5JXT

Crystal structure of MtISWI bound with histone H4 tail


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.009 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.218 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure and regulation of the chromatin remodeller ISWI

Yan, L.Wang, L.Tian, Y.Xia, X.Chen, Z.

(2016) Nature 540: 466-469

  • DOI: 10.1038/nature20590
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • ISWI is a member of the SWI2/SNF2 family of chromatin remodellers, which also includes Snf2, Chd1, and Ino80. ISWI is the catalytic subunit of several chromatin remodelling complexes, which mobilize nucleosomes along genomic DNA, promoting replicatio ...

    ISWI is a member of the SWI2/SNF2 family of chromatin remodellers, which also includes Snf2, Chd1, and Ino80. ISWI is the catalytic subunit of several chromatin remodelling complexes, which mobilize nucleosomes along genomic DNA, promoting replication progression, transcription repression, heterochromatin formation, and many other nuclear processes. The ATPase motor of ISWI is an autonomous remodelling machine, whereas its carboxy (C)-terminal HAND-SAND-SLIDE (HSS) domain functions in binding extranucleosomal linker DNA. The activity of the catalytic core of ISWI is inhibited by the regulatory AutoN and NegC domains, which are in turn antagonized by the H4 tail and extranucleosomal DNA, respectively, to ensure the appropriate chromatin landscape in cells. How AutoN and NegC inhibit ISWI and regulate its nucleosome-centring activity remains elusive. Here we report the crystal structures of ISWI from the thermophilic yeast Myceliophthora thermophila and its complex with a histone H4 peptide. Our data show the amino (N)-terminal AutoN domain contains two inhibitory elements, which collectively bind the second RecA-like domain (core2), holding the enzyme in an inactive conformation. The H4 peptide binds to the core2 domain coincident with one of the AutoN-binding sites, explaining the ISWI activation by H4. The H4-binding surface is conserved in Snf2 and functions beyond AutoN regulation. The C-terminal NegC domain is involved in binding to the core2 domain and functions as an allosteric element for ISWI to respond to the extranucleosomal DNA length.


    Organizational Affiliation

    MOE Key Laboratory of Protein Science, Tsinghua University, Beijing, 100084, China.,School of Life Science, Tsinghua University, Beijing, 100084, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Chromatin-remodeling complex ATPase-like protein
B, E, F, G, J, N, O, P, C, H, K, L, A, I, D, M
349Myceliophthora thermophila (strain ATCC 42464 / BCRC 31852 / DSM 1799)Mutation(s): 0 
Find proteins for G2QFM3 (Myceliophthora thermophila (strain ATCC 42464 / BCRC 31852 / DSM 1799))
Go to UniProtKB:  G2QFM3
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Histone H4
R, S, U, Q, T, V, W
21Saitoella complicata (strain BCRC 22490 / CBS 7301 / JCM 7358 / NBRC 10748 / NRRL Y-17804)Mutation(s): 0 
Find proteins for A0A0E9NAT8 (Saitoella complicata (strain BCRC 22490 / CBS 7301 / JCM 7358 / NBRC 10748 / NRRL Y-17804))
Go to UniProtKB:  A0A0E9NAT8
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.009 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.218 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 102.240α = 89.59
b = 119.316β = 105.96
c = 132.495γ = 93.08
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
PHASERphasing
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2016-05-13 
  • Released Date: 2016-12-07 
  • Deposition Author(s): Chen, Z., Yan, L.

Revision History 

  • Version 1.0: 2016-12-07
    Type: Initial release
  • Version 1.1: 2017-01-25
    Type: Database references
  • Version 1.2: 2017-02-01
    Type: Derived calculations