1pjy

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|PDB= 1pjy |SIZE=350|CAPTION= <scene name='initialview01'>1pjy</scene>
|PDB= 1pjy |SIZE=350|CAPTION= <scene name='initialview01'>1pjy</scene>
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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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|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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[[Category: tetraloop]]
[[Category: tetraloop]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 13:25:24 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:00:44 2008''

Revision as of 20:00, 30 March 2008

Image:1pjy.gif


PDB ID 1pjy

Drag the structure with the mouse to rotate
Ligands: , , ,
Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



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


Overview

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.

About this Structure

1PJY is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.

Reference

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

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