3LPH

Crystal structure of the HIV-1 Rev dimer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.226 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis for cooperative RNA binding and export complex assembly by HIV Rev.

Daugherty, M.D.Liu, B.Frankel, A.D.

(2010) Nat.Struct.Mol.Biol. 17: 1337-1342

  • DOI: 10.1038/nsmb.1902

  • PubMed Abstract: 
  • HIV replication requires nuclear export of unspliced viral RNAs to translate structural proteins and package genomic RNA. Export is mediated by cooperative binding of the Rev protein to the Rev response element (RRE) RNA, to form a highly specific ol ...

    HIV replication requires nuclear export of unspliced viral RNAs to translate structural proteins and package genomic RNA. Export is mediated by cooperative binding of the Rev protein to the Rev response element (RRE) RNA, to form a highly specific oligomeric ribonucleoprotein (RNP) that binds to the Crm1 host export factor. To understand how protein oligomerization generates cooperativity and specificity for RRE binding, we solved the crystal structure of a Rev dimer at 2.5-Å resolution. The dimer arrangement organizes arginine-rich helices at the ends of a V-shaped assembly to bind adjacent RNA sites and structurally couple dimerization and RNA recognition. A second protein-protein interface arranges higher-order Rev oligomers to act as an adaptor to the host export machinery, with viral RNA bound to one face and Crm1 to another, the oligomers thereby using small, interconnected modules to physically arrange the RNP for efficient export.


    Organizational Affiliation

    Chemistry and Chemical Biology Graduate Program, University of California, San Francisco, San Francisco, California, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein Rev
A, B, C, D
72Human immunodeficiency virus type 1 group M subtype BMutation(s): 2 
Gene Names: rev
Find proteins for P69718 (Human immunodeficiency virus type 1 group M subtype B)
Go to UniProtKB:  P69718
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
MLI
Query on MLI

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Download CCD File 
A, B
MALONATE ION
C3 H2 O4
OFOBLEOULBTSOW-UHFFFAOYSA-L
 Ligand Interaction
BR
Query on BR

Download SDF File 
Download CCD File 
A, B, C, D
BROMIDE ION
Br
CPELXLSAUQHCOX-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.226 
  • Space Group: P 64 2 2
Unit Cell:
Length (Å)Angle (°)
a = 115.801α = 90.00
b = 115.801β = 90.00
c = 81.163γ = 120.00
Software Package:
Software NamePurpose
Blu-Icedata collection
HKL-2000data scaling
DENZOdata reduction
HKL-2000data reduction
SCALEPACKdata scaling
SOLVEphasing
RESOLVEphasing
PDB_EXTRACTdata extraction
PHENIXrefinement
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2010-02-05 
  • Released Date: 2010-12-08 
  • Deposition Author(s): Daugherty, M.D.

Revision History 

  • Version 1.0: 2010-12-08
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-11-01
    Type: Refinement description