1yfv
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(New page: 200px<br /><applet load="1yfv" size="450" color="white" frame="true" align="right" spinBox="true" caption="1yfv" /> '''STRUCTURE OF (5'-R(GP*GP*CP*GP*AP*GP*CP*C)-3...)
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Revision as of 01:57, 25 November 2007
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STRUCTURE OF (5'-R(GP*GP*CP*GP*AP*GP*CP*C)-3')2 BY 2-D NMR, 1 STRUCTURE
Overview
The duplex (rGGCGAGCC)2 contains tandem G x A mismatches--a common motif, in the secondary structures of biological RNAs. The three-dimensional, structure of (rGGCGAGCC)2 was derived using molecular dynamics and energy, minimization with NMR-derived restraints for 78 interproton distances (per, strand), 18 hydrogen bonds for the six Watson-Crick G x C pairs, and 26, dihedral angles (per strand). The G x A mismatch structures are similar to, those observed in a DNA duplex [Li, Y., Zon, G., & Wilson, W. D. (1991), Proc. Natl. Acad. Sci. U.S.A. 80, 26-30] and an RNA hairpin [Heus, H. A., & Pardi, A. (1991) Science 253, 191-193], with hydrogen bonds from guanine, 2-amino and N3 to adenine N7 and 6-amino, respectively. The other G, 2-amino and A 6-amino protons are within hydrogen-bonding distance of a, phosphate oxygen and 2'-oxygen, respectively. Strong interstrand A-A and, G-G stacking is observed between the G x A mismatches. This contrasts with, the poor stacking observed between the G x A mismatches and closing G x C, base pairs. The stems are basically A-form with all bases in the anti, conformation and all nonterminal sugars in the C3'-endo conformation. The, structure rationalizes previous thermodynamic, circular dichroism, and, imino proton NMR results and suggests tandem G x A mismatches in RNA may, provide a contact site for tertiary interactions.
About this Structure
1YFV is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Structure of (rGGCGAGCC)2 in solution from NMR and restrained molecular dynamics., SantaLucia J Jr, Turner DH, Biochemistry. 1993 Nov 30;32(47):12612-23. PMID:8251479
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