1403-66-3 Purity
95%
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Specification
A protocol for the synthesis of 2-N-carbamoylguanine (cmG)-incorporated oligodeoxynucleotides (ODNs) is reported. The 6-O-unprotected 2-N-carbamoyldeoxyguanosine 3'-phosphoramidite derivatives were synthesized from 2'-deoxyguanosine in only three separate steps. However, the 6-O-unprotected cmG residue was found to react with the phenoxyacetic anhydride used in the capping reaction. Here, the use of the 6-O-protected phosphoramidite derivative could inhibit the reaction with phenoxyacetic anhydride, while more chemical steps are required.
· Synthesis of ODN using phosphoramidite 2
We successfully synthesized ODN1, 5'-d(TACTA[cmG]CTCAT)-3', by employing 2-N-carbamoyl guanine phosphoramidite (2) on an automated DNA synthesizer. The chain elongation process included the following steps: (i) detritylation, (ii) coupling, (iii) capping with phenoxyacetic anhydride (Pac2O), and (iv) iodine oxidation. After completing the final chain elongation, the ODN, which retained the terminal DMTr group, was released from the solid support by treatment with aqueous ammonia, and the base- and phosphate-protecting groups were also removed in this solution.
· Side reaction of the 2-N-carbmoyl guanine moiety resulting from acylated regents
Next, the reactivity of Pac2O with the carbamoyl group was explored at the nucleoside level. The 3',5'-O-disilylated 2-N-carbamoyl guanine derivative 6 was subjected to treatment with 4.0 equivalents of phenoxyacetic anhydride in pyridine.
They designed and characterised two new photolabile natural nucleosides: 6-[(1-oxidopyridin-2-yl)sulfanyl]- (1a) and 6-[(pyridin-2-yl)sulfanyl]-2',6-dideoxyguanosine (2a). End-capping in the solid phase oligonucleotide synthesis was accomplished by phenoxyacetic anhydride ((Pac)2O).
Solid-Phase Synthesis of Oligonucleotides
· Oligonucleotides of 3-, 5-, 9- and 15-mers were synthesized to 1-mmol scale using phosphoramidite chemistry in an automated nucleic acid synthesis machine. Because the modifying nucleosides are very unstable in alkaline deprotection, an amino functional of the nucleobases was replaced by a Pac-protection system.
· Following standard protocols, the synthesis was performed on controlled-pore-glass (CPG) support, with three key modifications: First, the coupling time for the modified nucleoside phosphoramidite was increased to 5 minutes, as opposed to the usual 30 seconds for regular nucleosides. Furthermore, a phenoxyacetic anhydride ((Pac)2O) solution in THF was utilized for the capping step to avoid potential transacylation reactions. The oxidation step followed, using a 20-mM iodine (I2) solution to mitigate any oxidative degradation of the modified nucleosides during solid-phase assembly.
· After the synthesis was completed, the base-labile protective groups from the oligodeoxyribonucleotides were removed by treating them with concentrated aqueous ammonia (32%) at room temperature for 4 hours. Solvents were subsequently evaporated under vacuum, and the resulting crude oligomers were purified using reverse-phase HPLC.
The molecular formula of Phenoxyacetic anhydride is C16H14O5.
The synonyms of Phenoxyacetic anhydride include 2-Phenoxyacetic anhydride, Acetic acid, phenoxy-, anhydride, (2-phenoxyacetyl) 2-phenoxyacetate, NSC 259934, PHENOXYACETICANHYDRIDE, Phenoxyacetc anhydrde, SCHEMBL264346, 2-phenoxyacetyl 2-phenoxyacetate, DTXSID30312648, MFCD00059681, NSC259934, AKOS016009546, NSC-259934, AS-58486, Phenoxyacetic anhydride, >=97.0% (T), CS-0020049, FT-0742969, P0111, D91899, A855328, J-007754, J-523929.
The CAS number of Phenoxyacetic anhydride is 14316-61-1.
The IUPAC Name of Phenoxyacetic anhydride is (2-phenoxyacetyl) 2-phenoxyacetate.
The InChI of Phenoxyacetic anhydride is InChI=1S/C16H14O5/c17-15(11-19-13-7-3-1-4-8-13)21-16(18)12-20-14-9-5-2-6-10-14/h1-10H,11-12H2.
The InChIKey of Phenoxyacetic anhydride is CCSBNBKMACZDGN-UHFFFAOYSA-N.
The molecular weight of Phenoxyacetic anhydride is 286.28g/mol.
Phenoxyacetic anhydride has 0 hydrogen bond donor counts.
Phenoxyacetic anhydride has 5 hydrogen bond acceptor counts.
Phenoxyacetic anhydride has 8 rotatable bond counts.
Reference: [1] Synthesis, 1981, # 8, p. 616 - 620
Reference: [1] Tetrahedron Letters, 1988, vol. 29, # 34, p. 4249 - 4252
Reference: [1]Journal of the Chemical Society. Perkin transactions I,1989,p. 799 - 805
* For details of the synthesis route, please refer to the original source to ensure accuracy.