1BN0

SL3 HAIRPIN FROM THE PACKAGING SIGNAL OF HIV-1, NMR, 11 STRUCTURES

Summary for 1BN0

• Entry DOI: 10.2210/pdb1bn0/pdb
• NMR Information: BMRB: 4175
• Descriptor: SL3 RNA HAIRPIN (1 entity in total)
• Functional Keywords: hiv-1, packaging, rna, tetraloop, ribonucleic acid
• Total number of polymer chains: 1
• Total formula weight: 6477.92

Authors

Pappalardo, L.,Kerwood, D.J.,Pelczer, I.,Borer, P.N. (deposition date: 1998-07-31, release date: 1999-04-27, Last modification date: 2024-05-22)

Primary citation

Pappalardo, L.,Kerwood, D.J.,Pelczer, I.,Borer, P.N.
Three-dimensional folding of an RNA hairpin required for packaging HIV-1.
J.Mol.Biol., 282:801-818, 1998

PubMed 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.

PubMed: 9743628
DOI: 10.1006/jmbi.1998.2046

Experimental method

SOLUTION NMR