1efo
From Proteopedia
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'''CRYSTAL STRUCTURE OF AN ADENINE BULGE IN THE RNA CHAIN OF A DNA/RNA HYBRID, D(CTCCTCTTC)/R(GAAGAGAGAG)''' | '''CRYSTAL STRUCTURE OF AN ADENINE BULGE IN THE RNA CHAIN OF A DNA/RNA HYBRID, D(CTCCTCTTC)/R(GAAGAGAGAG)''' | ||
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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=1EFO OCA]. | |
==Reference== | ==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:[http://www.ncbi.nlm.nih.gov/pubmed/10860725 10860725] | 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:[http://www.ncbi.nlm.nih.gov/pubmed/10860725 10860725] | ||
| - | [[Category: Protein complex]] | ||
[[Category: Sudarsanakumar, C.]] | [[Category: Sudarsanakumar, C.]] | ||
[[Category: Sundaralingam, M.]] | [[Category: Sundaralingam, M.]] | ||
[[Category: Xiong, Y.]] | [[Category: Xiong, Y.]] | ||
| - | [[Category: | + | [[Category: A-form conformation]] |
| - | [[Category: | + | [[Category: Adenine bulge]] |
| - | [[Category: | + | [[Category: Hybrid]] |
| - | [[Category: | + | [[Category: Looped out]] |
| - | [[Category: | + | [[Category: X-ray structure]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 15:02:20 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 12:02, 2 May 2008
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
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 Page seeded by OCA on Fri May 2 15:02:20 2008
