1TQE

Mechanism of recruitment of class II histone deacetylases by myocyte enhancer factor-2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.263 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Mechanism of Recruitment of Class II Histone Deacetylases by Myocyte Enhancer Factor-2.

Han, A.He, J.Wu, Y.Liu, J.O.Chen, L.

(2005) J.Mol.Biol. 345: 91-102

  • DOI: 10.1016/j.jmb.2004.10.033

  • PubMed Abstract: 
  • Class II histone deacetylases (HDACs) bind myocyte enhancer factor-2 (MEF2) and repress specific gene expression in a calcium-dependent manner. Despite their significant physiological functions in muscle, immune and neuronal cells, the mechanism of r ...

    Class II histone deacetylases (HDACs) bind myocyte enhancer factor-2 (MEF2) and repress specific gene expression in a calcium-dependent manner. Despite their significant physiological functions in muscle, immune and neuronal cells, the mechanism of recruitment of class II HDACs by MEF2 is not well understood. Here, we have characterized the complex between the MEF2-binding motif of class II HDACs and the MADS-box/MEF2S domain of MEF2B by structural and biochemical methods. The crystal structure of a HDAC9/MEF2/DNA complex reveals that HDAC9 binds to a hydrophobic groove of the MEF2 dimer. The overall binding mode is similar to that seen in the Cabin1/MEF2/DNA complex. The detailed binding interactions at the HDAC9/MEF2 interface, however, show marked differences from those at the Cabin1/MEF2 interface. Our studies suggest a general mechanism by which class II HDACs and possibly other transcriptional co-regulators are recruited by MEF2. On the other hand, the differential binding between MEF2 and its various partners may confer specific regulatory and functional properties to MEF2 in distinct cellular processes. Such specificity provides a basis for selectively disrupting a particular MEF2/co-regulator complex by mutations or small molecules.


    Organizational Affiliation

    Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO 80309-0215, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Myocyte-specific enhancer factor 2B
P, Q, R, S
93Homo sapiensMutation(s): 0 
Gene Names: MEF2B (XMEF2)
Find proteins for Q02080 (Homo sapiens)
Go to Gene View: MEF2B
Go to UniProtKB:  Q02080
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Histone deacetylase 9
X, Y
26Mus musculusMutation(s): 0 
Gene Names: Hdac9 (Hdac7b, Hdrp, Mitr)
EC: 3.5.1.98
Find proteins for Q99N13 (Mus musculus)
Go to UniProtKB:  Q99N13
Entity ID: 1
MoleculeChainsLengthOrganism
MEF2 binding site of nur77 promoterC,E17N/A
Entity ID: 2
MoleculeChainsLengthOrganism
MEF2 binding site of nur77 promoterD,F17N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.263 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 44.797α = 76.67
b = 66.930β = 71.83
c = 66.967γ = 71.81
Software Package:
Software NamePurpose
CrystalCleardata reduction
CNSrefinement
CrystalCleardata collection
CNSphasing
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-12-21
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-11
    Type: Refinement description