Summary information and primary citation
- PDB-id
- 1bn0; DSSR-derived features in text and JSON formats
- Class
- RNA
- Method
- NMR
- Summary
- Sl3 hairpin from the packaging signal of hiv-1, NMR, 11 structures
- Reference
- Pappalardo L, Kerwood DJ, Pelczer I, Borer PN (1998): "Three-dimensional folding of an RNA hairpin required for packaging HIV-1." J.Mol.Biol., 282, 801-818. doi: 10.1006/jmbi.1998.2046.
- Abstract
- An NMR-based structure is presented for a 20 mer hairpin model of the SL3 stem-loop from the HIV-1 packaging signal. The stem has an A-family structure. However, the GGAG tetraloop appears to be flexible with the second (G10) and fourth (G12) bases extruded from the normal stacking arrangement. The A-base (A11) occupies a cavity large enough for it to jump rapidly between stacking upon G9 (in the loop) and G13 (from the base-pair adjacent to the loop). The H-bonding loci of G10, A11, and G12 are unoccupied in the free RNA structure. The loop should be easily adaptable to binding by the HIV-1 nucleocapsid protein or loop receptors.
