4CAY

Crystal structure of a human Anp32e-H2A.Z-H2B complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.168 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Anp32E is a Histone Chaperone that Removes H2A.Z from Chromatin

Obri, A.Ouararhni, K.Papin, C.Diebold, M.-L.Padmanabhan, K.Marek, M.Stoll, I.Roy, L.Reilly, P.T.Wak, T.W.Dimitrov, S.Romier, C.Hamiche, A.

(2014) Nature 648: 505

  • DOI: 10.1038/nature12922

  • PubMed Abstract: 
  • H2A.Z is an essential histone variant implicated in the regulation of key nuclear events. However, the metazoan chaperones responsible for H2A.Z deposition and its removal from chromatin remain unknown. Here we report the identification and character ...

    H2A.Z is an essential histone variant implicated in the regulation of key nuclear events. However, the metazoan chaperones responsible for H2A.Z deposition and its removal from chromatin remain unknown. Here we report the identification and characterization of the human protein ANP32E as a specific H2A.Z chaperone. We show that ANP32E is a member of the presumed H2A.Z histone-exchange complex p400/TIP60. ANP32E interacts with a short region of the docking domain of H2A.Z through a new motif termed H2A.Z interacting domain (ZID). The 1.48 Å resolution crystal structure of the complex formed between the ANP32E-ZID and the H2A.Z/H2B dimer and biochemical data support an underlying molecular mechanism for H2A.Z/H2B eviction from the nucleosome and its stabilization by ANP32E through a specific extension of the H2A.Z carboxy-terminal α-helix. Finally, analysis of H2A.Z localization in ANP32E(-/-) cells by chromatin immunoprecipitation followed by sequencing shows genome-wide enrichment, redistribution and accumulation of H2A.Z at specific chromatin control regions, in particular at enhancers and insulators.


    Organizational Affiliation

    1] Département de Génomique Fonctionnelle et Cancer, Institut de Génétique et Biologie Moléculaire et Cellulaire (IGBMC), Université de Strasbourg, CNRS, INSERM, 1 rue Laurent Fries, B.P. 10142, 67404 Illkirch Cedex, France [2].




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HISTONE H2A.Z
A
111Homo sapiensMutation(s): 0 
Gene Names: H2AFZ (H2AZ)
Find proteins for P0C0S5 (Homo sapiens)
Go to Gene View: H2AFZ
Go to UniProtKB:  P0C0S5
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
HISTONE H2B TYPE 1-J
B
97Homo sapiensMutation(s): 0 
Gene Names: HIST1H2BJ (H2BFR)
Find proteins for P06899 (Homo sapiens)
Go to Gene View: HIST1H2BJ
Go to UniProtKB:  P06899
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
ACIDIC LEUCINE-RICH NUCLEAR PHOSPHOPROTEIN 32 FAMILY MEMBER E
C
30Homo sapiensMutation(s): 0 
Gene Names: ANP32E
Find proteins for Q9BTT0 (Homo sapiens)
Go to Gene View: ANP32E
Go to UniProtKB:  Q9BTT0
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.168 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 31.816α = 90.00
b = 66.076β = 95.76
c = 45.293γ = 90.00
Software Package:
Software NamePurpose
MOLREPphasing
DENZOdata reduction
BUSTERrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-01-22
    Type: Initial release
  • Version 1.1: 2014-02-05
    Type: Database references
  • Version 1.2: 2014-03-19
    Type: Structure summary
  • Version 1.3: 2016-03-09
    Type: Structure summary
  • Version 1.4: 2016-12-14
    Type: Structure summary