1z2j

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(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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[[Image:1z2j.gif|left|200px]]<br />
 
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<applet load="1z2j" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1z2j" />
 
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'''Solution structure of the HIV-1 frameshift inducing element'''<br />
 
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==Overview==
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==Solution structure of the HIV-1 frameshift inducing element==
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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)&gt;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.
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<StructureSection load='1z2j' size='340' side='right'caption='[[1z2j]]' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1z2j]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z2J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Z2J FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1z2j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z2j OCA], [https://pdbe.org/1z2j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1z2j RCSB], [https://www.ebi.ac.uk/pdbsum/1z2j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1z2j ProSAT]</span></td></tr>
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</table>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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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)&gt;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.
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==About this Structure==
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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<ref>PMID:15927637</ref>
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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://ispc.weizmann.ac.il/oca-bin/ocashort?id=1Z2J OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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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]
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</div>
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[[Category: Protein complex]]
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<div class="pdbe-citations 1z2j" style="background-color:#fffaf0;"></div>
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[[Category: Butcher, S.E.]]
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== References ==
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[[Category: Staple, D.W.]]
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<references/>
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[[Category: purine bulge]]
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__TOC__
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[[Category: stem-loop]]
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</StructureSection>
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[[Category: tetraloop]]
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[[Category: Human immunodeficiency virus 1]]
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[[Category: Large Structures]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Thu Nov 8 14:37:58 2007''
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[[Category: Butcher SE]]
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[[Category: Staple DW]]

Current revision

Solution structure of the HIV-1 frameshift inducing element

PDB ID 1z2j

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