| Literature DB >> 25670992 |
Boris Schmidtgall1, Claudia Höbartner2, Christian Ducho1.
Abstract
Modifications of the nucleic acid backbone are essential for the development of oligonucleotide-derived bioactive agents. The NAA-modification represents a novel artificial internucleotide linkage which enables the site-specific introduction of positive charges into the otherwise polyanionic backbone of DNA oligonucleotides. Following initial studies with the introduction of the NAA-linkage at T-T sites, it is now envisioned to prepare NAA-modified oligonucleotides bearing the modification at X-T motifs (X = A, C, G). We have therefore developed the efficient and stereoselective synthesis of NAA-linked 'dimeric' A-T phosphoramidite building blocks for automated DNA synthesis. Both the (S)- and the (R)-configured NAA-motifs were constructed with high diastereoselectivities to furnish two different phosphoramidite reagents, which were employed for the solid phase-supported automated synthesis of two NAA-modified DNA oligonucleotides. This represents a significant step to further establish the NAA-linkage as a useful addition to the existing 'toolbox' of backbone modifications for the design of bioactive oligonucleotide analogues.Entities:
Keywords: DNA; backbone modifications; nucleic acids; oligonucleotides; stereoselective synthesis; zwitterions
Year: 2015 PMID: 25670992 PMCID: PMC4311628 DOI: 10.3762/bjoc.11.8
Source DB: PubMed Journal: Beilstein J Org Chem ISSN: 1860-5397 Impact factor: 2.883
Figure 1Design concept of nucleosyl amino acid (NAA)-modified oligonucleotides 5 formally derived from structures 1–4 (B1, B2 = nucleobases); previously employed 'dimeric' T–T phosphoramidites 6 [38] for the automated synthesis of NAA-modified oligonucleotides; new 'dimeric' A–T phosphoramidites 7 as target structures of this study (DMTr = 4,4'-dimethoxytrityl).
Scheme 1Retrosynthetic analysis of target phosphoramidites (S)-7 and (R)-7 (BOM = benzyloxymethyl).
Scheme 2Synthesis of N-Fmoc-protected thymidine-derived nucleosyl amino acids (S)-9 and (R)-9; details on the reactions from 17 and 18 to 21 (asymmetric hydrogenation and subsequent protecting group manipulations) are given in Table 1.
Reactions from 17 and 18 to 21 (see Scheme 2).
| Asymmetric hydrogenation | Protecting group steps | |||||
| # | Starting | Catalysta | Reaction | Yieldb | Additive | Yieldc |
| 1 | ( | 2 d | 94% ( | 90% ( | ||
| 2 | ( | 7 d | 99% ( | 87% ( | ||
| 3 | ( | 9 d | 93% ( | – | 84% ( | |
| 4 | ( | 21 d | 77% ( | – | 78% ( | |
aHomogeneous chiral hydrogenation catalysts:
bd.r. >98:2 for all products; cover 2 steps from 19 or 20; dpure Z-isomer; eunseparable mixture of Z- and E-isomers (Z/E 91:9).
Scheme 3Synthesis of protected 3'-amino-2',3'-dideoxyadenosine 8.
Scheme 4Synthesis of target phosphoramidites (S)-7 and (R)-7 and of two NAA-modified DNA oligonucleotides 30, 31 (DCI = 4,5-dicyanoimidazole); sites of NAA-modifications in the oligonucleotides are indicated as x (6'S) and y (6'R), all other linkages were native phosphates.