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1efo
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(New page: 200px<br /><applet load="1efo" size="450" color="white" frame="true" align="right" spinBox="true" caption="1efo, resolution 2.30Å" /> '''CRYSTAL STRUCTURE OF...)
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Revision as of 20:03, 24 November 2007
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CRYSTAL STRUCTURE OF AN ADENINE BULGE IN THE RNA CHAIN OF A DNA/RNA HYBRID, D(CTCCTCTTC)/R(GAAGAGAGAG)
Overview
Crystal structure of a DNA.RNA hybrid, d(CTCCTCTTC).r(gaagagagag), with an, adenine bulge in the polypurine RNA strand was determined at 2.3 A, resolution. The structure was solved by the molecular replacement method, and refined to a final R-factor of 19.9% (Rfree 22.2%). The hybrid duplex, crystallized in the space group I222 with unit cell dimensions, a = 46.66, A, b = 47.61 A and c = 54.05 A, and adopts the A-form conformation. All, RNA and DNA sugars are in the C3'-endo conformation, the glycosyl angles, in anti conformation and the majority of the C4'-C5' torsion angles in g+, except two trans angles, in conformity with the C3'-endo rigid nucleotide, hypothesis. The adenine bulge is looped out and it is also in the anti, C3'-endo conformation. The bulge is involved in a base-triple (C.g)*a, interaction with the end base-pair (C9.g10) in the minor groove of a, symmetry-related molecule. The 2' hydroxyl group of g15 is hydrogen bonded, to O2P and O5' of g17, skipping the bulged adenine a16 and stabilizing the, sugar-phosphate backbone of the hybrid. The hydrogen bonding and the, backbone conformation at the bulged adenine site is very similar to that, found in the crystal structure of a protein-RNA complex.
About this Structure
1EFO is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Crystal structure of an adenine bulge in the RNA chain of a DNA.RNA hybrid, d(CTCCTCTTC).r(gaagagagag)., Sudarsanakumar C, Xiong Y, Sundaralingam M, J Mol Biol. 2000 May 26;299(1):103-12. PMID:10860725
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