4PPE

human RNF4 RING domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.230 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

RNF4 interacts with both SUMO and nucleosomes to promote the DNA damage response.

Groocock, L.M.Nie, M.Prudden, J.Moiani, D.Wang, T.Cheltsov, A.Rambo, R.P.Arvai, A.S.Hitomi, C.Tainer, J.A.Luger, K.Perry, J.J.Lazzerini-Denchi, E.Boddy, M.N.

(2014) Embo Rep. 15: 601-608

  • DOI: 10.1002/embr.201338369

  • PubMed Abstract: 
  • The post-translational modification of DNA repair and checkpoint proteins by ubiquitin and small ubiquitin-like modifier (SUMO) critically orchestrates the DNA damage response (DDR). The ubiquitin ligase RNF4 integrates signaling by SUMO and ubiquiti ...

    The post-translational modification of DNA repair and checkpoint proteins by ubiquitin and small ubiquitin-like modifier (SUMO) critically orchestrates the DNA damage response (DDR). The ubiquitin ligase RNF4 integrates signaling by SUMO and ubiquitin, through its selective recognition and ubiquitination of SUMO-modified proteins. Here, we define a key new determinant for target discrimination by RNF4, in addition to interaction with SUMO. We identify a nucleosome-targeting motif within the RNF4 RING domain that can bind DNA and thereby enables RNF4 to selectively ubiquitinate nucleosomal histones. Furthermore, RNF4 nucleosome-targeting is crucially required for the repair of TRF2-depleted dysfunctional telomeres by 53BP1-mediated non-homologous end joining.


    Organizational Affiliation

    Department of Cell and Molecular Biology, The Scripps Research Institute, La Jolla, CA, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
E3 ubiquitin-protein ligase RNF4
A, B
76Homo sapiensMutation(s): 0 
Gene Names: RNF4 (SNURF)
EC: 2.3.2.27
Find proteins for P78317 (Homo sapiens)
Go to Gene View: RNF4
Go to UniProtKB:  P78317
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.230 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 59.938α = 90.00
b = 86.987β = 90.00
c = 22.869γ = 90.00
Software Package:
Software NamePurpose
PHENIXphasing
HKL-2000data collection
PHENIXmodel building
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-03-26
    Type: Initial release
  • Version 1.1: 2015-02-25
    Type: Database references