1pjy

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[[Image:1pjy.gif|left|200px]]
 
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{{Structure
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==Solution structure of the HIV-1 frameshift inducing stem-loop RNA==
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|PDB= 1pjy |SIZE=350|CAPTION= <scene name='initialview01'>1pjy</scene>
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<StructureSection load='1pjy' size='340' side='right'caption='[[1pjy]]' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
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<table><tr><td colspan='2'>[[1pjy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PJY FirstGlance]. <br>
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|ACTIVITY=
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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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|GENE=
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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=1pjy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pjy OCA], [https://pdbe.org/1pjy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pjy RCSB], [https://www.ebi.ac.uk/pdbsum/1pjy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pjy ProSAT]</span></td></tr>
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|DOMAIN=
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</table>
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|RELATEDENTRY=
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<div style="background-color:#fffaf0;">
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1pjy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pjy OCA], [http://www.ebi.ac.uk/pdbsum/1pjy PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1pjy RCSB]</span>
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== Publication Abstract from PubMed ==
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}}
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'''Solution structure of the HIV-1 frameshift inducing stem-loop RNA'''
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==Overview==
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The translation of reverse transcriptase and other essential viral proteins from the HIV-1 Pol mRNA requires a programmed -1 ribosomal frameshift. This frameshift is induced by two highly conserved elements within the HIV-1 mRNA: a slippery sequence comprised of a UUUUUUA heptamer, and a downstream stem-loop structure. We have determined the structure of the HIV-1 frameshift inducing RNA stem-loop, using multidimensional heteronuclear nuclear magnetic resonance (NMR) methods. The 22 nucleotide RNA solution structure [root mean squared deviation (r.m.s.d.) = 1.2 A] was determined from 475 nuclear Overhauser effect (NOE)-derived distance restrains, 20 residual dipolar couplings and direct detection of hydrogen bonds via scalar couplings. We find that the frameshift inducing stem-loop is an A-form helix capped by a structured ACAA tetraloop. The ACAA tetraloop is stabilized by an equilateral 5' and 3' stacking pattern, a sheared A-A pair and a cross-strand hydrogen bond. Unexpectedly, the ACAA tetraloop structure is nearly identical to a known tetraloop fold, previously identified in the RNase III recognition site from Saccharomyces cerevisiae.
The translation of reverse transcriptase and other essential viral proteins from the HIV-1 Pol mRNA requires a programmed -1 ribosomal frameshift. This frameshift is induced by two highly conserved elements within the HIV-1 mRNA: a slippery sequence comprised of a UUUUUUA heptamer, and a downstream stem-loop structure. We have determined the structure of the HIV-1 frameshift inducing RNA stem-loop, using multidimensional heteronuclear nuclear magnetic resonance (NMR) methods. The 22 nucleotide RNA solution structure [root mean squared deviation (r.m.s.d.) = 1.2 A] was determined from 475 nuclear Overhauser effect (NOE)-derived distance restrains, 20 residual dipolar couplings and direct detection of hydrogen bonds via scalar couplings. We find that the frameshift inducing stem-loop is an A-form helix capped by a structured ACAA tetraloop. The ACAA tetraloop is stabilized by an equilateral 5' and 3' stacking pattern, a sheared A-A pair and a cross-strand hydrogen bond. Unexpectedly, the ACAA tetraloop structure is nearly identical to a known tetraloop fold, previously identified in the RNase III recognition site from Saccharomyces cerevisiae.
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==About this Structure==
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Solution structure of the HIV-1 frameshift inducing stem-loop RNA.,Staple DW, Butcher SE Nucleic Acids Res. 2003 Aug 1;31(15):4326-31. PMID:12888491<ref>PMID:12888491</ref>
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1PJY 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=1PJY OCA].
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==Reference==
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Solution structure of the HIV-1 frameshift inducing stem-loop RNA., Staple DW, Butcher SE, Nucleic Acids Res. 2003 Aug 1;31(15):4326-31. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12888491 12888491]
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[[Category: Protein complex]]
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[[Category: Butcher, S E.]]
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[[Category: Staple, D W.]]
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[[Category: frameshift]]
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[[Category: hiv]]
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[[Category: nmr]]
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[[Category: rna structure]]
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[[Category: tetraloop]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:00:44 2008''
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1pjy" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Butcher SE]]
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[[Category: Staple DW]]

Current revision

Solution structure of the HIV-1 frameshift inducing stem-loop RNA

PDB ID 1pjy

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