Single-stranded DNA: Replacement of canonical by base-modified nucleosides in the minihairpin 5 `-d(GCGAAGC)-3 ` and constructs with the aptamer 5 `-d(GGTTGGTGTGGTTGG)-3 `)

Autor(en): Rosemeyer, H 
Mokrosch, V
Jawalekar, A
Becker, EM
Seela, F
Stichwörter: B-DNA; Chemistry; Chemistry, Multidisciplinary; CRYSTAL-STRUCTURE; HAMMERHEAD RIBOZYME; LOOP; MISMATCH; NMR; OLIGONUCLEOTIDES; RECOGNITION; SEQUENCE; STABLE STRUCTURE
Erscheinungsdatum: 2004
Herausgeber: WILEY-V C H VERLAG GMBH
Journal: HELVETICA CHIMICA ACTA
Volumen: 87
Ausgabe: 2
Startseite: 536
Seitenende: 553
Zusammenfassung: 
The minihairpin 5'-d(GCGAAGC)-3'(1) was modified either in the loop region, in the base-paired stem, or at the 5'-terminus by incorporation of base-modified nucleosides. The thermal melting was correlated to the structural changes induced by the various donor-acceptor properties of the nucleosides. Overhanging nonpaired nucleosides at the 5'-terminus stabilized the hairpin, while a reverse of the dG(3) (.) dA(5) sheared base pair to dA(3) (.) dG(5) severely affected the stability. The combination of the minihairpin 5'-d(GCGAAGC)-3' (1) and the thrombin-binding aptamer 5'-d(GGTTGGTGTGGFTGG)-3' (2 (=46)) resulted in the new construct 5'd(GGTTGGGCGAAGCGGTTGG)-3' (43) arising by replacement of the 5'-d(TGT)-3' loop of 2 by the minihairpin. The fused oligonucleotide 43 exhibits a two-phase thermal transition indicating the presence of the two unaltered moieties. According to slight changes of the T-m values of the construct 43 as compared to the separate units 1 and 2, cooperative distorsions are discussed.
ISSN: 0018019X
DOI: 10.1002/hlca.200490051

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