3P57

Crystal structure of the p300 TAZ2 domain bound to MEF2 on DNA

• PDB DOI:  https://doi.org/10.2210/pdb3P57/pdb
• NAKB: 3P57

• Classification: TRANSFERASE/TRANSCRIPTION ACTIVATOR/DNA
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-10-08 Released: 2011-08-10 
• Deposition Author(s): He, J., Ye, J., Riquelme, C., Liu, J.O.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 0.272 
• R-Value Work: 0.219 
• R-Value Observed: 0.225 

Literature

Structure of p300 bound to MEF2 on DNA reveals a mechanism of enhanceosome assembly.

He, J., Ye, J., Cai, Y., Riquelme, C., Liu, J.O., Liu, X., Han, A., Chen, L.

(2011) Nucleic Acids Res 39: 4464-4474

• PubMed: 21278418 
• DOI: https://doi.org/10.1093/nar/gkr030
• Primary Citation of Related Structures:  
  3P57


• PubMed Abstract: 
  

Transcription co-activators CBP and p300 are recruited by sequence-specific transcription factors to specific genomic loci to control gene expression. A highly conserved domain in CBP/p300, the TAZ2 domain, mediates direct interaction with a variety of transcription factors including the myocyte enhancer factor 2 (MEF2). Here we report the crystal structure of a ternary complex of the p300 TAZ2 domain bound to MEF2 on DNA at 2.2Å resolution. The structure reveals three MEF2:DNA complexes binding to different sites of the TAZ2 domain. Using structure-guided mutations and a mammalian two-hybrid assay, we show that all three interfaces contribute to the binding of MEF2 to p300, suggesting that p300 may use one of the three interfaces to interact with MEF2 in different cellular contexts and that one p300 can bind three MEF2:DNA complexes simultaneously. These studies, together with previously characterized TAZ2 complexes bound to different transcription factors, demonstrate the potency and versatility of TAZ2 in protein-protein interactions. Our results also support a model wherein p300 promotes the assembly of a higher-order enhanceosome by simultaneous interactions with multiple DNA-bound transcription factors.

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Organizational Affiliation: 

MOE Key Laboratory for Cell Biology, School of Life Sciences, Xiamen University, Xiamen, Fujian 361005, China.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 7-mer - A6B1 

Local Symmetry: Cyclic - C2  (3D View)
Local Stoichiometry: Homo 2-mer - A2 Local Symmetry: Cyclic - C2  (3D View)
Local Stoichiometry: Homo 2-mer - A2 Local Symmetry: Cyclic - C2  (3D View)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 104.44 kDa 
• Atom Count: 7,346 
• Modelled Residue Count: 733 
• Deposited Residue Count: 742 
• Unique protein chains: 2
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Myocyte-specific enhancer factor 2A	A, B, C, D, E [auth I], F [auth J]	90	Homo sapiens	Mutation(s): 0  Gene Names: MEF2, MEF2A
UniProt & NIH Common Fund Data Resources
Find proteins for Q02078 (Homo sapiens) Explore Q02078  Go to UniProtKB:  Q02078
PHAROS:  Q02078

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone acetyltransferase p300	M [auth P]	112	Homo sapiens	Mutation(s): 0  Gene Names: EP300, P300 EC: 2.3.1.48 (PDB Primary Data), 2.3.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q09472 (Homo sapiens) Explore Q09472  Go to UniProtKB:  Q09472
PHAROS:  Q09472

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*A*AP*AP*CP*TP*AP*TP*TP*TP*AP*TP*AP*AP*GP*A)-3')	G [auth E], I [auth G], K	15	synthetic construct

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*TP*TP*CP*TP*TP*AP*TP*AP*AP*AP*TP*AP*GP*TP*T)-3')	H [auth F], J [auth H], L	15	synthetic construct

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	N [auth P], O [auth P], P	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 0.272 
• R-Value Work: 0.219 
• R-Value Observed: 0.225 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.846	α = 90
b = 90.926	β = 90
c = 144.802	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
CNS	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-08-10 
Deposition Author(s): He, J., Ye, J., Riquelme, C., Liu, J.O.

Revision History  

• Version 1.0: 2011-08-10
  Type: Initial release
  
• Version 1.1: 2017-11-08
  Changes: Refinement description
• Version 1.2: 2019-07-17
  Changes: Data collection, Refinement description, Source and taxonomy
• Version 1.3: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description