1z2j
From Proteopedia
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|PDB= 1z2j |SIZE=350|CAPTION= <scene name='initialview01'>1z2j</scene> | |PDB= 1z2j |SIZE=350|CAPTION= <scene name='initialview01'>1z2j</scene> | ||
|SITE= | |SITE= | ||
| - | |LIGAND= | + | |LIGAND= <scene name='pdbligand=A:ADENOSINE-5'-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1pjy|1PJY]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1z2j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z2j OCA], [http://www.ebi.ac.uk/pdbsum/1z2j PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1z2j RCSB]</span> | ||
}} | }} | ||
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[[Category: tetraloop]] | [[Category: tetraloop]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:28:12 2008'' |
Revision as of 22:28, 30 March 2008
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| Ligands: | , , , | ||||||
| Related: | 1PJY
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| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
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
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