Journal article
Thermodynamics of RNA Internal Loops with a Guanosine-Guanosine Pair Adjacent to Another Noncanonical Pair
Biochemistry (Easton), Vol.40(8), pp.2478-2483
02/27/2001
DOI: 10.1021/bi0012181
PMID: 11327869
Abstract
Thermodynamic parameters measured by optical melting are reported for formation of RNA duplexes containing tandem noncanonical pairs with at least one guanosine-guanosine (GG) pair. For selected sequences, imino proton NMR provides evidence that the desired duplex forms and that the structure of a GG pair adjacent to a noncanonical pair depends on context. A GG pair next to a different noncanonical pair is more stable than expected from measurements of adjacent GG pairs. This is likely due to an unfavorable stacking interaction between adjacent GG pairs, where areas of high negative charge probably overlap. The results suggest a model where tandem noncanonical pairs closed by two GC pairs are assigned the following free energy increments at 37 °C: 0.8 kcal/mol for adjacent GG pairs, 1.0 kcal/mol for GG next to UU, and −0.3 kcal/mol for all others. These values are adjusted by 0.65 kcal/mol for each closing AU pair.
Details
- Title: Subtitle
- Thermodynamics of RNA Internal Loops with a Guanosine-Guanosine Pair Adjacent to Another Noncanonical Pair
- Creators
- Mark E. Burkard - University of RochesterTianbing Xia - University of RochesterDouglas H. Turner - University of Rochester
- Resource Type
- Journal article
- Publication Details
- Biochemistry (Easton), Vol.40(8), pp.2478-2483
- Publisher
- American Chemical Society
- DOI
- 10.1021/bi0012181
- PMID
- 11327869
- ISSN
- 0006-2960
- eISSN
- 1520-4995
- Number of pages
- 6
- Language
- English
- Date published
- 02/27/2001
- Academic Unit
- Internal Medicine
- Record Identifier
- 9984701257902771
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