Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A2B1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 34.21 kDa 
• Atom Count: 2501 
• Residue Count: 237 
• Unique protein chains: 2
• Unique nucleic acid chains: 2

1N6J

Structural basis of sequence-specific recruitment of histone deacetylases by Myocyte Enhancer Factor-2

• DOI: 10.2210/pdb1N6J/pdb
• NDB: PD0363

• Classification: TRANSCRIPTION/DNA
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-11-11 Released: 2003-11-11 
• Deposition Author(s): Han, A., Pan, F., Stroud, J.C., Youn, H.D., Liu, J.O., Chen, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.268 
• R-Value Work: 0.243 
• R-Value Observed: 0.243 

Literature

Sequence-specific recruitment of transcriptional co-repressor Cabin1 by myocyte enhancer factor-2

Han, A., Pan, F., Stroud, J.C., Youn, H.D., Liu, J.O., Chen, L.

(2003) Nature 422: 730-734

• PubMed: 12700764 
• DOI: 10.1038/nature01555
• Structures With Same Primary Citation


• PubMed Abstract: 
  

The myocyte enhancer factor-2 (MEF2) family of transcription factors has important roles in the development and function of T cells, neuronal cells and muscle cells. MEF2 is capable of repressing or activating transcription by association with a variety of co-repressors or co-activators in a calcium-dependent manner. Transcriptional repression by MEF2 has attracted particular attention because of its potential role in hypertrophic responses of cardiomyocytes. Several MEF2 co-repressors, such as Cabin1/Cain and class II histone deacetylases (HDACs), have been identified. However, the molecular mechanism of their recruitment to specific promoters by MEF2 remains largely unknown. Here we report a crystal structure of the MADS-box/MEF2S domain of human MEF2B bound to a motif of the transcriptional co-repressor Cabin1 and DNA at 2.2 A resolution. The crystal structure reveals a stably folded MEF2S domain on the surface of the MADS box. Cabin1 adopts an amphipathic alpha-helix to bind a hydrophobic groove on the MEF2S domain, forming a triple-helical interaction. Our studies of the ternary Cabin1/MEF2/DNA complex show a general mechanism by which MEF2 recruits transcriptional co-repressor Cabin1 and class II HDACs to specific DNA sites.

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
Myocyte-specific enhancer factor 2B	A, B	93	Homo sapiens	Mutation(s): 0  Gene Names: MEF2B OR XMEF2, MEF2B, XMEF2
Find proteins for Q02080 (Homo sapiens) Go to UniProtKB:  Q02080
NIH Common Fund Data Resources
PHAROS  Q02080 GTEx  ENSG00000213999

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
Calcineurin-binding protein Cabin 1	G	35	Homo sapiens	Mutation(s): 0  Gene Names: CABIN1 OR KIAA0330, CABIN1, KIAA0330
Find proteins for Q9Y6J0 (Homo sapiens) Go to UniProtKB:  Q9Y6J0
NIH Common Fund Data Resources
PHAROS  Q9Y6J0 GTEx  ENSG00000099991

Entity ID: 1
Molecule	Chains	Length	Organism
5'-D(*AP*GP*CP*TP*AP*TP*TP*TP*AP*TP*AP*AP*GP*C)-3'	C	14	N/A

Entity ID: 2
Molecule	Chains	Length	Organism
5'-D(*GP*CP*TP*TP*AP*TP*AP*AP*AP*TP*AP*GP*CP*T)-3'	D	14	N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.268 
• R-Value Work: 0.243 
• R-Value Observed: 0.243 
• Space Group: P 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.14	α = 90
b = 70.14	β = 90
c = 151.88	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-11-11 
• Released Date: 2003-11-11 
Deposition Author(s): Han, A., Pan, F., Stroud, J.C., Youn, H.D., Liu, J.O., Chen, L.

Revision History 

• Version 1.0: 2003-11-11
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2015-09-09
  Changes: Version format compliance