1g3a: Difference between revisions

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[[Image:1g3a.gif|left|200px]]
{{Seed}}
[[Image:1g3a.png|left|200px]]


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{{STRUCTURE_1g3a|  PDB=1g3a  |  SCENE=  }}  
{{STRUCTURE_1g3a|  PDB=1g3a  |  SCENE=  }}  


'''STRUCTURE OF RNA DUPLEXES (CIGCGICG)2'''
===STRUCTURE OF RNA DUPLEXES (CIGCGICG)2===




==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.
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{{ABSTRACT_PUBMED_11456697}}


==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].  


==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

File:1g3a.png

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

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