5DHY

HIV-1 Rev NTD dimers with variable crossing angles


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.291 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The Structure of HIV-1 Rev Filaments Suggests a Bilateral Model for Rev-RRE Assembly.

DiMattia, M.A.Watts, N.R.Cheng, N.Huang, R.Heymann, J.B.Grimes, J.M.Wingfield, P.T.Stuart, D.I.Steven, A.C.

(2016) Structure 24: 1068-1080

  • DOI: 10.1016/j.str.2016.04.015
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • HIV-1 Rev protein mediates the nuclear export of viral RNA genomes. To do so, Rev oligomerizes cooperatively onto an RNA motif, the Rev response element (RRE), forming a complex that engages with the host nuclear export machinery. To better understan ...

    HIV-1 Rev protein mediates the nuclear export of viral RNA genomes. To do so, Rev oligomerizes cooperatively onto an RNA motif, the Rev response element (RRE), forming a complex that engages with the host nuclear export machinery. To better understand Rev oligomerization, we determined four crystal structures of Rev N-terminal domain dimers, which show that they can pivot about their dyad axis, giving crossing angles of 90° to 140°. In parallel, we performed cryoelectron microscopy of helical Rev filaments. Filaments vary from 11 to 15 nm in width, reflecting variations in dimer crossing angle. These structures contain additional density, indicating that C-terminal domains become partially ordered in the context of filaments. This conformational variability may be exploited in the assembly of RRE/Rev complexes. Our data also revealed a third interface between Revs, which offers an explanation for how the arrangement of Rev subunits adapts to the "A"-shaped architecture of the RRE in export-active complexes.


    Organizational Affiliation

    Laboratory of Structural Biology Research, National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institutes of Health, Bethesda, MD 20892, USA; Division of Structural Biology, Henry Wellcome Building for Genomic Medicine, University of Oxford, Roosevelt Drive, Headington OX3 7BN, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Anti-Rev Antibody Fab single-chain variable fragment, heavy chain
A, H
117N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Anti-Rev Antibody Fab single-chain variable fragment, light chain
B, L
110N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Protein Rev
C, M
65Human immunodeficiency virus type 1 group M subtype BMutation(s): 0 
Gene Names: rev
Find proteins for P04616 (Human immunodeficiency virus type 1 group M subtype B)
Go to UniProtKB:  P04616
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.291 
  • Space Group: I 4
Unit Cell:
Length (Å)Angle (°)
a = 121.140α = 90.00
b = 121.140β = 90.00
c = 89.270γ = 90.00
Software Package:
Software NamePurpose
BUSTERrefinement
SCALAdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of HealthUnited States--
Medical Research Council (United Kingdom)United KingdomG100099
SPINE2COMPLEXESUnited KingdomLSHGST-2006-031220

Revision History 

  • Version 1.0: 2016-06-22
    Type: Initial release
  • Version 1.1: 2016-07-20
    Type: Database references
  • Version 1.2: 2017-08-02
    Type: Source and taxonomy
  • Version 1.3: 2017-08-30
    Type: Author supporting evidence