cleavage and HPLC analysis
followed by the procedures described above.
General method for HPLC analysis
The ribonucleosides and RNA conjugates were analyzed by
reverse-phase HPLC with an analytical column (Nucleosil) under
the following conditions; 200 mL injection loop. For RNA alkynes
and RNA conjugates buffer A: 0.1 M TEAAc, pH 6.5, 5% (v/v)
MeCN. Buffer B: 0.1 M TEAAc, pH 6.5, 65% (v/v) MeCN).
Gradient; 0–5 min, 5% B; 5–20 min, 95% B; 20–28 min, 95% B, flow
rate: 1.0 mL min-1. For ribonucleoside alkynes and click conjugates
of ribonucleosides the eluant was water and acetonitrile (0–5 min,
5% B; 5–15 min, 95% B, 15–25 min, 100% B, flow rate: 1.0 mL min-1
and detection at 260 nm or absorbance was monitored in the range
220–500 nm with a diode array detector and recorded at 260 nm.
Procedure for phenoxyacetaldehyde-1-nitrile oxide click reaction
on 1b
To solid supported alkyne 1b (0.2 mM) in an eppendorf tube was
added a solution of 1-phenoxyacetaldehydeoxime 6 (15 mg) in
ethanol (400 mL) followed by water (600 mL) and chloramine-T
monohydrate (23 mg). The combined mixture was agitated at
room temperature for 16 h. Workup, cleavage and HPLC analysis
followed by the procedures described above.
Acknowledgements
General procedure for benzonitrile oxide click reactions on CPG–
nucleoside–alkynes/CPG–RNA–alkynes 1a,b, 4a–4c, 8 and 14
We thank C. Batchelor, NUI Maynooth for assistance with
MALDI-TOF mass spectral measurements. Financial support
from the Science Foundation of Ireland (Programme code
05/PICA/B838) is gratefully acknowledged
To solid supported alkynes 1a,b, 4a–4c, 8 and 14 (0.5 mM) in an
eppendorf tube was added a premixed solution of benzaldehyde
oxime (40 mg) and chloramine-T monohydrate (75 mg) which
had been premixed in ethanol (500 mL) and water (500 mL). The
combined mixture was agitated at room temperature for 15 min.
Following settling the supernatant liquid was removed by syringe
and the CPG washed firstly with CH3CN (5 ¥ 300 mL) and then
H2O (5 ¥ 300 mL). Deprotection–cleavage and HPLC analysis
followed by the procedures described above.
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Click on the column-preparation of isoxazole conjugate 5a
The click conjugation on NBz-2¢-O-propargyl cytosine 4a was
performed directly on the column subsequent to the 5¢-DMT
deprotection of the commercial material. The resulting 4a was
reacted for 15 min at room temperature by passing an aqueous
ethanolic, pre-mixed solution of benzaldehyde oxime (40 mg) and
chloramine-T monohydrate (75 mg) between two syringes. This
procedure was repeated with a second, new, portion of pre-mixed
oxime and chloramine-T monohydrate. Following deprotection
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This journal is
The Royal Society of Chemistry 2010
Org. Biomol. Chem., 2010, 8, 451–456 | 455
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