Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 175.89 kDa 
• Atom Count: 9,500 
• Modelled Residue Count: 990 
• Deposited Residue Count: 1,190 
• Unique protein chains: 2
• Unique nucleic acid chains: 1

 2Y9Z

Chromatin Remodeling Factor ISW1a(del_ATPase) in DNA complex

• PDB DOI: 10.2210/pdb2Y9Z/pdb
• NDB: NA1073

• Classification: TRANSCRIPTION
• Organism(s): Saccharomyces cerevisiae
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2011-02-17 Released: 2011-04-20 
• Deposition Author(s): Yamada, K., Frouws, T.D., Angst, B., Fitzgerald, D.J., DeLuca, C., Schimmele, K., Sargent, D.F., Richmond, T.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.60 Å
• R-Value Free: 0.291 
• R-Value Work: 0.283 
• R-Value Observed: 0.283 

Literature

Structure and Mechanism of the Chromatin Remodelling Factor Isw1A

Yamada, K., Frouws, T.D., Angst, B., Fitzgerald, D.J., Deluca, C., Schimmele, K., Sargent, D.F., Richmond, T.J.

(2011) Nature 472: 448

• PubMed: 21525927 
• DOI: 10.1038/nature09947
• Primary Citation of Related Structures:  
  2Y9Y, 2Y9Z


• PubMed Abstract: 
  

Site-specific recognition of DNA in eukaryotic organisms depends on the arrangement of nucleosomes in chromatin. In the yeast Saccharomyces cerevisiae, ISW1a and related chromatin remodelling factors are implicated in establishing the nucleosome repeat during replication and altering nucleosome position to affect gene activity. Here we have solved the crystal structures of S. cerevisiae ISW1a lacking its ATPase domain both alone and with DNA bound at resolutions of 3.25 Å and 3.60 Å, respectively, and we have visualized two different nucleosome-containing remodelling complexes using cryo-electron microscopy. The composite X-ray and electron microscopy structures combined with site-directed photocrosslinking analyses of these complexes suggest that ISW1a uses a dinucleosome substrate for chromatin remodelling. Results from a remodelling assay corroborate the dinucleosome model. We show how a chromatin remodelling factor could set the spacing between two adjacent nucleosomes acting as a 'protein ruler'.

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Organizational Affiliation: 

ETH Zürich, Institute of Molecular Biology and Biophysics, Schafmattstr. 20, CH-8093 Zürich, Switzerland.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
IMITATION SWITCH PROTEIN 1 (DEL_ATPASE)	A	374	Saccharomyces cerevisiae	Mutation(s): 0  EC: 3.6.4
UniProt
Find proteins for P38144 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P38144  Go to UniProtKB:  P38144

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ISWI ONE COMPLEX PROTEIN 3	B	624	Saccharomyces cerevisiae	Mutation(s): 0
UniProt
Find proteins for P43596 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P43596  Go to UniProtKB:  P43596

Entity ID: 3
Molecule	Chains	Length	Organism	Image
I-DNA/E-DNA	C, D, E, F	48	Saccharomyces cerevisiae

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.60 Å
• R-Value Free: 0.291 
• R-Value Work: 0.283 
• R-Value Observed: 0.283 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 284.028	α = 90
b = 284.028	β = 90
c = 193.423	γ = 120

Software Package:

Software Name	Purpose
XDS	data reduction
SCALA	data scaling
HKL2MAP	phasing
SHARP	phasing
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-04-20 
Deposition Author(s): Yamada, K., Frouws, T.D., Angst, B., Fitzgerald, D.J., DeLuca, C., Schimmele, K., Sargent, D.F., Richmond, T.J.

Revision History  

• Version 1.0: 2011-04-20
  Type: Initial release
  
• Version 1.1: 2012-03-28
  Changes: Database references, Version format compliance