3SD4

Crystal structure of the first Tudor domain of human PHF20


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.928 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.229 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

PHF20 is an effector protein of p53 double lysine methylation that stabilizes and activates p53.

Cui, G.Park, S.Badeaux, A.I.Kim, D.Lee, J.Thompson, J.R.Yan, F.Kaneko, S.Yuan, Z.Botuyan, M.V.Bedford, M.T.Cheng, J.Q.Mer, G.

(2012) Nat.Struct.Mol.Biol. 19: 916-924

  • DOI: 10.1038/nsmb.2353
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • PHF20 is a multidomain protein and subunit of a lysine acetyltransferase complex that acetylates histone H4 and p53 but whose function is unclear. Using biochemical, biophysical and cellular approaches, we determined that PHF20 is a direct regulator ...

    PHF20 is a multidomain protein and subunit of a lysine acetyltransferase complex that acetylates histone H4 and p53 but whose function is unclear. Using biochemical, biophysical and cellular approaches, we determined that PHF20 is a direct regulator of p53. A Tudor domain in PHF20 recognized p53 dimethylated at Lys370 or Lys382 and a homodimeric form of this Tudor domain could associate with the two dimethylated sites on p53 with enhanced affinity, indicating a multivalent interaction. Association with PHF20 promotes stabilization and activation of p53 by diminishing Mdm2-mediated p53 ubiquitylation and degradation. PHF20 contributes to upregulation of p53 in response to DNA damage, and ectopic expression of PHF20 in different cell lines leads to phenotypic changes that are hallmarks of p53 activation. Overall our work establishes that PHF20 functions as an effector of p53 methylation that stabilizes and activates p53.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, Mayo Clinic, Rochester, Minnesota, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PHD finger protein 20
A, B
69Homo sapiensMutation(s): 0 
Gene Names: PHF20 (C20orf104, GLEA2, HCA58, NZF, TZP)
Find proteins for Q9BVI0 (Homo sapiens)
Go to Gene View: PHF20
Go to UniProtKB:  Q9BVI0
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.928 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.229 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 37.746α = 90.00
b = 60.761β = 112.82
c = 37.750γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
CrystalCleardata collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-06-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2012-08-15
    Type: Database references
  • Version 1.3: 2012-09-26
    Type: Database references