1BAU

NMR STRUCTURE OF THE DIMER INITIATION COMPLEX OF HIV-1 GENOMIC RNA, MINIMIZED AVERAGE STRUCTURE


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 34 
  • Conformers Submitted: 
  • Selection Criteria: LOWEST NMR CONSTRAINT VIOLATIONS AND LOWEST AMBER ENERGY. 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of the dimer initiation complex of HIV-1 genomic RNA.

Mujeeb, A.Clever, J.L.Billeci, T.M.James, T.L.Parslow, T.G.

(1998) Nat.Struct.Mol.Biol. 5: 432-436


  • PubMed Abstract: 
  • Retroviral genomes must dimerize to be fully infectious. Dimerization is directed by a unique RNA hairpin structure with a palindrome in its loop: hairpins of two strands first associate transiently through their loops, and then refold to a more stab ...

    Retroviral genomes must dimerize to be fully infectious. Dimerization is directed by a unique RNA hairpin structure with a palindrome in its loop: hairpins of two strands first associate transiently through their loops, and then refold to a more stable, linear duplex. The structure of the initial, kissing-loop dimer from HIV-1, solved using 2D NMR, is bent and metastable, its interface being formed not only by standard basepairing between palindromes, but also by a distinctive pattern of interstrand stacking among bases at the stem-loop junctions. This creates mechanical distortions that partially melt both stems, which may facilitate spontaneous refolding of this RNA complex into linear form.


    Organizational Affiliation

    Department of Pathology, University of California at San Francisco, 94143, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
SL1 RNA DIMERA,B23N/A
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 34 
  • Conformers Submitted: 
  • Selection Criteria: LOWEST NMR CONSTRAINT VIOLATIONS AND LOWEST AMBER ENERGY. 
Software Package:
Software NamePurpose
DYANAmodel building
DYANArefinement
AMBERrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-04-27
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance