1. α‐d‐2′‐Deoxyadenosine, an irradiation product of canonical DNA and a component of anomeric nucleic acids: crystal structure, packing and Hirshfeld surface analysis.
- Author
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Leonard, Peter, Zhang, Aigui, Budow-Busse, Simone, Daniliuc, Constantin, and Seela, Frank
- Subjects
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SURFACE analysis , *CRYSTAL structure , *DNA , *HYDROGEN bonding , *BASE pairs - Abstract
α‐d‐2′‐Deoxyribonucleosides are products of the γ‐irradiation of DNA under oxygen‐free conditions and are constituents of anomeric DNA. They are not found as natural building blocks of canonical DNA. Reports on their conformational properties are limited. Herein, the single‐crystal X‐ray structure of α‐d‐2′‐deoxyadenosine (α‐dA), C10H13N5O3, and its conformational parameters were determined. In the crystalline state, α‐dA forms two conformers in the asymmetric unit which are connected by hydrogen bonds. The sugar moiety of each conformer is arranged in a 'clamp'‐like fashion with respect to the other conformer, forming hydrogen bonds to its nucleobase and sugar residue. For both conformers, a syn conformation of the nucleobase with respect to the sugar moiety was found. This is contrary to the anti conformation usually preferred by α‐nucleosides. The sugar conformation of both conformers is C2′‐endo, and the 5′‐hydroxyl groups are in a +sc orientation, probably due to the hydrogen bonds formed by the conformers. The formation of the supramolecular assembly of α‐dA is controlled by hydrogen bonding and stacking interactions, which was verified by a Hirshfeld and curvedness surface analysis. Chains of hydrogen‐bonded nucleobases extend parallel to the b direction and are linked to equivalent chains by hydrogen bonds involving the sugar moieties to form a sheet. A comparison of the solid‐state structures of the anomeric 2′‐deoxyadenosines revealed significant differences of their conformational parameters. [ABSTRACT FROM AUTHOR]
- Published
- 2024
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