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439d
From Proteopedia
(New page: 200px<br /><applet load="439d" size="350" color="white" frame="true" align="right" spinBox="true" caption="439d, resolution 1.6Å" /> '''5'-R(*CP*UP*GP*GP*GP*...) |
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==Overview== | ==Overview== | ||
| - | The structure of the RNA duplex r(CUGGGCGG).r(CCGCCUGG) has been | + | 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'. |
==About this Structure== | ==About this Structure== | ||
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[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Betzel, C.]] | [[Category: Betzel, C.]] | ||
| - | [[Category: Erdmann, V | + | [[Category: Erdmann, V A.]] |
[[Category: Lorenz, S.]] | [[Category: Lorenz, S.]] | ||
[[Category: Perbandt, M.]] | [[Category: Perbandt, M.]] | ||
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[[Category: fragment of 5s rrna]] | [[Category: fragment of 5s rrna]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 19:12:15 2008'' |
Revision as of 17:12, 21 February 2008
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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'
Overview
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'.
About this Structure
439D is a Protein complex structure of sequences from [1] with as ligand. 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 Feb 21 19:12:15 2008
