5B78

Crystal structure of MOZ double PHD finger mutant-S210D/N235R in complex with histone H3 crotonylation at K14


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.169 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Selective recognition of histone crotonylation by double PHD fingers of MOZ and DPF2

Xiong, X.Panchenko, T.Yang, S.Zhao, S.Yan, P.Zhang, W.Xie, W.Li, Y.Zhao, Y.Allis, C.D.Li, H.

(2016) Nat.Chem.Biol. 12: 1111-1118

  • DOI: 10.1038/nchembio.2218
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Recognition of histone covalent modifications by 'reader' modules constitutes a major mechanism for epigenetic regulation. A recent upsurge of newly discovered histone lysine acylations, such as crotonylation (Kcr), butyrylation (Kbu), and propionyla ...

    Recognition of histone covalent modifications by 'reader' modules constitutes a major mechanism for epigenetic regulation. A recent upsurge of newly discovered histone lysine acylations, such as crotonylation (Kcr), butyrylation (Kbu), and propionylation (Kpr), greatly expands the coding potential of histone lysine modifications. Here we demonstrate that the histone acetylation-binding double PHD finger (DPF) domains of human MOZ (also known as KAT6A) and DPF2 (also known as BAF45d) accommodate a wide range of histone lysine acylations with the strongest preference for Kcr. Crystal structures of the DPF domain of MOZ in complex with H3K14cr, H3K14bu, and H3K14pr peptides reveal that these non-acetyl acylations are anchored in a hydrophobic 'dead-end' pocket with selectivity for crotonylation arising from intimate encapsulation and an amide-sensing hydrogen bonding network. Immunofluorescence and chromatin immunoprecipitation (ChIP)-quantitative PCR (qPCR) showed that MOZ and H3K14cr colocalize in a DPF-dependent manner. Our studies call attention to a new regulatory mechanism centered on histone crotonylation readout by DPF family members.


    Organizational Affiliation

    MOE Key Laboratory of Protein Sciences, Beijing Advanced Innovation Center for Structural Biology, Department of Basic Medical Sciences, School of Medicine, Tsinghua University, Beijing, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Histone acetyltransferase KAT6A
A
131Homo sapiensMutation(s): 2 
Gene Names: KAT6A (MOZ, MYST3, RUNXBP2, ZNF220)
EC: 2.3.1.48
Find proteins for Q92794 (Homo sapiens)
Go to Gene View: KAT6A
Go to UniProtKB:  Q92794
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Histone H3
B
25Homo sapiensMutation(s): 0 
Gene Names: H3F3B
Find proteins for K7EMV3 (Homo sapiens)
Go to Gene View: H3F3B
Go to UniProtKB:  K7EMV3
Small Molecules
Ligands 1 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
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
KCR
Query on KCR
B
L-peptide linkingC10 H18 N2 O3LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.169 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 47.671α = 90.00
b = 48.238β = 90.00
c = 76.366γ = 90.00
Software Package:
Software NamePurpose
Cootmodel building
PHASERphasing
PHENIXrefinement
HKL-2000data processing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2016-06-05 
  • Released Date: 2016-10-26 
  • Deposition Author(s): Li, H., Xiong, X.

Revision History 

  • Version 1.0: 2016-10-26
    Type: Initial release
  • Version 1.1: 2016-11-30
    Type: Database references