Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 9.30 kDa 
• Atom Count: 649 
• Modelled Residue Count: 79 
• Deposited Residue Count: 79 
• Unique protein chains: 2

2L2L

Solution structure of the coiled-coil complex between MBD2 and p66alpha

• PDB DOI: 10.2210/pdb2L2L/pdb
• BMRB: 17138

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-08-20 Released: 2011-05-04 
• Deposition Author(s): Williams Jr., D.C., Scarsdale Jr., N.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

p66Alpha-MBD2 coiled-coil interaction and recruitment of Mi-2 are critical for globin gene silencing by the MBD2-NuRD complex.

Gnanapragasam, M.N., Scarsdale, J.N., Amaya, M.L., Webb, H.D., Desai, M.A., Walavalkar, N.M., Wang, S.Z., Zu Zhu, S., Ginder, G.D., Williams, D.C.

(2011) Proc Natl Acad Sci U S A 108: 7487-7492

• PubMed: 21490301 
• DOI: 10.1073/pnas.1015341108
• Primary Citation of Related Structures:  
  2L2L


• PubMed Abstract: 
  

Nucleosome remodeling complexes comprise several large families of chromatin modifiers that integrate multiple epigenetic control signals to play key roles in cell type-specific transcription regulation. We previously isolated a methyl-binding domain protein 2 (MBD2)-containing nucleosome remodeling and deacetylation (NuRD) complex from primary erythroid cells and showed that MBD2 contributes to DNA methylation-dependent embryonic and fetal β-type globin gene silencing during development in vivo. Here we present structural and biophysical details of the coiled-coil interaction between MBD2 and p66α, a critical component of the MBD2-NuRD complex. We show that enforced expression of the isolated p66α coiled-coil domain relieves MBD2-mediated globin gene silencing and that the expressed peptide interacts only with a subset of components of the MBD2-NuRD complex that does not include native p66α or Mi-2. These results demonstrate the central importance of the coiled-coil interaction and suggest that MBD2-dependent DNA methylation-driven gene silencing can be disrupted by selectively targeting this coiled-coil complex.

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Organizational Affiliation: 

Department of Human and Molecular Genetics, Institute of Structural Biology and Drug Design, Center for the Study of Biological Complexity, and Massey Cancer Center, Virginia Commonwealth University, Richmond, VA 23298, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional repressor p66-alpha	A	43	Homo sapiens	Mutation(s): 0  Gene Names: GATAD2A
UniProt & NIH Common Fund Data Resources
Find proteins for Q86YP4 (Homo sapiens) Explore Q86YP4  Go to UniProtKB:  Q86YP4
PHAROS:  Q86YP4 GTEx:  ENSG00000167491

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Methyl-CpG-binding domain protein 2	B	36	Homo sapiens	Mutation(s): 0  Gene Names: MBD2
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UBB5 (Homo sapiens) Explore Q9UBB5  Go to UniProtKB:  Q9UBB5
PHAROS:  Q9UBB5 GTEx:  ENSG00000134046

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2L2L Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-08-20 
• Released Date: 2011-05-04 
Deposition Author(s): Williams Jr., D.C., Scarsdale Jr., N.

Revision History  

• Version 1.0: 2011-05-04
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2011-08-24
  Changes: Database references
• Version 1.3: 2020-02-05
  Changes: Data collection, Database references, Other