1z2j
From Proteopedia
(New page: 200px<br /> <applet load="1z2j" size="450" color="white" frame="true" align="right" spinBox="true" caption="1z2j" /> '''Solution structure of the HIV-1 frameshift ...) |
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'''Solution structure of the HIV-1 frameshift inducing element'''<br /> | '''Solution structure of the HIV-1 frameshift inducing element'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Expression of the HIV reverse transcriptase and other essential viral | + | Expression of the HIV reverse transcriptase and other essential viral enzymes requires a -1 translational frameshift. The frameshift event is induced by two highly conserved RNA elements within the HIV-1 mRNA: a UUUUUUA heptamer known as the slippery sequence, and a downstream RNA structure. Here, we report structural and thermodynamic evidence that the HIV-1 frameshift site RNA forms a stem-loop and lower helix separated by a three-purine bulge. We have determined the structure of the 45 nucleotide frameshift site RNA using multidimensional heteronuclear nuclear magnetic resonance (NMR) methods. The upper helix is highly thermostable (T(m)>90 degrees C), forming 11 Watson-Crick base-pairs capped by a stable ACAA tetraloop. The eight base-pair lower helix was found to be only moderately stable (T(m)=47 degrees C). A three-purine bulge separates the highly stable upper helix from the lower helix. Base stacking in the bulge forms a wedge, introducing a 60 degrees bend between the helices. Interestingly, this bend is similar to those seen in a number of frameshift inducing pseudoknots for which structures have been solved. The lower helix must denature to allow the ribosome access to the slippery site, but likely functions as a positioning element that enhances frameshift efficiency. |
==About this Structure== | ==About this Structure== | ||
| - | 1Z2J is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1Z2J is a [http://en.wikipedia.org/wiki/Protein_complex 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=1Z2J OCA]. |
==Reference== | ==Reference== | ||
Solution structure and thermodynamic investigation of the HIV-1 frameshift inducing element., Staple DW, Butcher SE, J Mol Biol. 2005 Jun 24;349(5):1011-23. Epub 2005 Apr 1. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15927637 15927637] | Solution structure and thermodynamic investigation of the HIV-1 frameshift inducing element., Staple DW, Butcher SE, J Mol Biol. 2005 Jun 24;349(5):1011-23. Epub 2005 Apr 1. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15927637 15927637] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Butcher, S | + | [[Category: Butcher, S E.]] |
| - | [[Category: Staple, D | + | [[Category: Staple, D W.]] |
[[Category: purine bulge]] | [[Category: purine bulge]] | ||
[[Category: stem-loop]] | [[Category: stem-loop]] | ||
[[Category: tetraloop]] | [[Category: tetraloop]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:11:29 2008'' |
Revision as of 14:11, 21 February 2008
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Solution structure of the HIV-1 frameshift inducing element
Overview
Expression of the HIV reverse transcriptase and other essential viral enzymes requires a -1 translational frameshift. The frameshift event is induced by two highly conserved RNA elements within the HIV-1 mRNA: a UUUUUUA heptamer known as the slippery sequence, and a downstream RNA structure. Here, we report structural and thermodynamic evidence that the HIV-1 frameshift site RNA forms a stem-loop and lower helix separated by a three-purine bulge. We have determined the structure of the 45 nucleotide frameshift site RNA using multidimensional heteronuclear nuclear magnetic resonance (NMR) methods. The upper helix is highly thermostable (T(m)>90 degrees C), forming 11 Watson-Crick base-pairs capped by a stable ACAA tetraloop. The eight base-pair lower helix was found to be only moderately stable (T(m)=47 degrees C). A three-purine bulge separates the highly stable upper helix from the lower helix. Base stacking in the bulge forms a wedge, introducing a 60 degrees bend between the helices. Interestingly, this bend is similar to those seen in a number of frameshift inducing pseudoknots for which structures have been solved. The lower helix must denature to allow the ribosome access to the slippery site, but likely functions as a positioning element that enhances frameshift efficiency.
About this Structure
1Z2J is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Solution structure and thermodynamic investigation of the HIV-1 frameshift inducing element., Staple DW, Butcher SE, J Mol Biol. 2005 Jun 24;349(5):1011-23. Epub 2005 Apr 1. PMID:15927637
Page seeded by OCA on Thu Feb 21 16:11:29 2008
