3Q1J

Crystal structure of tudor domain 1 of human PHD finger protein 20


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structures of the Tudor domains of human PHF20 reveal novel structural variations on the Royal Family of proteins.

Adams-Cioaba, M.A.Li, Z.Tempel, W.Guo, Y.Bian, C.Li, Y.Lam, R.Min, J.

(2012) Febs Lett. 586: 859-865

  • DOI: 10.1016/j.febslet.2012.02.012
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The human PHD finger protein 20 (PHF20) is a putative transcription factor. While little is known about its cognate cellular role, antibodies against PHF20 are present in sera from patients with hepatocellular carcinoma, glioblastoma and childhood me ...

    The human PHD finger protein 20 (PHF20) is a putative transcription factor. While little is known about its cognate cellular role, antibodies against PHF20 are present in sera from patients with hepatocellular carcinoma, glioblastoma and childhood medulloblastula. PHF20 comprises two N-terminal Tudor domains, a central C2H2-link zinc finger domain and a C-terminal zinc-binding PHD domain, and is a component of some MLL methyltransferase complexes. Here, we report the crystal structures of the N-terminal Tudor domains of PHF20 and highlight the novel structural features of each domain. We also confirm previous studies suggesting that the second Tudor domain of PHF20 exhibits preference for dimethylated histone substrates.


    Organizational Affiliation

    Structural Genomics Consortium, University of Toronto, Toronto, Ontario, Canada.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PHD finger protein 20
A
66Homo 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
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
UNX
Query on UNX

Download SDF File 
Download CCD File 
A
UNKNOWN ATOM OR ION
X
*
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.205 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 60.498α = 90.00
b = 41.062β = 110.33
c = 28.632γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
BUSTER-TNTrefinement
DENZOdata reduction
BUSTERrefinement
PDB_EXTRACTdata extraction
PHASERphasing
SCALEPACKdata scaling
StructureStudiodata collection
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-02-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2012-05-09
    Type: Database references
  • Version 1.3: 2017-11-08
    Type: Refinement description