5G2E

Structure of the Nap1 H2A H2B complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 6.7 Å
  • R-Value Free: 0.310 
  • R-Value Work: 0.263 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural Evidence for Nap1-Dependent H2A-H2B Deposition and Nucleosome Assembly.

Aguilar-Gurrieri, C.Larabi, A.Vinayachandran, V.Patel, N.A.Yen, K.Reja, R.Ebong, I.Schoehn, G.Robinson, C.V.Pugh, B.F.Panne, D.

(2016) Embo J. 35: 1465

  • DOI: 10.15252/embj.201694105

  • PubMed Abstract: 
  • Nap1 is a histone chaperone involved in the nuclear import of H2A-H2B and nucleosome assembly. Here, we report the crystal structure of Nap1 bound to H2A-H2B together with in vitro and in vivo functional studies that elucidate the principles underlyi ...

    Nap1 is a histone chaperone involved in the nuclear import of H2A-H2B and nucleosome assembly. Here, we report the crystal structure of Nap1 bound to H2A-H2B together with in vitro and in vivo functional studies that elucidate the principles underlying Nap1-mediated H2A-H2B chaperoning and nucleosome assembly. A Nap1 dimer provides an acidic binding surface and asymmetrically engages a single H2A-H2B heterodimer. Oligomerization of the Nap1-H2A-H2B complex results in burial of surfaces required for deposition of H2A-H2B into nucleosomes. Chromatin immunoprecipitation-exonuclease (ChIP-exo) analysis shows that Nap1 is required for H2A-H2B deposition across the genome. Mutants that interfere with Nap1 oligomerization exhibit severe nucleosome assembly defects showing that oligomerization is essential for the chaperone function. These findings establish the molecular basis for Nap1-mediated H2A-H2B deposition and nucleosome assembly.


    Organizational Affiliation

    European Molecular Biology Laboratory, Grenoble, France Unit for Virus Host-Cell Interactions, Univ. Grenoble Alpes-EMBL-CNRS, Grenoble, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NUCLEOSOME ASSEMBLY PROTEIN
A, B, E, F, I, J, M, N, Q, R, U, V
310Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: NAP1
Find proteins for P25293 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P25293
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
HISTONE H2A TYPE 1
C, G, K, O, S, W
107Xenopus laevisN/A
Find proteins for P06897 (Xenopus laevis)
Go to UniProtKB:  P06897
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
HISTONE H2B 1.1
D, H, L, P, T, X
100Xenopus laevisN/A
Find proteins for P02281 (Xenopus laevis)
Go to UniProtKB:  P02281
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 6.7 Å
  • R-Value Free: 0.310 
  • R-Value Work: 0.263 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 111.470α = 90.00
b = 211.130β = 99.72
c = 126.570γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
CNSrefinement
XDSdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-08-03
    Type: Initial release