Bulge-out structures in the single-stranded trimer AUA and in the duplex (CUGGUGCGG).(CCGCCCAG). A model-building and NMR study
| Autor: | Yvonne Th. van den Hoogen, Jacques H. van Boom, Gijs A. van der Marel, Aart A. van Beuzekom, Erik de Vroom, Cornelis Altona |
|---|---|
| Rok vydání: | 1988 |
| Předmět: |
Models
Molecular Base Composition Quantitative Biology::Biomolecules Magnetic Resonance Spectroscopy Molecular model Chemical shift Trimer Nuclear magnetic resonance spectroscopy Biology Crystallography Bulge Duplex (building) Phosphodiester bond Genetics Nucleic Acid Conformation Molecule RNA Double-Stranded |
| Zdroj: | Nucleic Acids Research. 16:5013-5030 |
| ISSN: | 1362-4962 0305-1048 |
| DOI: | 10.1093/nar/16.11.5013 |
| Popis: | Model-building studies were carried out on the trimer AUA. Bulge-out structures which allow incorporation into a continuous RNA helix were generated and energy-minimized. All geometrical features obtained by previous NMR studies on purine-pyrimidine-purine sequences are accounted for in these models. One of the models was used to fit into a double helical fragment. Only minor changes were necessary to construct a central bulge-out in an otherwise intact duplex. NMR and model-building studies were performed on the duplex (CUGGUGCGG).(CCGCCCAG) which contains an unpaired uridine residue. NOE data, chemical-shift profiles and imino-proton resonances provided evidence that the extra U is bulged out of the duplex. The relatively small dispersion in 31P chemical shifts (approximately equal to 0.7 ppm) indicate the absence of t/g or g/t combinations for the phosphodiester angles zeta/alpha. An energy-minimized model of the duplex, which fits the present collection of data, is presented. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|