1Z2J
Solution structure of the HIV-1 frameshift inducing element
Summary for 1Z2J
| Entry DOI | 10.2210/pdb1z2j/pdb |
| Related | 1PJY |
| NMR Information | BMRB: 6543 |
| Descriptor | HIV-1 frameshift site RNA (1 entity in total) |
| Functional Keywords | stem-loop, purine bulge, tetraloop, rna |
| Total number of polymer chains | 1 |
| Total formula weight | 14519.71 |
| Authors | Staple, D.W.,Butcher, S.E. (deposition date: 2005-03-08, release date: 2005-06-14, Last modification date: 2024-05-22) |
| Primary citation | Staple, D.W.,Butcher, S.E. Solution Structure and Thermodynamic Investigation of the HIV-1 Frameshift Inducing Element. J.Mol.Biol., 349:1011-1023, 2005 Cited by PubMed Abstract: 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. PubMed: 15927637DOI: 10.1016/j.jmb.2005.03.038 PDB entries with the same primary citation |
| Experimental method | SOLUTION NMR |
Structure validation
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