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| | {{STRUCTURE_1g3a| PDB=1g3a | SCENE= }} | | {{STRUCTURE_1g3a| PDB=1g3a | SCENE= }} |
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| - | '''STRUCTURE OF RNA DUPLEXES (CIGCGICG)2'''
| + | ===STRUCTURE OF RNA DUPLEXES (CIGCGICG)2=== |
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| - | ==Overview==
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| - | Isoguanosine (iG) and isocytidine (iC) differ from guanosine (G) and cytidine (C), respectively, in that the amino and carbonyl groups are transposed. The thermodynamic properties of a set of iG, iC containing RNA duplexes have been measured by UV optical melting. It is found that iG-iC replacements usually stabilize duplexes, and the stabilization per iG-iC pair is sequence-dependent. The sequence dependence can be fit to a nearest-neighbor model in which the stabilities of iG--iC pairs depend on the adjacent iG--iC or G--C pairs. For 5'-CG-3'/3'-GC-5' and 5'-GG-3'/3'-CC-5' nearest neighbors, the free energy differences upon iG-iC replacement are smaller than 0.2 kcal/mol at 37 degrees C, regardless of the number of replacements. For 5'-GC-3'/3'-CG-5', however, each iG--iC replacement adds 0.6 kcal/mol stabilizing free energy at 37 degrees C. Stacking propensities of iG and iC as unpaired nucleotides at the end of a duplex are similar to those of G and C. An NMR structure is reported for r(CiGCGiCG)(2) and found to belong to the A-form family. The structure has substantial deviations from standard A-form but is similar to published NMR and/or crystal structures for r(CGCGCG)(2) and 2'-O-methyl (CGCGCG)(2). These results provide benchmarks for theoretical calculations aimed at understanding the fundamental physical basis for the thermodynamic stabilities of nucleic acid duplexes.
| + | The line below this paragraph, {{ABSTRACT_PUBMED_11456697}}, adds the Publication Abstract to the page |
| | + | (as it appears on PubMed at http://www.pubmed.gov), where 11456697 is the PubMed ID number. |
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| | + | {{ABSTRACT_PUBMED_11456697}} |
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| | ==About this Structure== | | ==About this Structure== |
| - | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G3A OCA]. | + | Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G3A OCA]. |
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| | ==Reference== | | ==Reference== |
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| | [[Category: Turner, D H.]] | | [[Category: Turner, D H.]] |
| | [[Category: Double helix]] | | [[Category: Double helix]] |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 17:05:03 2008'' | + | |
| | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 04:21:03 2008'' |
Revision as of 01:21, 1 July 2008
Template:STRUCTURE 1g3a
STRUCTURE OF RNA DUPLEXES (CIGCGICG)2
Template:ABSTRACT PUBMED 11456697
About this Structure
Full experimental information is available from OCA.
Reference
Stability and structure of RNA duplexes containing isoguanosine and isocytidine., Chen X, Kierzek R, Turner DH, J Am Chem Soc. 2001 Feb 21;123(7):1267-74. PMID:11456697
Page seeded by OCA on Tue Jul 1 04:21:03 2008
