Thermodynamics of single mismatches in RNA duplexes - PubMed (original) (raw)
Comparative Study
. 1999 Oct 26;38(43):14214-23.
doi: 10.1021/bi991186l.
Affiliations
- PMID: 10571995
- DOI: 10.1021/bi991186l
Comparative Study
Thermodynamics of single mismatches in RNA duplexes
R Kierzek et al. Biochemistry. 1999.
Abstract
The thermodynamic properties and structures of single mismatches in short RNA duplexes were studied in optical melting and imino proton NMR experiments. The free energy increments at 37 degrees C measured for non-GU single mismatches range from -2.6 to 1.7 kcal/mol. These increments depend on the identity of the mismatch, adjacent base pairs, and the position in the helix. UU and AA mismatches are more stable close to a helix end, but GG mismatch stability is essentially unaffected by the position in the helix. Approximations are suggested for predicting stabilities of single mismatches in short RNA duplexes.
Similar articles
- Factors affecting the thermodynamic stability of small asymmetric internal loops in RNA.
Schroeder SJ, Turner DH. Schroeder SJ, et al. Biochemistry. 2000 Aug 8;39(31):9257-74. doi: 10.1021/bi000229r. Biochemistry. 2000. PMID: 10924119 - Thermodynamics of RNA internal loops with a guanosine-guanosine pair adjacent to another noncanonical pair.
Burkard ME, Xia T, Turner DH. Burkard ME, et al. Biochemistry. 2001 Feb 27;40(8):2478-83. doi: 10.1021/bi0012181. Biochemistry. 2001. PMID: 11327869 - Thermodynamics-structure relationship of single mismatches in RNA/DNA duplexes.
Sugimoto N, Nakano M, Nakano S. Sugimoto N, et al. Biochemistry. 2000 Sep 19;39(37):11270-81. doi: 10.1021/bi000819p. Biochemistry. 2000. PMID: 10985772 - The G x U wobble base pair. A fundamental building block of RNA structure crucial to RNA function in diverse biological systems.
Varani G, McClain WH. Varani G, et al. EMBO Rep. 2000 Jul;1(1):18-23. doi: 10.1093/embo-reports/kvd001. EMBO Rep. 2000. PMID: 11256617 Free PMC article. Review. - Thermodynamics of base pairing.
Turner DH. Turner DH. Curr Opin Struct Biol. 1996 Jun;6(3):299-304. doi: 10.1016/s0959-440x(96)80047-9. Curr Opin Struct Biol. 1996. PMID: 8804832 Review.
Cited by
- Biphasic folding kinetics of RNA pseudoknots and telomerase RNA activity.
Cao S, Chen SJ. Cao S, et al. J Mol Biol. 2007 Mar 30;367(3):909-24. doi: 10.1016/j.jmb.2007.01.006. Epub 2007 Jan 9. J Mol Biol. 2007. PMID: 17276459 Free PMC article. - A Dual Interaction Between the 5'- and 3'-Ends of the Melon Necrotic Spot Virus (MNSV) RNA Genome Is Required for Efficient Cap-Independent Translation.
Miras M, Rodríguez-Hernández AM, Romero-López C, Berzal-Herranz A, Colchero J, Aranda MA, Truniger V. Miras M, et al. Front Plant Sci. 2018 May 9;9:625. doi: 10.3389/fpls.2018.00625. eCollection 2018. Front Plant Sci. 2018. PMID: 29868081 Free PMC article. - A CA(+) pair adjacent to a sheared GA or AA pair stabilizes size-symmetric RNA internal loops.
Chen G, Kennedy SD, Turner DH. Chen G, et al. Biochemistry. 2009 Jun 23;48(24):5738-52. doi: 10.1021/bi8019405. Biochemistry. 2009. PMID: 19485416 Free PMC article. - Developing an Updated Strategy for Estimating the Free-Energy Parameters in RNA Duplexes.
Dawson WK, Shino A, Kawai G, Morishita EC. Dawson WK, et al. Int J Mol Sci. 2021 Sep 8;22(18):9708. doi: 10.3390/ijms22189708. Int J Mol Sci. 2021. PMID: 34575896 Free PMC article. - The structural basis of myotonic dystrophy from the crystal structure of CUG repeats.
Mooers BH, Logue JS, Berglund JA. Mooers BH, et al. Proc Natl Acad Sci U S A. 2005 Nov 15;102(46):16626-31. doi: 10.1073/pnas.0505873102. Epub 2005 Nov 3. Proc Natl Acad Sci U S A. 2005. PMID: 16269545 Free PMC article.
Publication types
MeSH terms
Substances
LinkOut - more resources
Full Text Sources
Other Literature Sources