2WBS

Crystal structure of the zinc finger domain of Klf4 bound to its target DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.200 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The Structure of the Klf4 DNA-Binding Domain Links to Self-Renewal and Macrophage Differentiation.

Schuetz, A.Nana, D.Rose, C.Zocher, G.Milanovic, M.Koenigsmann, J.Blasig, R.Heinemann, U.Carstanjen, D.

(2011) Cell.Mol.Life Sci. 68: 3121

  • DOI: 10.1007/s00018-010-0618-x
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Krueppel-like factor 4 (Klf4) belongs to the Sp/Klf family of zinc-finger transcription factors and is indispensable for terminal maturation of epithelial tissues. Furthermore, it is part of a small set of proteins that are used to generate pluripote ...

    Krueppel-like factor 4 (Klf4) belongs to the Sp/Klf family of zinc-finger transcription factors and is indispensable for terminal maturation of epithelial tissues. Furthermore, it is part of a small set of proteins that are used to generate pluripotent embryonic stem cells from differentiated tissues. Herein, we describe that a Klf4 zinc-finger domain mutant induces self-renewal and block of maturation, while wild-type Klf4 induces terminal macrophage differentiation. Moreover, we present the crystal structure of the zinc-finger domain of Klf4 bound to its target DNA, revealing that primarily the two C-terminal zinc-finger motifs are required for site specificity. Lack of those two zinc fingers leads to deficiency of Klf4 to induce macrophage differentiation. The first zinc finger, on the other hand, inhibits the otherwise cryptic self-renewal and block of differentiation activity of Klf4. Our data show that impairing the DNA binding could potentially contribute to a monocytic leukemia.


    Organizational Affiliation

    Protein Sample Production Facility, Max-Delbrück-Centrum für Molekulare Medizin, Robert-Rössle-Str. 10, 13125 Berlin, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
KRUEPPEL-LIKE FACTOR 4
A
89Mus musculusMutation(s): 0 
Gene Names: Klf4 (Ezf, Gklf, Zie)
Find proteins for Q60793 (Mus musculus)
Go to UniProtKB:  Q60793
Entity ID: 2
MoleculeChainsLengthOrganism
5'-D(*GP*AP*GP*GP*CP*GP*CP)-3'F7Mus musculus
Entity ID: 3
MoleculeChainsLengthOrganism
5'-D(*GP*CP*GP*CP*CP*TP*CP)-3'G7Mus musculus
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.200 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 41.000α = 90.00
b = 45.970β = 90.00
c = 73.910γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
REFMACrefinement
SHELXphasing
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-04-07
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance
  • Version 1.2: 2011-10-05
    Type: Database references, Source and taxonomy