2F4X image
Deposition Date 2005-11-24
Release Date 2006-02-28
Last Version Date 2024-05-29
Entry Detail
PDB ID:
2F4X
Keywords:
RNA
Title:
NMR Solution of HIV-1 Lai Kissing Complex
Biological Source:
Source Organism:
(Taxon ID: )
Method Details:
Experimental Method:
SOLUTION NMR
Conformers Calculated:
100
Conformers Submitted:
18
Selection Criteria:
structures with the least restraint violations,structures with the lowest energy
2F4X validation report
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:5'-R(P*GP*GP*UP*UP*GP*CP*UP*GP*AP*AP*GP*CP*GP*CP*GP*CP*AP*CP*GP*GP*CP*AP*AP*C)-3'
Chain IDs:A, B
Chain Length:24
Number of Molecules:2
Biological Source:
Ligand Molecules
NA
Primary Citation
A new NMR solution structure of the SL1 HIV-1Lai loop-loop dimer
Nucleic Acids Res. 34 343 352 (2006)
PMID: 16410614 DOI: 10.1093/nar/gkj427

Abstact

Dimerization of genomic RNA is directly related with the event of encapsidation and maturation of the virion. The initiating sequence of the dimerization is a short autocomplementary region in the hairpin loop SL1. We describe here a new solution structure of the RNA dimerization initiation site (DIS) of HIV-1(Lai). NMR pulsed field-gradient spin-echo techniques and multidimensional heteronuclear NMR spectroscopy indicate that this structure is formed by two hairpins linked by six Watson-Crick GC base pairs. Hinges between the stems and the loops are stabilized by intra and intermolecular interactions involving the A8, A9 and A16 adenines. The coaxial alignment of the three A-type helices present in the structure is supported by previous crystallography analysis but the A8 and A9 adenines are found in a bulged in position. These data suggest the existence of an equilibrium between bulged in and bulged out conformations in solution.

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Primary Citation of related structures
2F4X