6HIP

Structure of SPF45 UHM bound to HIV-1 Rev ULM


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.175 
  • R-Value Work: 0.149 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Modulation of HIV-1 gene expression by binding of a ULM motif in the Rev protein to UHM-containing splicing factors.

Pabis, M.Corsini, L.Vincendeau, M.Tripsianes, K.Gibson, T.J.Brack-Werner, R.Sattler, M.

(2019) Nucleic Acids Res. 47: 4859-4871

  • DOI: 10.1093/nar/gkz185

  • PubMed Abstract: 
  • The HIV-1 protein Rev is essential for virus replication and ensures the expression of partially spliced and unspliced transcripts. We identified a ULM (UHM ligand motif) motif in the Arginine-Rich Motif (ARM) of the Rev protein. ULMs (UHM ligand mot ...

    The HIV-1 protein Rev is essential for virus replication and ensures the expression of partially spliced and unspliced transcripts. We identified a ULM (UHM ligand motif) motif in the Arginine-Rich Motif (ARM) of the Rev protein. ULMs (UHM ligand motif) mediate protein interactions during spliceosome assembly by binding to UHM (U2AF homology motifs) domains. Using NMR, biophysical methods and crystallography we show that the Rev ULM binds to the UHMs of U2AF65 and SPF45. The highly conserved Trp45 in the Rev ULM is crucial for UHM binding in vitro, for Rev co-precipitation with U2AF65 in human cells and for proper processing of HIV transcripts. Thus, Rev-ULM interactions with UHM splicing factors contribute to the regulation of HIV-1 transcript processing, also at the splicing level. The Rev ULM is an example of viral mimicry of host short linear motifs that enables the virus to interfere with the host molecular machinery.


    Organizational Affiliation

    EMBL Heidelberg, Heidelberg 69 117, Germany.,CEITEC - Central European Institute of Technology, Masaryk University, Brno 62 500, Czech Republic.,Center for Integrated Protein Science Munich, Department Chemie, TU München, Garching 85748, Germany.,Institute of Structural Biology, Helmholtz Zentrum München, Neuherberg 85 764, Germany.,Institute of Virology, Helmholtz Zentrum München, Neuherberg 85 764, Germany.,Research Unit Cellular Signal Integration, Helmholtz Zentrum München, Neuherberg, 85 764, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Splicing factor 45
A, B
104Homo sapiensMutation(s): 0 
Gene Names: RBM17 (SPF45)
Find proteins for Q96I25 (Homo sapiens)
Go to Gene View: RBM17
Go to UniProtKB:  Q96I25
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
HIV-1 Rev (41-49)
C
9Human immunodeficiency virus type 1 group M subtype B (isolate HXB2)Mutation(s): 0 
Gene Names: rev
Find proteins for P04618 (Human immunodeficiency virus type 1 group M subtype B (isolate HXB2))
Go to UniProtKB:  P04618
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
C
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
TRP
Query on TRP

Download SDF File 
Download CCD File 
B
TRYPTOPHAN
C11 H12 N2 O2
QIVBCDIJIAJPQS-VIFPVBQESA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.175 
  • R-Value Work: 0.149 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 48.210α = 90.00
b = 63.680β = 90.00
c = 67.630γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
PHASERphasing
REFMACrefinement
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB1035

Revision History 

  • Version 1.0: 2019-03-27
    Type: Initial release
  • Version 1.1: 2019-10-09
    Type: Data collection, Database references