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439d

From Proteopedia

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[[Image:439d.gif|left|200px]]
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{{Seed}}
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[[Image:439d.png|left|200px]]
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{{STRUCTURE_439d| PDB=439d | SCENE= }}
{{STRUCTURE_439d| PDB=439d | SCENE= }}
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'''5'-R(*CP*UP*GP*GP*GP*CP*GP*G)-3', 5'-R(*CP*CP*GP*CP*CP*UP*GP*G)-3''''
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===5'-R(*CP*UP*GP*GP*GP*CP*GP*G)-3', 5'-R(*CP*CP*GP*CP*CP*UP*GP*G)-3'===
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==Overview==
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The structure of the RNA duplex r(CUGGGCGG).r(CCGCCUGG) has been determined at 1.6 A resolution and refined to a final R factor of 18.3% (R(free) = 24.1%). The sequence of the RNA fragment resembles domain E of Thermus flavus 5S rRNA. A previously undescribed wobble-like G.C base-pair formation is found. Owing to the observed hydrogen-bond network, it is proposed that the cytosine is protonated at position N3. The unusual base-pair formation is presumably strained by intermolecular interactions. In this context, crystal packing and particular intermolecular contacts may have direct influence on the three-dimensional structure. Furthermore, this structure includes two G.U wobble base pairs in tandem conformation, with the purines forming a so-called 'cross-strand G stack'.
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The line below this paragraph, {{ABSTRACT_PUBMED_11173467}}, adds the Publication Abstract to the page
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(as it appears on PubMed at http://www.pubmed.gov), where 11173467 is the PubMed ID number.
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{{ABSTRACT_PUBMED_11173467}}
==About this Structure==
==About this Structure==
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[[Category: A-rna]]
[[Category: A-rna]]
[[Category: Fragment of 5s rrna]]
[[Category: Fragment of 5s rrna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:17:53 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jul 3 13:19:50 2008''

Revision as of 10:19, 3 July 2008

Image:439d.png

Template:STRUCTURE 439d

5'-R(*CP*UP*GP*GP*GP*CP*GP*G)-3', 5'-R(*CP*CP*GP*CP*CP*UP*GP*G)-3'

Template:ABSTRACT PUBMED 11173467

About this Structure

Full crystallographic information is available from OCA.

Reference

Structure of an RNA duplex with an unusual G.C pair in wobble-like conformation at 1.6 A resolution., Perbandt M, Vallazza M, Lippmann C, Betzel C, Erdmann VA, Acta Crystallogr D Biol Crystallogr. 2001 Feb;57(Pt 2):219-24. PMID:11173467

Page seeded by OCA on Thu Jul 3 13:19:50 2008

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