439d: Difference between revisions
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[[Image:439d.gif|left|200px]] | [[Image:439d.gif|left|200px]] | ||
'''5'-R(*CP*UP*GP*GP*GP*CP*GP*G)-3', 5'-R(*CP*CP*GP*CP*CP*UP*GP*G)-3'''' | {{Structure | ||
|PDB= 439d |SIZE=350|CAPTION= <scene name='initialview01'>439d</scene>, resolution 1.6Å | |||
|SITE= | |||
|LIGAND= <scene name='pdbligand=BA:BARIUM ION'>BA</scene> | |||
|ACTIVITY= | |||
|GENE= | |||
}} | |||
'''5'-R(*CP*UP*GP*GP*GP*CP*GP*G)-3', 5'-R(*CP*CP*GP*CP*CP*UP*GP*G)-3'''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
439D is a [ | 439D is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=439D OCA]. | ||
==Reference== | ==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:[http:// | 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:[http://www.ncbi.nlm.nih.gov/pubmed/11173467 11173467] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Betzel, C.]] | [[Category: Betzel, C.]] | ||
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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 Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 19:08:22 2008'' | ||
Revision as of 17:08, 20 March 2008
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| 439d, resolution 1.6Å | |||||||||||||
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| Ligands: | BA | ||||||||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||||||||
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]. 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
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